Date: 2019-12-25 23:52:27 CET, cola version: 1.3.2
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All available functions which can be applied to this res_list object:
res_list
#> A 'ConsensusPartitionList' object with 24 methods.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows are extracted by 'SD, CV, MAD, ATC' methods.
#> Subgroups are detected by 'hclust, kmeans, skmeans, pam, mclust, NMF' method.
#> Number of partitions are tried for k = 2, 3, 4, 5, 6.
#> Performed in total 30000 partitions by row resampling.
#>
#> Following methods can be applied to this 'ConsensusPartitionList' object:
#> [1] "cola_report" "collect_classes" "collect_plots" "collect_stats"
#> [5] "colnames" "functional_enrichment" "get_anno_col" "get_anno"
#> [9] "get_classes" "get_matrix" "get_membership" "get_stats"
#> [13] "is_best_k" "is_stable_k" "ncol" "nrow"
#> [17] "rownames" "show" "suggest_best_k" "test_to_known_factors"
#> [21] "top_rows_heatmap" "top_rows_overlap"
#>
#> You can get result for a single method by, e.g. object["SD", "hclust"] or object["SD:hclust"]
#> or a subset of methods by object[c("SD", "CV")], c("hclust", "kmeans")]
The call of run_all_consensus_partition_methods() was:
#> run_all_consensus_partition_methods(data = mat, mc.cores = 4)
Dimension of the input matrix:
mat = get_matrix(res_list)
dim(mat)
#> [1] 16362 231
The density distribution for each sample is visualized as in one column in the following heatmap. The clustering is based on the distance which is the Kolmogorov-Smirnov statistic between two distributions.
library(ComplexHeatmap)
densityHeatmap(mat, ylab = "value", cluster_columns = TRUE, show_column_names = FALSE,
mc.cores = 4)
Folowing table shows the best k (number of partitions) for each combination
of top-value methods and partition methods. Clicking on the method name in
the table goes to the section for a single combination of methods.
The cola vignette explains the definition of the metrics used for determining the best number of partitions.
suggest_best_k(res_list)
| The best k | 1-PAC | Mean silhouette | Concordance | Optional k | ||
|---|---|---|---|---|---|---|
| ATC:pam | 2 | 1.000 | 0.954 | 0.980 | ** | |
| ATC:mclust | 2 | 0.990 | 0.958 | 0.976 | ** | |
| CV:mclust | 2 | 0.981 | 0.955 | 0.979 | ** | |
| MAD:NMF | 3 | 0.950 | 0.922 | 0.970 | ** | |
| CV:skmeans | 4 | 0.928 | 0.904 | 0.961 | * | 2,3 |
| ATC:kmeans | 3 | 0.927 | 0.915 | 0.968 | * | |
| SD:NMF | 3 | 0.918 | 0.914 | 0.966 | * | |
| SD:skmeans | 4 | 0.907 | 0.892 | 0.956 | * | 2 |
| CV:NMF | 3 | 0.906 | 0.914 | 0.966 | * | |
| MAD:skmeans | 4 | 0.902 | 0.910 | 0.959 | * | 3 |
| ATC:skmeans | 3 | 0.901 | 0.912 | 0.961 | * | 2 |
| CV:kmeans | 3 | 0.881 | 0.914 | 0.945 | ||
| SD:pam | 4 | 0.830 | 0.843 | 0.936 | ||
| MAD:kmeans | 2 | 0.828 | 0.882 | 0.954 | ||
| MAD:pam | 4 | 0.800 | 0.826 | 0.924 | ||
| SD:kmeans | 3 | 0.781 | 0.872 | 0.933 | ||
| ATC:NMF | 2 | 0.658 | 0.829 | 0.927 | ||
| CV:pam | 3 | 0.623 | 0.768 | 0.901 | ||
| SD:mclust | 3 | 0.550 | 0.786 | 0.878 | ||
| MAD:mclust | 3 | 0.497 | 0.734 | 0.846 | ||
| MAD:hclust | 2 | 0.465 | 0.845 | 0.907 | ||
| ATC:hclust | 3 | 0.445 | 0.667 | 0.832 | ||
| SD:hclust | 2 | 0.417 | 0.835 | 0.900 | ||
| CV:hclust | 6 | 0.319 | 0.578 | 0.736 |
**: 1-PAC > 0.95, *: 1-PAC > 0.9
Cumulative distribution function curves of consensus matrix for all methods.
collect_plots(res_list, fun = plot_ecdf)
Consensus heatmaps for all methods. (What is a consensus heatmap?)
collect_plots(res_list, k = 2, fun = consensus_heatmap, mc.cores = 4)
collect_plots(res_list, k = 3, fun = consensus_heatmap, mc.cores = 4)
collect_plots(res_list, k = 4, fun = consensus_heatmap, mc.cores = 4)
collect_plots(res_list, k = 5, fun = consensus_heatmap, mc.cores = 4)
collect_plots(res_list, k = 6, fun = consensus_heatmap, mc.cores = 4)
Membership heatmaps for all methods. (What is a membership heatmap?)
collect_plots(res_list, k = 2, fun = membership_heatmap, mc.cores = 4)
collect_plots(res_list, k = 3, fun = membership_heatmap, mc.cores = 4)
collect_plots(res_list, k = 4, fun = membership_heatmap, mc.cores = 4)
collect_plots(res_list, k = 5, fun = membership_heatmap, mc.cores = 4)
collect_plots(res_list, k = 6, fun = membership_heatmap, mc.cores = 4)
Signature heatmaps for all methods. (What is a signature heatmap?)
Note in following heatmaps, rows are scaled.
collect_plots(res_list, k = 2, fun = get_signatures, mc.cores = 4)
collect_plots(res_list, k = 3, fun = get_signatures, mc.cores = 4)
collect_plots(res_list, k = 4, fun = get_signatures, mc.cores = 4)
collect_plots(res_list, k = 5, fun = get_signatures, mc.cores = 4)
collect_plots(res_list, k = 6, fun = get_signatures, mc.cores = 4)
The statistics used for measuring the stability of consensus partitioning. (How are they defined?)
get_stats(res_list, k = 2)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> SD:NMF 2 0.754 0.859 0.942 0.475 0.517 0.517
#> CV:NMF 2 0.758 0.882 0.949 0.432 0.554 0.554
#> MAD:NMF 2 0.877 0.931 0.971 0.491 0.508 0.508
#> ATC:NMF 2 0.658 0.829 0.927 0.461 0.535 0.535
#> SD:skmeans 2 1.000 0.965 0.986 0.501 0.499 0.499
#> CV:skmeans 2 0.982 0.955 0.981 0.502 0.498 0.498
#> MAD:skmeans 2 0.888 0.937 0.972 0.501 0.499 0.499
#> ATC:skmeans 2 1.000 0.987 0.995 0.502 0.499 0.499
#> SD:mclust 2 0.471 0.855 0.859 0.404 0.566 0.566
#> CV:mclust 2 0.981 0.955 0.979 0.350 0.645 0.645
#> MAD:mclust 2 0.371 0.743 0.838 0.421 0.522 0.522
#> ATC:mclust 2 0.990 0.958 0.976 0.437 0.563 0.563
#> SD:kmeans 2 0.584 0.832 0.922 0.479 0.506 0.506
#> CV:kmeans 2 0.536 0.847 0.914 0.469 0.499 0.499
#> MAD:kmeans 2 0.828 0.882 0.954 0.489 0.508 0.508
#> ATC:kmeans 2 0.552 0.899 0.946 0.483 0.504 0.504
#> SD:pam 2 0.502 0.735 0.894 0.479 0.517 0.517
#> CV:pam 2 0.544 0.809 0.903 0.408 0.622 0.622
#> MAD:pam 2 0.625 0.813 0.921 0.491 0.499 0.499
#> ATC:pam 2 1.000 0.954 0.980 0.444 0.551 0.551
#> SD:hclust 2 0.417 0.835 0.900 0.399 0.614 0.614
#> CV:hclust 2 0.237 0.469 0.702 0.398 0.806 0.806
#> MAD:hclust 2 0.465 0.845 0.907 0.399 0.614 0.614
#> ATC:hclust 2 0.333 0.721 0.835 0.415 0.579 0.579
get_stats(res_list, k = 3)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> SD:NMF 3 0.918 0.914 0.966 0.347 0.692 0.480
#> CV:NMF 3 0.906 0.914 0.966 0.476 0.634 0.429
#> MAD:NMF 3 0.950 0.922 0.970 0.300 0.724 0.517
#> ATC:NMF 3 0.707 0.807 0.916 0.284 0.653 0.456
#> SD:skmeans 3 0.885 0.906 0.962 0.313 0.765 0.564
#> CV:skmeans 3 0.903 0.930 0.969 0.308 0.779 0.584
#> MAD:skmeans 3 0.963 0.941 0.975 0.309 0.777 0.582
#> ATC:skmeans 3 0.901 0.912 0.961 0.309 0.762 0.557
#> SD:mclust 3 0.550 0.786 0.878 0.581 0.764 0.586
#> CV:mclust 3 0.787 0.847 0.930 0.886 0.573 0.392
#> MAD:mclust 3 0.497 0.734 0.846 0.507 0.757 0.560
#> ATC:mclust 3 0.853 0.934 0.964 0.506 0.777 0.604
#> SD:kmeans 3 0.781 0.872 0.933 0.311 0.735 0.530
#> CV:kmeans 3 0.881 0.914 0.945 0.227 0.599 0.385
#> MAD:kmeans 3 0.655 0.857 0.910 0.297 0.742 0.541
#> ATC:kmeans 3 0.927 0.915 0.968 0.299 0.624 0.401
#> SD:pam 3 0.673 0.763 0.886 0.252 0.750 0.566
#> CV:pam 3 0.623 0.768 0.901 0.431 0.751 0.616
#> MAD:pam 3 0.485 0.587 0.797 0.231 0.757 0.575
#> ATC:pam 3 0.791 0.891 0.953 0.386 0.635 0.439
#> SD:hclust 3 0.332 0.810 0.855 0.396 0.796 0.668
#> CV:hclust 3 0.183 0.359 0.691 0.215 0.727 0.666
#> MAD:hclust 3 0.329 0.800 0.851 0.376 0.806 0.684
#> ATC:hclust 3 0.445 0.667 0.832 0.438 0.769 0.610
get_stats(res_list, k = 4)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> SD:NMF 4 0.609 0.607 0.798 0.1377 0.819 0.544
#> CV:NMF 4 0.658 0.674 0.848 0.1483 0.865 0.648
#> MAD:NMF 4 0.626 0.661 0.822 0.1398 0.831 0.566
#> ATC:NMF 4 0.543 0.639 0.798 0.1819 0.879 0.700
#> SD:skmeans 4 0.907 0.892 0.956 0.1356 0.863 0.626
#> CV:skmeans 4 0.928 0.904 0.961 0.1343 0.871 0.644
#> MAD:skmeans 4 0.902 0.910 0.959 0.1343 0.877 0.658
#> ATC:skmeans 4 0.813 0.703 0.873 0.1087 0.893 0.704
#> SD:mclust 4 0.664 0.767 0.876 0.1090 0.862 0.638
#> CV:mclust 4 0.809 0.839 0.901 0.0773 0.844 0.597
#> MAD:mclust 4 0.595 0.724 0.841 0.0886 0.889 0.710
#> ATC:mclust 4 0.863 0.888 0.934 0.0623 0.899 0.733
#> SD:kmeans 4 0.681 0.732 0.843 0.1454 0.802 0.512
#> CV:kmeans 4 0.608 0.781 0.825 0.1875 0.778 0.502
#> MAD:kmeans 4 0.673 0.747 0.849 0.1420 0.804 0.518
#> ATC:kmeans 4 0.680 0.730 0.857 0.1577 0.804 0.529
#> SD:pam 4 0.830 0.843 0.936 0.1768 0.781 0.516
#> CV:pam 4 0.566 0.713 0.844 0.1901 0.755 0.499
#> MAD:pam 4 0.800 0.826 0.924 0.1670 0.749 0.467
#> ATC:pam 4 0.696 0.775 0.887 0.1808 0.779 0.490
#> SD:hclust 4 0.531 0.797 0.845 0.0761 0.992 0.980
#> CV:hclust 4 0.224 0.273 0.665 0.0616 0.583 0.450
#> MAD:hclust 4 0.512 0.809 0.880 0.0946 0.988 0.973
#> ATC:hclust 4 0.490 0.575 0.753 0.0918 0.862 0.682
get_stats(res_list, k = 5)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> SD:NMF 5 0.607 0.602 0.808 0.0406 0.955 0.835
#> CV:NMF 5 0.655 0.661 0.822 0.0433 0.939 0.789
#> MAD:NMF 5 0.638 0.621 0.816 0.0445 0.909 0.690
#> ATC:NMF 5 0.513 0.578 0.709 0.0417 0.829 0.539
#> SD:skmeans 5 0.719 0.625 0.786 0.0588 0.963 0.859
#> CV:skmeans 5 0.749 0.655 0.817 0.0576 0.975 0.904
#> MAD:skmeans 5 0.744 0.713 0.821 0.0586 0.918 0.702
#> ATC:skmeans 5 0.771 0.714 0.863 0.0620 0.867 0.576
#> SD:mclust 5 0.652 0.767 0.852 0.0442 0.965 0.882
#> CV:mclust 5 0.751 0.788 0.871 0.0314 0.955 0.852
#> MAD:mclust 5 0.596 0.645 0.786 0.0599 0.964 0.888
#> ATC:mclust 5 0.826 0.817 0.915 0.0490 0.949 0.841
#> SD:kmeans 5 0.666 0.576 0.774 0.0778 0.930 0.754
#> CV:kmeans 5 0.653 0.676 0.823 0.0853 0.949 0.821
#> MAD:kmeans 5 0.685 0.622 0.753 0.0787 0.932 0.753
#> ATC:kmeans 5 0.647 0.529 0.743 0.0622 0.935 0.768
#> SD:pam 5 0.717 0.710 0.837 0.0691 0.942 0.813
#> CV:pam 5 0.582 0.554 0.749 0.0836 0.866 0.604
#> MAD:pam 5 0.836 0.834 0.916 0.0548 0.956 0.853
#> ATC:pam 5 0.819 0.719 0.881 0.0605 0.930 0.750
#> SD:hclust 5 0.543 0.723 0.760 0.0656 0.993 0.982
#> CV:hclust 5 0.297 0.489 0.699 0.0657 0.629 0.485
#> MAD:hclust 5 0.532 0.727 0.803 0.0896 1.000 1.000
#> ATC:hclust 5 0.524 0.640 0.791 0.0520 0.904 0.752
get_stats(res_list, k = 6)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> SD:NMF 6 0.588 0.504 0.736 0.0400 0.958 0.838
#> CV:NMF 6 0.637 0.558 0.757 0.0482 0.926 0.729
#> MAD:NMF 6 0.585 0.492 0.738 0.0367 0.943 0.787
#> ATC:NMF 6 0.519 0.488 0.652 0.0370 0.972 0.901
#> SD:skmeans 6 0.694 0.515 0.665 0.0425 0.892 0.596
#> CV:skmeans 6 0.722 0.518 0.744 0.0364 0.913 0.673
#> MAD:skmeans 6 0.709 0.581 0.736 0.0449 0.878 0.519
#> ATC:skmeans 6 0.743 0.584 0.748 0.0434 0.879 0.542
#> SD:mclust 6 0.624 0.587 0.702 0.0475 0.945 0.812
#> CV:mclust 6 0.733 0.729 0.843 0.0503 0.932 0.763
#> MAD:mclust 6 0.608 0.616 0.703 0.0505 0.947 0.824
#> ATC:mclust 6 0.793 0.688 0.849 0.0628 0.921 0.721
#> SD:kmeans 6 0.667 0.492 0.692 0.0438 0.930 0.724
#> CV:kmeans 6 0.682 0.514 0.760 0.0491 0.969 0.886
#> MAD:kmeans 6 0.672 0.584 0.717 0.0409 0.879 0.540
#> ATC:kmeans 6 0.650 0.486 0.654 0.0463 0.900 0.637
#> SD:pam 6 0.713 0.686 0.806 0.0576 0.887 0.602
#> CV:pam 6 0.606 0.445 0.666 0.0474 0.908 0.663
#> MAD:pam 6 0.758 0.742 0.857 0.0810 0.927 0.722
#> ATC:pam 6 0.795 0.735 0.842 0.0300 0.967 0.863
#> SD:hclust 6 0.525 0.547 0.751 0.0720 0.904 0.763
#> CV:hclust 6 0.319 0.578 0.736 0.0491 0.824 0.688
#> MAD:hclust 6 0.527 0.672 0.775 0.0700 0.807 0.554
#> ATC:hclust 6 0.578 0.624 0.804 0.0332 0.996 0.987
Following heatmap plots the partition for each combination of methods and the lightness correspond to the silhouette scores for samples in each method. On top the consensus subgroup is inferred from all methods by taking the mean silhouette scores as weight.
collect_stats(res_list, k = 2)
collect_stats(res_list, k = 3)
collect_stats(res_list, k = 4)
collect_stats(res_list, k = 5)
collect_stats(res_list, k = 6)
Collect partitions from all methods:
collect_classes(res_list, k = 2)
collect_classes(res_list, k = 3)
collect_classes(res_list, k = 4)
collect_classes(res_list, k = 5)
collect_classes(res_list, k = 6)
Overlap of top rows from different top-row methods:
top_rows_overlap(res_list, top_n = 1000, method = "euler")
top_rows_overlap(res_list, top_n = 2000, method = "euler")
top_rows_overlap(res_list, top_n = 3000, method = "euler")
top_rows_overlap(res_list, top_n = 4000, method = "euler")
top_rows_overlap(res_list, top_n = 5000, method = "euler")
Also visualize the correspondance of rankings between different top-row methods:
top_rows_overlap(res_list, top_n = 1000, method = "correspondance")
top_rows_overlap(res_list, top_n = 2000, method = "correspondance")
top_rows_overlap(res_list, top_n = 3000, method = "correspondance")
top_rows_overlap(res_list, top_n = 4000, method = "correspondance")
top_rows_overlap(res_list, top_n = 5000, method = "correspondance")
Heatmaps of the top rows:
top_rows_heatmap(res_list, top_n = 1000)
top_rows_heatmap(res_list, top_n = 2000)
top_rows_heatmap(res_list, top_n = 3000)
top_rows_heatmap(res_list, top_n = 4000)
top_rows_heatmap(res_list, top_n = 5000)
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["SD", "hclust"]
# you can also extract it by
# res = res_list["SD:hclust"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'SD' method.
#> Subgroups are detected by 'hclust' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 2.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.417 0.835 0.900 0.3992 0.614 0.614
#> 3 3 0.332 0.810 0.855 0.3961 0.796 0.668
#> 4 4 0.531 0.797 0.845 0.0761 0.992 0.980
#> 5 5 0.543 0.723 0.760 0.0656 0.993 0.982
#> 6 6 0.525 0.547 0.751 0.0720 0.904 0.763
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 2
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.90933 0.000 1.000
#> SRR1026871 2 0.0000 0.90933 0.000 1.000
#> SRR1026872 2 0.0000 0.90933 0.000 1.000
#> SRR1026873 1 0.0000 0.87668 1.000 0.000
#> SRR1026874 1 0.0000 0.87668 1.000 0.000
#> SRR1026875 2 0.0000 0.90933 0.000 1.000
#> SRR1026876 2 0.0000 0.90933 0.000 1.000
#> SRR1026877 1 0.0000 0.87668 1.000 0.000
#> SRR1026878 1 0.0000 0.87668 1.000 0.000
#> SRR1026879 1 0.0000 0.87668 1.000 0.000
#> SRR1026880 1 0.0000 0.87668 1.000 0.000
#> SRR1026881 2 0.4690 0.86563 0.100 0.900
#> SRR1026882 2 0.4690 0.86563 0.100 0.900
#> SRR1026883 1 0.9248 0.64742 0.660 0.340
#> SRR1026884 1 0.9248 0.64742 0.660 0.340
#> SRR1026885 1 0.9044 0.68069 0.680 0.320
#> SRR1026886 1 0.9044 0.68069 0.680 0.320
#> SRR1026887 1 0.0376 0.87618 0.996 0.004
#> SRR1026888 1 0.0376 0.87618 0.996 0.004
#> SRR1026889 2 0.3274 0.89273 0.060 0.940
#> SRR1026890 1 0.9358 0.62568 0.648 0.352
#> SRR1026891 1 0.6247 0.85256 0.844 0.156
#> SRR1026892 1 0.6247 0.85256 0.844 0.156
#> SRR1026893 1 0.0376 0.87618 0.996 0.004
#> SRR1026894 1 0.0376 0.87618 0.996 0.004
#> SRR1026895 1 0.9358 0.62568 0.648 0.352
#> SRR1026896 1 0.9358 0.62568 0.648 0.352
#> SRR1026897 1 0.0000 0.87668 1.000 0.000
#> SRR1026898 1 0.5842 0.86157 0.860 0.140
#> SRR1026899 1 0.0000 0.87668 1.000 0.000
#> SRR1026900 2 0.4939 0.85710 0.108 0.892
#> SRR1026901 2 0.4939 0.85710 0.108 0.892
#> SRR1026902 1 0.9044 0.68069 0.680 0.320
#> SRR1026903 1 0.9044 0.68069 0.680 0.320
#> SRR1026904 1 0.8386 0.75568 0.732 0.268
#> SRR1026905 1 0.8386 0.75568 0.732 0.268
#> SRR1026906 2 0.0000 0.90933 0.000 1.000
#> SRR1026907 2 0.0000 0.90933 0.000 1.000
#> SRR1026908 2 0.0000 0.90933 0.000 1.000
#> SRR1026909 2 0.0000 0.90933 0.000 1.000
#> SRR1026910 1 0.9044 0.68069 0.680 0.320
#> SRR1026911 1 0.9044 0.68069 0.680 0.320
#> SRR1026912 1 0.0376 0.87618 0.996 0.004
#> SRR1026913 1 0.0376 0.87618 0.996 0.004
#> SRR1026914 2 0.0000 0.90933 0.000 1.000
#> SRR1026915 2 0.0000 0.90933 0.000 1.000
#> SRR1026916 2 0.0000 0.90933 0.000 1.000
#> SRR1026917 2 0.0000 0.90933 0.000 1.000
#> SRR1026918 2 0.4815 0.86220 0.104 0.896
#> SRR1026919 2 0.4815 0.86220 0.104 0.896
#> SRR1026920 2 0.4815 0.86220 0.104 0.896
#> SRR1026921 2 0.4815 0.86220 0.104 0.896
#> SRR1026922 2 0.3584 0.88807 0.068 0.932
#> SRR1026923 2 0.3584 0.88807 0.068 0.932
#> SRR1026924 1 0.9286 0.64021 0.656 0.344
#> SRR1026925 1 0.0376 0.87618 0.996 0.004
#> SRR1026926 1 0.9044 0.68069 0.680 0.320
#> SRR1026927 1 0.7299 0.82121 0.796 0.204
#> SRR1026928 2 0.4815 0.86338 0.104 0.896
#> SRR1026929 1 0.0000 0.87668 1.000 0.000
#> SRR1026930 2 0.3431 0.88953 0.064 0.936
#> SRR1026931 2 0.3431 0.88953 0.064 0.936
#> SRR1026932 2 0.0000 0.90933 0.000 1.000
#> SRR1026933 2 0.0000 0.90933 0.000 1.000
#> SRR1026934 2 0.0000 0.90933 0.000 1.000
#> SRR1026935 2 0.0000 0.90933 0.000 1.000
#> SRR1026936 1 0.9044 0.68069 0.680 0.320
#> SRR1026937 1 0.9044 0.68069 0.680 0.320
#> SRR1026938 2 0.3431 0.89096 0.064 0.936
#> SRR1026939 2 0.3431 0.89096 0.064 0.936
#> SRR1026940 1 0.5842 0.86061 0.860 0.140
#> SRR1026941 1 0.0000 0.87668 1.000 0.000
#> SRR1026942 1 0.5178 0.86894 0.884 0.116
#> SRR1026943 1 0.5178 0.86894 0.884 0.116
#> SRR1026944 1 0.1633 0.87965 0.976 0.024
#> SRR1026945 1 0.0000 0.87668 1.000 0.000
#> SRR1026947 2 0.0000 0.90933 0.000 1.000
#> SRR1026946 2 0.0000 0.90933 0.000 1.000
#> SRR1026948 2 0.0000 0.90933 0.000 1.000
#> SRR1026949 1 0.5842 0.85952 0.860 0.140
#> SRR1026950 1 0.3733 0.87670 0.928 0.072
#> SRR1026951 2 0.9522 0.36360 0.372 0.628
#> SRR1026952 1 0.3733 0.87670 0.928 0.072
#> SRR1026953 1 0.0000 0.87668 1.000 0.000
#> SRR1026954 1 0.7745 0.80380 0.772 0.228
#> SRR1026955 2 0.0000 0.90933 0.000 1.000
#> SRR1026956 1 0.6247 0.85256 0.844 0.156
#> SRR1026957 2 0.3431 0.89096 0.064 0.936
#> SRR1026958 1 0.5842 0.85952 0.860 0.140
#> SRR1026959 2 0.0000 0.90933 0.000 1.000
#> SRR1026960 1 0.7299 0.82435 0.796 0.204
#> SRR1026961 1 0.7299 0.82429 0.796 0.204
#> SRR1026962 1 0.0000 0.87668 1.000 0.000
#> SRR1026963 1 0.0000 0.87668 1.000 0.000
#> SRR1026964 1 0.9044 0.68069 0.680 0.320
#> SRR1026965 1 0.9044 0.68069 0.680 0.320
#> SRR1026966 1 0.0000 0.87668 1.000 0.000
#> SRR1026967 1 0.0000 0.87668 1.000 0.000
#> SRR1026968 1 0.7453 0.81771 0.788 0.212
#> SRR1026969 1 0.7376 0.82099 0.792 0.208
#> SRR1026970 1 0.8144 0.77793 0.748 0.252
#> SRR1026971 1 0.8144 0.77793 0.748 0.252
#> SRR1026972 1 0.8327 0.76491 0.736 0.264
#> SRR1026973 1 0.8327 0.76491 0.736 0.264
#> SRR1026974 1 0.6247 0.85256 0.844 0.156
#> SRR1026975 1 0.6247 0.85256 0.844 0.156
#> SRR1026976 1 0.6623 0.84539 0.828 0.172
#> SRR1026977 1 0.6623 0.84539 0.828 0.172
#> SRR1026978 1 0.8207 0.76572 0.744 0.256
#> SRR1026979 1 0.0000 0.87668 1.000 0.000
#> SRR1026980 2 0.9944 0.00646 0.456 0.544
#> SRR1026981 1 0.4939 0.80830 0.892 0.108
#> SRR1026982 1 0.7299 0.82429 0.796 0.204
#> SRR1026983 1 0.7299 0.82429 0.796 0.204
#> SRR1026984 1 0.7299 0.82429 0.796 0.204
#> SRR1026985 1 0.7299 0.82429 0.796 0.204
#> SRR1026986 1 0.8813 0.71700 0.700 0.300
#> SRR1026987 1 0.8713 0.72881 0.708 0.292
#> SRR1026988 1 0.0000 0.87668 1.000 0.000
#> SRR1026989 1 0.0000 0.87668 1.000 0.000
#> SRR1026990 1 0.6247 0.85256 0.844 0.156
#> SRR1026991 1 0.0000 0.87668 1.000 0.000
#> SRR1026992 1 0.3114 0.87919 0.944 0.056
#> SRR1026993 1 0.1414 0.87928 0.980 0.020
#> SRR1026994 1 0.8267 0.77016 0.740 0.260
#> SRR1026995 1 0.8267 0.77016 0.740 0.260
#> SRR1026996 1 0.9044 0.68069 0.680 0.320
#> SRR1026997 1 0.9044 0.68069 0.680 0.320
#> SRR1026998 1 0.0000 0.87668 1.000 0.000
#> SRR1026999 1 0.0000 0.87668 1.000 0.000
#> SRR1027000 1 0.6712 0.84438 0.824 0.176
#> SRR1027001 1 0.0000 0.87668 1.000 0.000
#> SRR1027002 1 0.8555 0.73783 0.720 0.280
#> SRR1027003 2 0.8207 0.64960 0.256 0.744
#> SRR1027004 1 0.4939 0.86941 0.892 0.108
#> SRR1027005 1 0.0000 0.87668 1.000 0.000
#> SRR1027006 1 0.0000 0.87668 1.000 0.000
#> SRR1027007 1 0.7815 0.79300 0.768 0.232
#> SRR1027008 1 0.5737 0.86251 0.864 0.136
#> SRR1027009 1 0.0000 0.87668 1.000 0.000
#> SRR1027010 1 0.0000 0.87668 1.000 0.000
#> SRR1027011 1 0.0000 0.87668 1.000 0.000
#> SRR1177668 1 0.0000 0.87668 1.000 0.000
#> SRR1177667 1 0.1843 0.87951 0.972 0.028
#> SRR1177669 1 0.0000 0.87668 1.000 0.000
#> SRR1177670 1 0.0000 0.87668 1.000 0.000
#> SRR1177671 2 0.0000 0.90933 0.000 1.000
#> SRR1177672 1 0.0000 0.87668 1.000 0.000
#> SRR1177673 1 0.0000 0.87668 1.000 0.000
#> SRR1177674 1 0.0000 0.87668 1.000 0.000
#> SRR1177675 1 0.0000 0.87668 1.000 0.000
#> SRR1177676 1 0.0000 0.87668 1.000 0.000
#> SRR1177677 1 0.4161 0.87491 0.916 0.084
#> SRR1177678 1 0.1414 0.87985 0.980 0.020
#> SRR1177679 2 0.0000 0.90933 0.000 1.000
#> SRR1177680 2 0.9129 0.46591 0.328 0.672
#> SRR1177681 1 0.5842 0.86157 0.860 0.140
#> SRR1177682 1 0.5842 0.86157 0.860 0.140
#> SRR1177683 2 0.0000 0.90933 0.000 1.000
#> SRR1177684 2 0.0000 0.90933 0.000 1.000
#> SRR1177685 1 0.1184 0.87953 0.984 0.016
#> SRR1177686 1 0.0000 0.87668 1.000 0.000
#> SRR1177687 2 0.9170 0.45678 0.332 0.668
#> SRR1177688 1 0.7299 0.82559 0.796 0.204
#> SRR1177689 1 0.6531 0.84996 0.832 0.168
#> SRR1177690 1 0.2948 0.87865 0.948 0.052
#> SRR1177691 2 0.0000 0.90933 0.000 1.000
#> SRR1177692 2 0.9129 0.46591 0.328 0.672
#> SRR1177693 2 0.0000 0.90933 0.000 1.000
#> SRR1177694 2 0.0000 0.90933 0.000 1.000
#> SRR1177695 1 0.5842 0.86157 0.860 0.140
#> SRR1177697 1 0.4431 0.87343 0.908 0.092
#> SRR1177696 1 0.7139 0.83058 0.804 0.196
#> SRR1177698 1 0.0000 0.87668 1.000 0.000
#> SRR1177700 1 0.7299 0.82365 0.796 0.204
#> SRR1177701 1 0.5842 0.86020 0.860 0.140
#> SRR1177702 1 0.0000 0.87668 1.000 0.000
#> SRR1177703 1 0.6048 0.85655 0.852 0.148
#> SRR1177704 1 0.7219 0.82669 0.800 0.200
#> SRR1177705 1 0.5842 0.86020 0.860 0.140
#> SRR1177706 2 0.1414 0.90507 0.020 0.980
#> SRR1177707 1 0.6247 0.85247 0.844 0.156
#> SRR1177708 1 0.6247 0.85247 0.844 0.156
#> SRR1177709 1 0.1184 0.87913 0.984 0.016
#> SRR1177710 1 0.1184 0.87913 0.984 0.016
#> SRR1177711 1 0.0000 0.87668 1.000 0.000
#> SRR1177712 1 0.7299 0.82237 0.796 0.204
#> SRR1177714 2 0.0000 0.90933 0.000 1.000
#> SRR1177713 1 0.0000 0.87668 1.000 0.000
#> SRR1177715 2 0.2948 0.89590 0.052 0.948
#> SRR1177716 1 0.0000 0.87668 1.000 0.000
#> SRR1177717 1 0.1184 0.87941 0.984 0.016
#> SRR1177718 1 0.0000 0.87668 1.000 0.000
#> SRR1177719 1 0.5294 0.86711 0.880 0.120
#> SRR1177720 1 0.0376 0.87646 0.996 0.004
#> SRR1177721 2 0.0000 0.90933 0.000 1.000
#> SRR1177722 2 0.0000 0.90933 0.000 1.000
#> SRR1177723 1 0.2603 0.87903 0.956 0.044
#> SRR1177725 1 0.1184 0.87941 0.984 0.016
#> SRR1177724 1 0.2603 0.87903 0.956 0.044
#> SRR1177726 1 0.0000 0.87668 1.000 0.000
#> SRR1177727 1 0.0000 0.87668 1.000 0.000
#> SRR1177728 1 0.0000 0.87668 1.000 0.000
#> SRR1177729 1 0.2043 0.87986 0.968 0.032
#> SRR1177730 1 0.0000 0.87668 1.000 0.000
#> SRR1177731 1 0.1414 0.87951 0.980 0.020
#> SRR1177732 1 0.0000 0.87668 1.000 0.000
#> SRR1177733 1 0.6148 0.85490 0.848 0.152
#> SRR1177734 1 0.6148 0.85490 0.848 0.152
#> SRR1177735 1 0.5842 0.86061 0.860 0.140
#> SRR1177736 1 0.5842 0.86061 0.860 0.140
#> SRR1177737 2 0.5408 0.84191 0.124 0.876
#> SRR1177738 1 0.0376 0.87618 0.996 0.004
#> SRR1177739 1 0.6148 0.85490 0.848 0.152
#> SRR1177740 1 0.6148 0.85490 0.848 0.152
#> SRR1177741 1 0.0000 0.87668 1.000 0.000
#> SRR1177742 1 0.0000 0.87668 1.000 0.000
#> SRR1177743 1 0.0000 0.87668 1.000 0.000
#> SRR1177744 1 0.0000 0.87668 1.000 0.000
#> SRR1177745 2 0.9129 0.46591 0.328 0.672
#> SRR1177746 2 0.9129 0.46591 0.328 0.672
#> SRR1177747 1 0.0000 0.87668 1.000 0.000
#> SRR1177748 1 0.0000 0.87668 1.000 0.000
#> SRR1177749 1 0.0000 0.87668 1.000 0.000
#> SRR1177750 1 0.2948 0.87865 0.948 0.052
#> SRR1177751 1 0.2603 0.87903 0.956 0.044
#> SRR1177752 1 0.2603 0.87903 0.956 0.044
#> SRR1177753 1 0.1414 0.87951 0.980 0.020
#> SRR1177754 1 0.1414 0.87951 0.980 0.020
#> SRR1177755 1 0.1184 0.87925 0.984 0.016
#> SRR1177756 1 0.5178 0.86920 0.884 0.116
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026873 1 0.0592 0.790 0.988 0.000 0.012
#> SRR1026874 3 0.6095 0.571 0.392 0.000 0.608
#> SRR1026875 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026877 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1026878 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1026879 1 0.2165 0.759 0.936 0.000 0.064
#> SRR1026880 1 0.2878 0.730 0.904 0.000 0.096
#> SRR1026881 2 0.2959 0.862 0.100 0.900 0.000
#> SRR1026882 2 0.2959 0.862 0.100 0.900 0.000
#> SRR1026883 1 0.5835 0.697 0.660 0.340 0.000
#> SRR1026884 1 0.5835 0.697 0.660 0.340 0.000
#> SRR1026885 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026886 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026887 3 0.3851 0.904 0.136 0.004 0.860
#> SRR1026888 3 0.3851 0.904 0.136 0.004 0.860
#> SRR1026889 2 0.2066 0.885 0.060 0.940 0.000
#> SRR1026890 1 0.6587 0.663 0.632 0.352 0.016
#> SRR1026891 1 0.3941 0.855 0.844 0.156 0.000
#> SRR1026892 1 0.3941 0.855 0.844 0.156 0.000
#> SRR1026893 3 0.3851 0.904 0.136 0.004 0.860
#> SRR1026894 3 0.3851 0.904 0.136 0.004 0.860
#> SRR1026895 1 0.6587 0.663 0.632 0.352 0.016
#> SRR1026896 1 0.6587 0.663 0.632 0.352 0.016
#> SRR1026897 3 0.6095 0.571 0.392 0.000 0.608
#> SRR1026898 1 0.3686 0.856 0.860 0.140 0.000
#> SRR1026899 1 0.2066 0.762 0.940 0.000 0.060
#> SRR1026900 2 0.3116 0.855 0.108 0.892 0.000
#> SRR1026901 2 0.3116 0.855 0.108 0.892 0.000
#> SRR1026902 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026903 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026904 1 0.5291 0.788 0.732 0.268 0.000
#> SRR1026905 1 0.5291 0.788 0.732 0.268 0.000
#> SRR1026906 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026910 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026911 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026912 3 0.3851 0.904 0.136 0.004 0.860
#> SRR1026913 3 0.3851 0.904 0.136 0.004 0.860
#> SRR1026914 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026918 2 0.3038 0.859 0.104 0.896 0.000
#> SRR1026919 2 0.3038 0.859 0.104 0.896 0.000
#> SRR1026920 2 0.3038 0.859 0.104 0.896 0.000
#> SRR1026921 2 0.3038 0.859 0.104 0.896 0.000
#> SRR1026922 2 0.2261 0.883 0.068 0.932 0.000
#> SRR1026923 2 0.2261 0.883 0.068 0.932 0.000
#> SRR1026924 1 0.5859 0.692 0.656 0.344 0.000
#> SRR1026925 3 0.3851 0.904 0.136 0.004 0.860
#> SRR1026926 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026927 1 0.4605 0.837 0.796 0.204 0.000
#> SRR1026928 2 0.3038 0.860 0.104 0.896 0.000
#> SRR1026929 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1026930 2 0.2165 0.884 0.064 0.936 0.000
#> SRR1026931 2 0.2165 0.884 0.064 0.936 0.000
#> SRR1026932 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026936 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026937 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026938 2 0.2165 0.884 0.064 0.936 0.000
#> SRR1026939 2 0.2165 0.884 0.064 0.936 0.000
#> SRR1026940 1 0.3686 0.857 0.860 0.140 0.000
#> SRR1026941 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1026942 1 0.3267 0.852 0.884 0.116 0.000
#> SRR1026943 1 0.3267 0.852 0.884 0.116 0.000
#> SRR1026944 1 0.1031 0.814 0.976 0.024 0.000
#> SRR1026945 3 0.3941 0.896 0.156 0.000 0.844
#> SRR1026947 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026949 1 0.3686 0.855 0.860 0.140 0.000
#> SRR1026950 1 0.2356 0.840 0.928 0.072 0.000
#> SRR1026951 2 0.7562 0.460 0.308 0.628 0.064
#> SRR1026952 1 0.2356 0.840 0.928 0.072 0.000
#> SRR1026953 3 0.3551 0.904 0.132 0.000 0.868
#> SRR1026954 1 0.4887 0.826 0.772 0.228 0.000
#> SRR1026955 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026956 1 0.3941 0.855 0.844 0.156 0.000
#> SRR1026957 2 0.2165 0.884 0.064 0.936 0.000
#> SRR1026958 1 0.3686 0.855 0.860 0.140 0.000
#> SRR1026959 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1026960 1 0.4605 0.840 0.796 0.204 0.000
#> SRR1026961 1 0.4605 0.840 0.796 0.204 0.000
#> SRR1026962 1 0.0000 0.795 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.795 1.000 0.000 0.000
#> SRR1026964 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026965 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026966 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1026967 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1026968 1 0.4702 0.836 0.788 0.212 0.000
#> SRR1026969 1 0.4654 0.838 0.792 0.208 0.000
#> SRR1026970 1 0.5138 0.806 0.748 0.252 0.000
#> SRR1026971 1 0.5138 0.806 0.748 0.252 0.000
#> SRR1026972 1 0.5254 0.795 0.736 0.264 0.000
#> SRR1026973 1 0.5254 0.795 0.736 0.264 0.000
#> SRR1026974 1 0.3941 0.855 0.844 0.156 0.000
#> SRR1026975 1 0.3941 0.855 0.844 0.156 0.000
#> SRR1026976 1 0.4178 0.853 0.828 0.172 0.000
#> SRR1026977 1 0.4178 0.853 0.828 0.172 0.000
#> SRR1026978 1 0.5178 0.773 0.744 0.256 0.000
#> SRR1026979 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1026980 2 0.7958 0.136 0.392 0.544 0.064
#> SRR1026981 3 0.7391 0.738 0.196 0.108 0.696
#> SRR1026982 1 0.4605 0.840 0.796 0.204 0.000
#> SRR1026983 1 0.4605 0.840 0.796 0.204 0.000
#> SRR1026984 1 0.4605 0.840 0.796 0.204 0.000
#> SRR1026985 1 0.4605 0.840 0.796 0.204 0.000
#> SRR1026986 1 0.5560 0.740 0.700 0.300 0.000
#> SRR1026987 1 0.5497 0.750 0.708 0.292 0.000
#> SRR1026988 1 0.3879 0.673 0.848 0.000 0.152
#> SRR1026989 1 0.4974 0.524 0.764 0.000 0.236
#> SRR1026990 1 0.3941 0.855 0.844 0.156 0.000
#> SRR1026991 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1026992 1 0.1964 0.833 0.944 0.056 0.000
#> SRR1026993 1 0.0892 0.811 0.980 0.020 0.000
#> SRR1026994 1 0.5216 0.797 0.740 0.260 0.000
#> SRR1026995 1 0.5216 0.797 0.740 0.260 0.000
#> SRR1026996 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026997 1 0.5706 0.725 0.680 0.320 0.000
#> SRR1026998 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1026999 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1027000 1 0.4235 0.853 0.824 0.176 0.000
#> SRR1027001 1 0.3879 0.673 0.848 0.000 0.152
#> SRR1027002 1 0.5397 0.754 0.720 0.280 0.000
#> SRR1027003 2 0.5178 0.644 0.256 0.744 0.000
#> SRR1027004 1 0.3116 0.851 0.892 0.108 0.000
#> SRR1027005 3 0.3752 0.899 0.144 0.000 0.856
#> SRR1027006 1 0.3879 0.673 0.848 0.000 0.152
#> SRR1027007 1 0.4931 0.799 0.768 0.232 0.000
#> SRR1027008 1 0.3619 0.856 0.864 0.136 0.000
#> SRR1027009 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1027010 1 0.3267 0.721 0.884 0.000 0.116
#> SRR1027011 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1177668 1 0.2878 0.729 0.904 0.000 0.096
#> SRR1177667 1 0.1163 0.817 0.972 0.028 0.000
#> SRR1177669 1 0.3879 0.675 0.848 0.000 0.152
#> SRR1177670 3 0.5882 0.727 0.348 0.000 0.652
#> SRR1177671 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1177672 3 0.5560 0.774 0.300 0.000 0.700
#> SRR1177673 1 0.1163 0.781 0.972 0.000 0.028
#> SRR1177674 3 0.5291 0.802 0.268 0.000 0.732
#> SRR1177675 1 0.0000 0.795 1.000 0.000 0.000
#> SRR1177676 1 0.3551 0.706 0.868 0.000 0.132
#> SRR1177677 1 0.2625 0.844 0.916 0.084 0.000
#> SRR1177678 1 0.0892 0.812 0.980 0.020 0.000
#> SRR1177679 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1177680 2 0.7233 0.543 0.264 0.672 0.064
#> SRR1177681 1 0.3686 0.856 0.860 0.140 0.000
#> SRR1177682 1 0.3686 0.856 0.860 0.140 0.000
#> SRR1177683 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1177685 1 0.0747 0.809 0.984 0.016 0.000
#> SRR1177686 3 0.3752 0.899 0.144 0.000 0.856
#> SRR1177687 2 0.7267 0.536 0.268 0.668 0.064
#> SRR1177688 1 0.4605 0.842 0.796 0.204 0.000
#> SRR1177689 1 0.4121 0.855 0.832 0.168 0.000
#> SRR1177690 1 0.1860 0.830 0.948 0.052 0.000
#> SRR1177691 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1177692 2 0.7233 0.543 0.264 0.672 0.064
#> SRR1177693 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1177695 1 0.3686 0.856 0.860 0.140 0.000
#> SRR1177697 1 0.2796 0.846 0.908 0.092 0.000
#> SRR1177696 1 0.4504 0.845 0.804 0.196 0.000
#> SRR1177698 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1177700 1 0.4605 0.839 0.796 0.204 0.000
#> SRR1177701 1 0.3686 0.856 0.860 0.140 0.000
#> SRR1177702 3 0.6180 0.534 0.416 0.000 0.584
#> SRR1177703 1 0.3816 0.856 0.852 0.148 0.000
#> SRR1177704 3 0.9425 0.293 0.312 0.200 0.488
#> SRR1177705 1 0.3686 0.856 0.860 0.140 0.000
#> SRR1177706 2 0.0892 0.898 0.020 0.980 0.000
#> SRR1177707 1 0.3941 0.854 0.844 0.156 0.000
#> SRR1177708 1 0.3941 0.854 0.844 0.156 0.000
#> SRR1177709 1 0.3921 0.742 0.872 0.016 0.112
#> SRR1177710 1 0.3921 0.742 0.872 0.016 0.112
#> SRR1177711 1 0.0000 0.795 1.000 0.000 0.000
#> SRR1177712 3 0.9472 0.256 0.316 0.204 0.480
#> SRR1177714 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1177713 3 0.6095 0.571 0.392 0.000 0.608
#> SRR1177715 2 0.1860 0.889 0.052 0.948 0.000
#> SRR1177716 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1177717 1 0.0747 0.809 0.984 0.016 0.000
#> SRR1177718 1 0.0000 0.795 1.000 0.000 0.000
#> SRR1177719 1 0.3340 0.854 0.880 0.120 0.000
#> SRR1177720 3 0.3983 0.898 0.144 0.004 0.852
#> SRR1177721 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.903 0.000 1.000 0.000
#> SRR1177723 1 0.1643 0.826 0.956 0.044 0.000
#> SRR1177725 1 0.0747 0.809 0.984 0.016 0.000
#> SRR1177724 1 0.1643 0.826 0.956 0.044 0.000
#> SRR1177726 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1177727 1 0.1860 0.763 0.948 0.000 0.052
#> SRR1177728 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1177729 1 0.1289 0.820 0.968 0.032 0.000
#> SRR1177730 3 0.5988 0.677 0.368 0.000 0.632
#> SRR1177731 1 0.3502 0.763 0.896 0.020 0.084
#> SRR1177732 1 0.1860 0.763 0.948 0.000 0.052
#> SRR1177733 1 0.3879 0.855 0.848 0.152 0.000
#> SRR1177734 1 0.3879 0.855 0.848 0.152 0.000
#> SRR1177735 1 0.3686 0.857 0.860 0.140 0.000
#> SRR1177736 1 0.3686 0.857 0.860 0.140 0.000
#> SRR1177737 2 0.3412 0.842 0.124 0.876 0.000
#> SRR1177738 3 0.3918 0.902 0.140 0.004 0.856
#> SRR1177739 1 0.3879 0.855 0.848 0.152 0.000
#> SRR1177740 1 0.3879 0.855 0.848 0.152 0.000
#> SRR1177741 1 0.1860 0.763 0.948 0.000 0.052
#> SRR1177742 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1177743 1 0.2066 0.762 0.940 0.000 0.060
#> SRR1177744 1 0.2066 0.762 0.940 0.000 0.060
#> SRR1177745 2 0.7233 0.543 0.264 0.672 0.064
#> SRR1177746 2 0.7233 0.543 0.264 0.672 0.064
#> SRR1177747 1 0.3267 0.721 0.884 0.000 0.116
#> SRR1177748 3 0.3482 0.905 0.128 0.000 0.872
#> SRR1177749 1 0.0000 0.795 1.000 0.000 0.000
#> SRR1177750 1 0.1860 0.830 0.948 0.052 0.000
#> SRR1177751 1 0.1643 0.826 0.956 0.044 0.000
#> SRR1177752 1 0.1643 0.826 0.956 0.044 0.000
#> SRR1177753 1 0.3502 0.763 0.896 0.020 0.084
#> SRR1177754 1 0.3502 0.763 0.896 0.020 0.084
#> SRR1177755 1 0.0747 0.809 0.984 0.016 0.000
#> SRR1177756 1 0.3267 0.853 0.884 0.116 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0817 0.8389 0.024 0.976 0.000 0.000
#> SRR1026871 2 0.0817 0.8389 0.024 0.976 0.000 0.000
#> SRR1026872 2 0.0817 0.8389 0.024 0.976 0.000 0.000
#> SRR1026873 1 0.2522 0.7951 0.908 0.000 0.016 0.076
#> SRR1026874 4 0.0336 0.6979 0.008 0.000 0.000 0.992
#> SRR1026875 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1026876 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1026877 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1026878 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1026879 1 0.3621 0.7623 0.860 0.000 0.072 0.068
#> SRR1026880 1 0.4010 0.7387 0.836 0.000 0.100 0.064
#> SRR1026881 2 0.3172 0.7798 0.160 0.840 0.000 0.000
#> SRR1026882 2 0.3172 0.7798 0.160 0.840 0.000 0.000
#> SRR1026883 1 0.4134 0.7184 0.740 0.260 0.000 0.000
#> SRR1026884 1 0.4134 0.7184 0.740 0.260 0.000 0.000
#> SRR1026885 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026886 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026887 3 0.0524 0.9370 0.008 0.004 0.988 0.000
#> SRR1026888 3 0.0524 0.9370 0.008 0.004 0.988 0.000
#> SRR1026889 2 0.2530 0.8169 0.112 0.888 0.000 0.000
#> SRR1026890 1 0.4776 0.6884 0.712 0.272 0.016 0.000
#> SRR1026891 1 0.1940 0.8502 0.924 0.076 0.000 0.000
#> SRR1026892 1 0.1940 0.8502 0.924 0.076 0.000 0.000
#> SRR1026893 3 0.0524 0.9370 0.008 0.004 0.988 0.000
#> SRR1026894 3 0.0524 0.9370 0.008 0.004 0.988 0.000
#> SRR1026895 1 0.4804 0.6866 0.708 0.276 0.016 0.000
#> SRR1026896 1 0.4804 0.6866 0.708 0.276 0.016 0.000
#> SRR1026897 4 0.0336 0.6979 0.008 0.000 0.000 0.992
#> SRR1026898 1 0.2384 0.8528 0.916 0.072 0.004 0.008
#> SRR1026899 1 0.3693 0.7605 0.856 0.000 0.072 0.072
#> SRR1026900 2 0.3356 0.7617 0.176 0.824 0.000 0.000
#> SRR1026901 2 0.3356 0.7617 0.176 0.824 0.000 0.000
#> SRR1026902 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026903 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026904 1 0.3486 0.7945 0.812 0.188 0.000 0.000
#> SRR1026905 1 0.3486 0.7945 0.812 0.188 0.000 0.000
#> SRR1026906 2 0.0707 0.8383 0.020 0.980 0.000 0.000
#> SRR1026907 2 0.0707 0.8383 0.020 0.980 0.000 0.000
#> SRR1026908 2 0.0707 0.8383 0.020 0.980 0.000 0.000
#> SRR1026909 2 0.0707 0.8383 0.020 0.980 0.000 0.000
#> SRR1026910 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026911 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026912 3 0.0524 0.9370 0.008 0.004 0.988 0.000
#> SRR1026913 3 0.0524 0.9370 0.008 0.004 0.988 0.000
#> SRR1026914 2 0.1211 0.8388 0.040 0.960 0.000 0.000
#> SRR1026915 2 0.1211 0.8388 0.040 0.960 0.000 0.000
#> SRR1026916 2 0.1211 0.8388 0.040 0.960 0.000 0.000
#> SRR1026917 2 0.1211 0.8388 0.040 0.960 0.000 0.000
#> SRR1026918 2 0.3219 0.7758 0.164 0.836 0.000 0.000
#> SRR1026919 2 0.3219 0.7758 0.164 0.836 0.000 0.000
#> SRR1026920 2 0.3219 0.7758 0.164 0.836 0.000 0.000
#> SRR1026921 2 0.3219 0.7758 0.164 0.836 0.000 0.000
#> SRR1026922 2 0.2814 0.8043 0.132 0.868 0.000 0.000
#> SRR1026923 2 0.2814 0.8043 0.132 0.868 0.000 0.000
#> SRR1026924 1 0.4193 0.7121 0.732 0.268 0.000 0.000
#> SRR1026925 3 0.0524 0.9370 0.008 0.004 0.988 0.000
#> SRR1026926 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026927 1 0.2704 0.8363 0.876 0.124 0.000 0.000
#> SRR1026928 2 0.3219 0.7775 0.164 0.836 0.000 0.000
#> SRR1026929 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1026930 2 0.2530 0.8146 0.112 0.888 0.000 0.000
#> SRR1026931 2 0.2530 0.8146 0.112 0.888 0.000 0.000
#> SRR1026932 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1026933 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1026934 2 0.0707 0.8383 0.020 0.980 0.000 0.000
#> SRR1026935 2 0.0707 0.8383 0.020 0.980 0.000 0.000
#> SRR1026936 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026937 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026938 2 0.2589 0.8148 0.116 0.884 0.000 0.000
#> SRR1026939 2 0.2589 0.8148 0.116 0.884 0.000 0.000
#> SRR1026940 1 0.1902 0.8522 0.932 0.064 0.000 0.004
#> SRR1026941 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.3056 0.8500 0.892 0.072 0.004 0.032
#> SRR1026943 1 0.3056 0.8500 0.892 0.072 0.004 0.032
#> SRR1026944 1 0.1930 0.8156 0.936 0.004 0.004 0.056
#> SRR1026945 3 0.1004 0.9202 0.024 0.000 0.972 0.004
#> SRR1026947 2 0.0707 0.8383 0.020 0.980 0.000 0.000
#> SRR1026946 2 0.0707 0.8383 0.020 0.980 0.000 0.000
#> SRR1026948 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1026949 1 0.1637 0.8503 0.940 0.060 0.000 0.000
#> SRR1026950 1 0.1484 0.8368 0.960 0.016 0.004 0.020
#> SRR1026951 2 0.6386 0.3846 0.376 0.552 0.072 0.000
#> SRR1026952 1 0.1484 0.8368 0.960 0.016 0.004 0.020
#> SRR1026953 3 0.0188 0.9386 0.000 0.000 0.996 0.004
#> SRR1026954 1 0.3074 0.8280 0.848 0.152 0.000 0.000
#> SRR1026955 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1026956 1 0.1940 0.8502 0.924 0.076 0.000 0.000
#> SRR1026957 2 0.2589 0.8148 0.116 0.884 0.000 0.000
#> SRR1026958 1 0.1637 0.8503 0.940 0.060 0.000 0.000
#> SRR1026959 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1026960 1 0.2704 0.8389 0.876 0.124 0.000 0.000
#> SRR1026961 1 0.2704 0.8388 0.876 0.124 0.000 0.000
#> SRR1026962 1 0.2125 0.7997 0.920 0.000 0.004 0.076
#> SRR1026963 1 0.2125 0.7997 0.920 0.000 0.004 0.076
#> SRR1026964 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026965 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026966 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1026968 1 0.2814 0.8356 0.868 0.132 0.000 0.000
#> SRR1026969 1 0.2760 0.8370 0.872 0.128 0.000 0.000
#> SRR1026970 1 0.3311 0.8102 0.828 0.172 0.000 0.000
#> SRR1026971 1 0.3311 0.8102 0.828 0.172 0.000 0.000
#> SRR1026972 1 0.3444 0.8014 0.816 0.184 0.000 0.000
#> SRR1026973 1 0.3444 0.8014 0.816 0.184 0.000 0.000
#> SRR1026974 1 0.1940 0.8502 0.924 0.076 0.000 0.000
#> SRR1026975 1 0.1940 0.8502 0.924 0.076 0.000 0.000
#> SRR1026976 1 0.2216 0.8492 0.908 0.092 0.000 0.000
#> SRR1026977 1 0.2216 0.8492 0.908 0.092 0.000 0.000
#> SRR1026978 1 0.3768 0.7860 0.808 0.184 0.000 0.008
#> SRR1026979 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1026980 2 0.6506 0.0925 0.460 0.468 0.072 0.000
#> SRR1026981 3 0.5058 0.5919 0.128 0.104 0.768 0.000
#> SRR1026982 1 0.2704 0.8388 0.876 0.124 0.000 0.000
#> SRR1026983 1 0.2704 0.8388 0.876 0.124 0.000 0.000
#> SRR1026984 1 0.2704 0.8388 0.876 0.124 0.000 0.000
#> SRR1026985 1 0.2704 0.8388 0.876 0.124 0.000 0.000
#> SRR1026986 1 0.3801 0.7601 0.780 0.220 0.000 0.000
#> SRR1026987 1 0.3726 0.7678 0.788 0.212 0.000 0.000
#> SRR1026988 1 0.4916 0.6446 0.760 0.000 0.184 0.056
#> SRR1026989 1 0.5672 0.4861 0.668 0.000 0.276 0.056
#> SRR1026990 1 0.1940 0.8502 0.924 0.076 0.000 0.000
#> SRR1026991 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1026992 1 0.2099 0.8321 0.936 0.020 0.004 0.040
#> SRR1026993 1 0.2010 0.8133 0.932 0.004 0.004 0.060
#> SRR1026994 1 0.3626 0.8024 0.812 0.184 0.000 0.004
#> SRR1026995 1 0.3626 0.8024 0.812 0.184 0.000 0.004
#> SRR1026996 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026997 1 0.3975 0.7408 0.760 0.240 0.000 0.000
#> SRR1026998 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1027000 1 0.2777 0.8490 0.888 0.104 0.004 0.004
#> SRR1027001 1 0.4874 0.6504 0.764 0.000 0.180 0.056
#> SRR1027002 1 0.4011 0.7695 0.784 0.208 0.000 0.008
#> SRR1027003 2 0.4741 0.5352 0.328 0.668 0.000 0.004
#> SRR1027004 1 0.1452 0.8464 0.956 0.036 0.000 0.008
#> SRR1027005 3 0.0592 0.9283 0.016 0.000 0.984 0.000
#> SRR1027006 1 0.4916 0.6446 0.760 0.000 0.184 0.056
#> SRR1027007 1 0.3306 0.8078 0.840 0.156 0.000 0.004
#> SRR1027008 1 0.2310 0.8526 0.920 0.068 0.004 0.008
#> SRR1027009 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1027010 1 0.4364 0.7108 0.808 0.000 0.136 0.056
#> SRR1027011 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1177668 1 0.4010 0.7376 0.836 0.000 0.100 0.064
#> SRR1177667 1 0.2076 0.8184 0.932 0.008 0.004 0.056
#> SRR1177669 1 0.4990 0.6457 0.756 0.000 0.184 0.060
#> SRR1177670 3 0.4959 0.5638 0.196 0.000 0.752 0.052
#> SRR1177671 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1177672 3 0.4274 0.6634 0.148 0.000 0.808 0.044
#> SRR1177673 1 0.3037 0.7839 0.888 0.000 0.036 0.076
#> SRR1177674 3 0.3731 0.7194 0.120 0.000 0.844 0.036
#> SRR1177675 1 0.2125 0.7997 0.920 0.000 0.004 0.076
#> SRR1177676 1 0.4286 0.7181 0.812 0.000 0.136 0.052
#> SRR1177677 1 0.1362 0.8402 0.964 0.020 0.004 0.012
#> SRR1177678 1 0.1743 0.8126 0.940 0.000 0.004 0.056
#> SRR1177679 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1177680 2 0.6232 0.4483 0.332 0.596 0.072 0.000
#> SRR1177681 1 0.2384 0.8528 0.916 0.072 0.004 0.008
#> SRR1177682 1 0.2384 0.8528 0.916 0.072 0.004 0.008
#> SRR1177683 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1177684 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1177685 1 0.2088 0.8111 0.928 0.004 0.004 0.064
#> SRR1177686 3 0.0592 0.9283 0.016 0.000 0.984 0.000
#> SRR1177687 2 0.6249 0.4422 0.336 0.592 0.072 0.000
#> SRR1177688 1 0.2704 0.8407 0.876 0.124 0.000 0.000
#> SRR1177689 1 0.2860 0.8506 0.888 0.100 0.004 0.008
#> SRR1177690 1 0.2383 0.8304 0.924 0.024 0.004 0.048
#> SRR1177691 2 0.0524 0.8240 0.004 0.988 0.000 0.008
#> SRR1177692 2 0.6232 0.4483 0.332 0.596 0.072 0.000
#> SRR1177693 2 0.0921 0.8392 0.028 0.972 0.000 0.000
#> SRR1177694 2 0.0921 0.8392 0.028 0.972 0.000 0.000
#> SRR1177695 1 0.2384 0.8528 0.916 0.072 0.004 0.008
#> SRR1177697 1 0.2207 0.8441 0.932 0.040 0.004 0.024
#> SRR1177696 1 0.2589 0.8430 0.884 0.116 0.000 0.000
#> SRR1177698 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1177700 1 0.2704 0.8379 0.876 0.124 0.000 0.000
#> SRR1177701 1 0.1902 0.8513 0.932 0.064 0.000 0.004
#> SRR1177702 4 0.2830 0.6664 0.040 0.000 0.060 0.900
#> SRR1177703 1 0.1792 0.8510 0.932 0.068 0.000 0.000
#> SRR1177704 4 0.8404 0.4347 0.304 0.136 0.068 0.492
#> SRR1177705 1 0.1902 0.8513 0.932 0.064 0.000 0.004
#> SRR1177706 2 0.1022 0.8382 0.032 0.968 0.000 0.000
#> SRR1177707 1 0.1940 0.8499 0.924 0.076 0.000 0.000
#> SRR1177708 1 0.1940 0.8499 0.924 0.076 0.000 0.000
#> SRR1177709 1 0.4017 0.7339 0.828 0.000 0.128 0.044
#> SRR1177710 1 0.4017 0.7339 0.828 0.000 0.128 0.044
#> SRR1177711 1 0.2125 0.7997 0.920 0.000 0.004 0.076
#> SRR1177712 4 0.8455 0.4114 0.320 0.136 0.068 0.476
#> SRR1177714 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1177713 4 0.0469 0.6982 0.012 0.000 0.000 0.988
#> SRR1177715 2 0.2271 0.8216 0.076 0.916 0.000 0.008
#> SRR1177716 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.1824 0.8105 0.936 0.000 0.004 0.060
#> SRR1177718 1 0.2125 0.7997 0.920 0.000 0.004 0.076
#> SRR1177719 1 0.2335 0.8510 0.920 0.060 0.000 0.020
#> SRR1177720 3 0.0779 0.9257 0.016 0.004 0.980 0.000
#> SRR1177721 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1177722 2 0.0336 0.8215 0.000 0.992 0.000 0.008
#> SRR1177723 1 0.2360 0.8272 0.924 0.020 0.004 0.052
#> SRR1177725 1 0.1824 0.8105 0.936 0.000 0.004 0.060
#> SRR1177724 1 0.2360 0.8272 0.924 0.020 0.004 0.052
#> SRR1177726 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.3464 0.7687 0.868 0.000 0.056 0.076
#> SRR1177728 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.2207 0.8211 0.928 0.012 0.004 0.056
#> SRR1177730 3 0.4986 0.5197 0.216 0.000 0.740 0.044
#> SRR1177731 1 0.3421 0.7664 0.868 0.000 0.088 0.044
#> SRR1177732 1 0.3464 0.7687 0.868 0.000 0.056 0.076
#> SRR1177733 1 0.2125 0.8508 0.920 0.076 0.000 0.004
#> SRR1177734 1 0.2125 0.8508 0.920 0.076 0.000 0.004
#> SRR1177735 1 0.1902 0.8522 0.932 0.064 0.000 0.004
#> SRR1177736 1 0.1902 0.8522 0.932 0.064 0.000 0.004
#> SRR1177737 2 0.3610 0.7359 0.200 0.800 0.000 0.000
#> SRR1177738 3 0.0657 0.9331 0.012 0.004 0.984 0.000
#> SRR1177739 1 0.2125 0.8508 0.920 0.076 0.000 0.004
#> SRR1177740 1 0.2125 0.8508 0.920 0.076 0.000 0.004
#> SRR1177741 1 0.3464 0.7687 0.868 0.000 0.056 0.076
#> SRR1177742 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.3693 0.7605 0.856 0.000 0.072 0.072
#> SRR1177744 1 0.3693 0.7605 0.856 0.000 0.072 0.072
#> SRR1177745 2 0.6232 0.4483 0.332 0.596 0.072 0.000
#> SRR1177746 2 0.6232 0.4483 0.332 0.596 0.072 0.000
#> SRR1177747 1 0.4364 0.7108 0.808 0.000 0.136 0.056
#> SRR1177748 3 0.0000 0.9403 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.2125 0.7997 0.920 0.000 0.004 0.076
#> SRR1177750 1 0.2383 0.8304 0.924 0.024 0.004 0.048
#> SRR1177751 1 0.2360 0.8272 0.924 0.020 0.004 0.052
#> SRR1177752 1 0.2360 0.8272 0.924 0.020 0.004 0.052
#> SRR1177753 1 0.3421 0.7664 0.868 0.000 0.088 0.044
#> SRR1177754 1 0.3421 0.7664 0.868 0.000 0.088 0.044
#> SRR1177755 1 0.1824 0.8105 0.936 0.000 0.004 0.060
#> SRR1177756 1 0.2884 0.8500 0.900 0.068 0.004 0.028
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.1270 0.785 0.052 0.948 0.000 0.000 0.000
#> SRR1026871 2 0.1270 0.785 0.052 0.948 0.000 0.000 0.000
#> SRR1026872 2 0.1270 0.785 0.052 0.948 0.000 0.000 0.000
#> SRR1026873 1 0.3661 0.700 0.724 0.000 0.000 0.276 0.000
#> SRR1026874 5 0.0290 0.925 0.000 0.000 0.000 0.008 0.992
#> SRR1026875 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1026876 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1026877 3 0.0000 0.910 0.000 0.000 1.000 0.000 0.000
#> SRR1026878 3 0.0000 0.910 0.000 0.000 1.000 0.000 0.000
#> SRR1026879 1 0.4445 0.662 0.676 0.000 0.024 0.300 0.000
#> SRR1026880 1 0.4797 0.640 0.660 0.000 0.044 0.296 0.000
#> SRR1026881 2 0.4233 0.702 0.208 0.748 0.000 0.044 0.000
#> SRR1026882 2 0.4233 0.702 0.208 0.748 0.000 0.044 0.000
#> SRR1026883 1 0.3835 0.628 0.796 0.156 0.000 0.048 0.000
#> SRR1026884 1 0.3835 0.628 0.796 0.156 0.000 0.048 0.000
#> SRR1026885 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026886 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026887 3 0.0727 0.908 0.004 0.004 0.980 0.012 0.000
#> SRR1026888 3 0.0727 0.908 0.004 0.004 0.980 0.012 0.000
#> SRR1026889 2 0.3953 0.737 0.168 0.784 0.000 0.048 0.000
#> SRR1026890 1 0.4453 0.584 0.764 0.164 0.008 0.064 0.000
#> SRR1026891 1 0.0798 0.783 0.976 0.008 0.000 0.016 0.000
#> SRR1026892 1 0.0798 0.783 0.976 0.008 0.000 0.016 0.000
#> SRR1026893 3 0.0727 0.908 0.004 0.004 0.980 0.012 0.000
#> SRR1026894 3 0.0727 0.908 0.004 0.004 0.980 0.012 0.000
#> SRR1026895 1 0.4466 0.580 0.760 0.172 0.008 0.060 0.000
#> SRR1026896 1 0.4466 0.580 0.760 0.172 0.008 0.060 0.000
#> SRR1026897 5 0.0000 0.926 0.000 0.000 0.000 0.000 1.000
#> SRR1026898 1 0.1892 0.787 0.916 0.004 0.000 0.080 0.000
#> SRR1026899 1 0.4318 0.666 0.688 0.000 0.020 0.292 0.000
#> SRR1026900 2 0.4519 0.669 0.228 0.720 0.000 0.052 0.000
#> SRR1026901 2 0.4519 0.669 0.228 0.720 0.000 0.052 0.000
#> SRR1026902 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026903 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026904 1 0.3043 0.710 0.864 0.080 0.000 0.056 0.000
#> SRR1026905 1 0.3043 0.710 0.864 0.080 0.000 0.056 0.000
#> SRR1026906 2 0.1197 0.785 0.048 0.952 0.000 0.000 0.000
#> SRR1026907 2 0.1197 0.785 0.048 0.952 0.000 0.000 0.000
#> SRR1026908 2 0.1197 0.785 0.048 0.952 0.000 0.000 0.000
#> SRR1026909 2 0.1197 0.785 0.048 0.952 0.000 0.000 0.000
#> SRR1026910 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026911 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026912 3 0.0727 0.908 0.004 0.004 0.980 0.012 0.000
#> SRR1026913 3 0.0727 0.908 0.004 0.004 0.980 0.012 0.000
#> SRR1026914 2 0.2616 0.779 0.100 0.880 0.000 0.020 0.000
#> SRR1026915 2 0.2616 0.779 0.100 0.880 0.000 0.020 0.000
#> SRR1026916 2 0.2616 0.779 0.100 0.880 0.000 0.020 0.000
#> SRR1026917 2 0.2616 0.779 0.100 0.880 0.000 0.020 0.000
#> SRR1026918 2 0.4264 0.698 0.212 0.744 0.000 0.044 0.000
#> SRR1026919 2 0.4264 0.698 0.212 0.744 0.000 0.044 0.000
#> SRR1026920 2 0.4264 0.698 0.212 0.744 0.000 0.044 0.000
#> SRR1026921 2 0.4264 0.698 0.212 0.744 0.000 0.044 0.000
#> SRR1026922 2 0.4096 0.728 0.176 0.772 0.000 0.052 0.000
#> SRR1026923 2 0.4096 0.728 0.176 0.772 0.000 0.052 0.000
#> SRR1026924 1 0.3914 0.619 0.788 0.164 0.000 0.048 0.000
#> SRR1026925 3 0.0727 0.908 0.004 0.004 0.980 0.012 0.000
#> SRR1026926 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026927 1 0.1872 0.762 0.928 0.020 0.000 0.052 0.000
#> SRR1026928 2 0.4264 0.699 0.212 0.744 0.000 0.044 0.000
#> SRR1026929 3 0.0000 0.910 0.000 0.000 1.000 0.000 0.000
#> SRR1026930 2 0.3573 0.752 0.152 0.812 0.000 0.036 0.000
#> SRR1026931 2 0.3573 0.752 0.152 0.812 0.000 0.036 0.000
#> SRR1026932 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1026933 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1026934 2 0.1197 0.785 0.048 0.952 0.000 0.000 0.000
#> SRR1026935 2 0.1197 0.785 0.048 0.952 0.000 0.000 0.000
#> SRR1026936 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026937 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026938 2 0.3848 0.739 0.172 0.788 0.000 0.040 0.000
#> SRR1026939 2 0.3848 0.739 0.172 0.788 0.000 0.040 0.000
#> SRR1026940 1 0.0963 0.787 0.964 0.000 0.000 0.036 0.000
#> SRR1026941 3 0.0880 0.912 0.000 0.000 0.968 0.032 0.000
#> SRR1026942 1 0.2583 0.781 0.864 0.004 0.000 0.132 0.000
#> SRR1026943 1 0.2583 0.781 0.864 0.004 0.000 0.132 0.000
#> SRR1026944 1 0.3074 0.745 0.804 0.000 0.000 0.196 0.000
#> SRR1026945 3 0.1809 0.889 0.012 0.000 0.928 0.060 0.000
#> SRR1026947 2 0.1197 0.785 0.048 0.952 0.000 0.000 0.000
#> SRR1026946 2 0.1197 0.785 0.048 0.952 0.000 0.000 0.000
#> SRR1026948 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1026949 1 0.0771 0.786 0.976 0.004 0.000 0.020 0.000
#> SRR1026950 1 0.2127 0.777 0.892 0.000 0.000 0.108 0.000
#> SRR1026951 2 0.6235 0.196 0.412 0.460 0.004 0.124 0.000
#> SRR1026952 1 0.2127 0.777 0.892 0.000 0.000 0.108 0.000
#> SRR1026953 3 0.1197 0.907 0.000 0.000 0.952 0.048 0.000
#> SRR1026954 1 0.2291 0.751 0.908 0.056 0.000 0.036 0.000
#> SRR1026955 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1026956 1 0.0798 0.783 0.976 0.008 0.000 0.016 0.000
#> SRR1026957 2 0.3848 0.739 0.172 0.788 0.000 0.040 0.000
#> SRR1026958 1 0.1041 0.787 0.964 0.004 0.000 0.032 0.000
#> SRR1026959 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1026960 1 0.1741 0.769 0.936 0.040 0.000 0.024 0.000
#> SRR1026961 1 0.1568 0.766 0.944 0.036 0.000 0.020 0.000
#> SRR1026962 1 0.3452 0.715 0.756 0.000 0.000 0.244 0.000
#> SRR1026963 1 0.3452 0.715 0.756 0.000 0.000 0.244 0.000
#> SRR1026964 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026965 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026966 3 0.0000 0.910 0.000 0.000 1.000 0.000 0.000
#> SRR1026967 3 0.0000 0.910 0.000 0.000 1.000 0.000 0.000
#> SRR1026968 1 0.1741 0.763 0.936 0.040 0.000 0.024 0.000
#> SRR1026969 1 0.1661 0.764 0.940 0.036 0.000 0.024 0.000
#> SRR1026970 1 0.2726 0.731 0.884 0.064 0.000 0.052 0.000
#> SRR1026971 1 0.2726 0.731 0.884 0.064 0.000 0.052 0.000
#> SRR1026972 1 0.2914 0.721 0.872 0.076 0.000 0.052 0.000
#> SRR1026973 1 0.2914 0.721 0.872 0.076 0.000 0.052 0.000
#> SRR1026974 1 0.0798 0.783 0.976 0.008 0.000 0.016 0.000
#> SRR1026975 1 0.0798 0.783 0.976 0.008 0.000 0.016 0.000
#> SRR1026976 1 0.1106 0.780 0.964 0.024 0.000 0.012 0.000
#> SRR1026977 1 0.1106 0.780 0.964 0.024 0.000 0.012 0.000
#> SRR1026978 1 0.3401 0.717 0.840 0.096 0.000 0.064 0.000
#> SRR1026979 3 0.1121 0.910 0.000 0.000 0.956 0.044 0.000
#> SRR1026980 1 0.6203 -0.152 0.504 0.364 0.004 0.128 0.000
#> SRR1026981 3 0.5834 0.519 0.112 0.100 0.700 0.088 0.000
#> SRR1026982 1 0.1568 0.766 0.944 0.036 0.000 0.020 0.000
#> SRR1026983 1 0.1568 0.766 0.944 0.036 0.000 0.020 0.000
#> SRR1026984 1 0.1568 0.766 0.944 0.036 0.000 0.020 0.000
#> SRR1026985 1 0.1568 0.766 0.944 0.036 0.000 0.020 0.000
#> SRR1026986 1 0.3242 0.692 0.844 0.116 0.000 0.040 0.000
#> SRR1026987 1 0.3141 0.700 0.852 0.108 0.000 0.040 0.000
#> SRR1026988 1 0.5678 0.567 0.612 0.000 0.128 0.260 0.000
#> SRR1026989 1 0.6245 0.424 0.544 0.000 0.220 0.236 0.000
#> SRR1026990 1 0.0898 0.783 0.972 0.008 0.000 0.020 0.000
#> SRR1026991 3 0.1121 0.910 0.000 0.000 0.956 0.044 0.000
#> SRR1026992 1 0.3086 0.759 0.816 0.004 0.000 0.180 0.000
#> SRR1026993 1 0.3210 0.736 0.788 0.000 0.000 0.212 0.000
#> SRR1026994 1 0.3055 0.726 0.864 0.072 0.000 0.064 0.000
#> SRR1026995 1 0.3055 0.726 0.864 0.072 0.000 0.064 0.000
#> SRR1026996 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026997 1 0.3714 0.652 0.812 0.132 0.000 0.056 0.000
#> SRR1026998 3 0.0000 0.910 0.000 0.000 1.000 0.000 0.000
#> SRR1026999 3 0.0000 0.910 0.000 0.000 1.000 0.000 0.000
#> SRR1027000 1 0.2069 0.784 0.912 0.012 0.000 0.076 0.000
#> SRR1027001 1 0.5639 0.574 0.616 0.000 0.124 0.260 0.000
#> SRR1027002 1 0.3359 0.696 0.840 0.108 0.000 0.052 0.000
#> SRR1027003 2 0.5246 0.384 0.384 0.564 0.000 0.052 0.000
#> SRR1027004 1 0.1341 0.787 0.944 0.000 0.000 0.056 0.000
#> SRR1027005 3 0.1792 0.858 0.000 0.000 0.916 0.084 0.000
#> SRR1027006 1 0.5678 0.567 0.612 0.000 0.128 0.260 0.000
#> SRR1027007 1 0.3359 0.741 0.844 0.084 0.000 0.072 0.000
#> SRR1027008 1 0.1831 0.788 0.920 0.004 0.000 0.076 0.000
#> SRR1027009 3 0.1121 0.910 0.000 0.000 0.956 0.044 0.000
#> SRR1027010 1 0.5187 0.624 0.656 0.000 0.084 0.260 0.000
#> SRR1027011 3 0.1121 0.910 0.000 0.000 0.956 0.044 0.000
#> SRR1177668 1 0.4817 0.639 0.656 0.000 0.044 0.300 0.000
#> SRR1177667 1 0.3143 0.743 0.796 0.000 0.000 0.204 0.000
#> SRR1177669 1 0.5678 0.571 0.612 0.000 0.128 0.260 0.000
#> SRR1177670 3 0.4998 0.570 0.104 0.000 0.700 0.196 0.000
#> SRR1177671 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1177672 3 0.4487 0.654 0.104 0.000 0.756 0.140 0.000
#> SRR1177673 1 0.3957 0.686 0.712 0.000 0.008 0.280 0.000
#> SRR1177674 3 0.4057 0.706 0.088 0.000 0.792 0.120 0.000
#> SRR1177675 1 0.3508 0.709 0.748 0.000 0.000 0.252 0.000
#> SRR1177676 1 0.5265 0.618 0.636 0.000 0.080 0.284 0.000
#> SRR1177677 1 0.2377 0.777 0.872 0.000 0.000 0.128 0.000
#> SRR1177678 1 0.3395 0.729 0.764 0.000 0.000 0.236 0.000
#> SRR1177679 2 0.1197 0.738 0.000 0.952 0.000 0.048 0.000
#> SRR1177680 2 0.6259 0.264 0.376 0.488 0.004 0.132 0.000
#> SRR1177681 1 0.1892 0.787 0.916 0.004 0.000 0.080 0.000
#> SRR1177682 1 0.1892 0.787 0.916 0.004 0.000 0.080 0.000
#> SRR1177683 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1177684 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1177685 1 0.3395 0.722 0.764 0.000 0.000 0.236 0.000
#> SRR1177686 3 0.1792 0.858 0.000 0.000 0.916 0.084 0.000
#> SRR1177687 2 0.6265 0.256 0.380 0.484 0.004 0.132 0.000
#> SRR1177688 1 0.1836 0.773 0.932 0.036 0.000 0.032 0.000
#> SRR1177689 1 0.1981 0.787 0.920 0.016 0.000 0.064 0.000
#> SRR1177690 1 0.2966 0.754 0.816 0.000 0.000 0.184 0.000
#> SRR1177691 2 0.1357 0.741 0.004 0.948 0.000 0.048 0.000
#> SRR1177692 2 0.6245 0.273 0.368 0.496 0.004 0.132 0.000
#> SRR1177693 2 0.1502 0.786 0.056 0.940 0.000 0.004 0.000
#> SRR1177694 2 0.1502 0.786 0.056 0.940 0.000 0.004 0.000
#> SRR1177695 1 0.1892 0.787 0.916 0.004 0.000 0.080 0.000
#> SRR1177697 1 0.2536 0.775 0.868 0.004 0.000 0.128 0.000
#> SRR1177696 1 0.1836 0.774 0.932 0.032 0.000 0.036 0.000
#> SRR1177698 3 0.1121 0.910 0.000 0.000 0.956 0.044 0.000
#> SRR1177700 1 0.1750 0.766 0.936 0.036 0.000 0.028 0.000
#> SRR1177701 1 0.1430 0.788 0.944 0.004 0.000 0.052 0.000
#> SRR1177702 4 0.4481 -0.669 0.008 0.000 0.000 0.576 0.416
#> SRR1177703 1 0.1041 0.787 0.964 0.004 0.000 0.032 0.000
#> SRR1177704 4 0.6285 0.535 0.324 0.036 0.000 0.560 0.080
#> SRR1177705 1 0.1357 0.788 0.948 0.004 0.000 0.048 0.000
#> SRR1177706 2 0.1741 0.776 0.040 0.936 0.000 0.024 0.000
#> SRR1177707 1 0.0955 0.784 0.968 0.004 0.000 0.028 0.000
#> SRR1177708 1 0.0865 0.782 0.972 0.004 0.000 0.024 0.000
#> SRR1177709 1 0.5116 0.648 0.668 0.000 0.084 0.248 0.000
#> SRR1177710 1 0.5116 0.648 0.668 0.000 0.084 0.248 0.000
#> SRR1177711 1 0.3508 0.709 0.748 0.000 0.000 0.252 0.000
#> SRR1177712 4 0.6238 0.533 0.340 0.036 0.000 0.552 0.072
#> SRR1177714 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1177713 5 0.3039 0.858 0.000 0.000 0.000 0.192 0.808
#> SRR1177715 2 0.3800 0.745 0.108 0.812 0.000 0.080 0.000
#> SRR1177716 3 0.0963 0.911 0.000 0.000 0.964 0.036 0.000
#> SRR1177717 1 0.3366 0.724 0.768 0.000 0.000 0.232 0.000
#> SRR1177718 1 0.3424 0.717 0.760 0.000 0.000 0.240 0.000
#> SRR1177719 1 0.1892 0.786 0.916 0.004 0.000 0.080 0.000
#> SRR1177720 3 0.1952 0.855 0.000 0.004 0.912 0.084 0.000
#> SRR1177721 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1177722 2 0.1121 0.739 0.000 0.956 0.000 0.044 0.000
#> SRR1177723 1 0.2966 0.751 0.816 0.000 0.000 0.184 0.000
#> SRR1177725 1 0.3366 0.724 0.768 0.000 0.000 0.232 0.000
#> SRR1177724 1 0.2966 0.751 0.816 0.000 0.000 0.184 0.000
#> SRR1177726 3 0.1121 0.910 0.000 0.000 0.956 0.044 0.000
#> SRR1177727 1 0.3876 0.669 0.684 0.000 0.000 0.316 0.000
#> SRR1177728 3 0.1121 0.910 0.000 0.000 0.956 0.044 0.000
#> SRR1177729 1 0.3177 0.739 0.792 0.000 0.000 0.208 0.000
#> SRR1177730 3 0.5198 0.520 0.164 0.000 0.688 0.148 0.000
#> SRR1177731 1 0.4622 0.672 0.692 0.000 0.044 0.264 0.000
#> SRR1177732 1 0.3876 0.669 0.684 0.000 0.000 0.316 0.000
#> SRR1177733 1 0.1124 0.787 0.960 0.004 0.000 0.036 0.000
#> SRR1177734 1 0.1124 0.787 0.960 0.004 0.000 0.036 0.000
#> SRR1177735 1 0.0963 0.787 0.964 0.000 0.000 0.036 0.000
#> SRR1177736 1 0.0963 0.787 0.964 0.000 0.000 0.036 0.000
#> SRR1177737 2 0.4430 0.637 0.256 0.708 0.000 0.036 0.000
#> SRR1177738 3 0.0932 0.905 0.004 0.004 0.972 0.020 0.000
#> SRR1177739 1 0.1124 0.787 0.960 0.004 0.000 0.036 0.000
#> SRR1177740 1 0.1124 0.787 0.960 0.004 0.000 0.036 0.000
#> SRR1177741 1 0.3876 0.669 0.684 0.000 0.000 0.316 0.000
#> SRR1177742 3 0.1121 0.910 0.000 0.000 0.956 0.044 0.000
#> SRR1177743 1 0.4318 0.666 0.688 0.000 0.020 0.292 0.000
#> SRR1177744 1 0.4318 0.666 0.688 0.000 0.020 0.292 0.000
#> SRR1177745 2 0.6259 0.264 0.376 0.488 0.004 0.132 0.000
#> SRR1177746 2 0.6259 0.264 0.376 0.488 0.004 0.132 0.000
#> SRR1177747 1 0.5187 0.624 0.656 0.000 0.084 0.260 0.000
#> SRR1177748 3 0.1043 0.911 0.000 0.000 0.960 0.040 0.000
#> SRR1177749 1 0.3508 0.709 0.748 0.000 0.000 0.252 0.000
#> SRR1177750 1 0.2966 0.754 0.816 0.000 0.000 0.184 0.000
#> SRR1177751 1 0.2966 0.751 0.816 0.000 0.000 0.184 0.000
#> SRR1177752 1 0.2966 0.751 0.816 0.000 0.000 0.184 0.000
#> SRR1177753 1 0.4622 0.672 0.692 0.000 0.044 0.264 0.000
#> SRR1177754 1 0.4622 0.672 0.692 0.000 0.044 0.264 0.000
#> SRR1177755 1 0.3274 0.731 0.780 0.000 0.000 0.220 0.000
#> SRR1177756 1 0.2719 0.778 0.852 0.004 0.000 0.144 0.000
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.1411 0.70423 0.004 0.936 0.000 0.060 0.000 0.000
#> SRR1026871 2 0.1411 0.70423 0.004 0.936 0.000 0.060 0.000 0.000
#> SRR1026872 2 0.1411 0.70423 0.004 0.936 0.000 0.060 0.000 0.000
#> SRR1026873 1 0.3851 0.76774 0.540 0.000 0.000 0.460 0.000 0.000
#> SRR1026874 6 0.0692 0.97385 0.020 0.000 0.000 0.000 0.004 0.976
#> SRR1026875 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1026876 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1026877 3 0.0000 0.89602 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026878 3 0.0000 0.89602 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026879 1 0.4123 0.86837 0.568 0.000 0.012 0.420 0.000 0.000
#> SRR1026880 1 0.4275 0.87523 0.592 0.000 0.016 0.388 0.004 0.000
#> SRR1026881 2 0.3889 0.63769 0.016 0.736 0.000 0.232 0.016 0.000
#> SRR1026882 2 0.3889 0.63769 0.016 0.736 0.000 0.232 0.016 0.000
#> SRR1026883 4 0.3318 0.59047 0.020 0.140 0.000 0.820 0.020 0.000
#> SRR1026884 4 0.3318 0.59047 0.020 0.140 0.000 0.820 0.020 0.000
#> SRR1026885 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026886 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026887 3 0.0748 0.89378 0.016 0.004 0.976 0.004 0.000 0.000
#> SRR1026888 3 0.0748 0.89378 0.016 0.004 0.976 0.004 0.000 0.000
#> SRR1026889 2 0.3630 0.67315 0.012 0.772 0.000 0.196 0.020 0.000
#> SRR1026890 4 0.3917 0.56013 0.036 0.148 0.004 0.788 0.024 0.000
#> SRR1026891 4 0.0865 0.65926 0.036 0.000 0.000 0.964 0.000 0.000
#> SRR1026892 4 0.0865 0.65926 0.036 0.000 0.000 0.964 0.000 0.000
#> SRR1026893 3 0.0748 0.89378 0.016 0.004 0.976 0.004 0.000 0.000
#> SRR1026894 3 0.0748 0.89378 0.016 0.004 0.976 0.004 0.000 0.000
#> SRR1026895 4 0.3910 0.55631 0.036 0.156 0.004 0.784 0.020 0.000
#> SRR1026896 4 0.3910 0.55631 0.036 0.156 0.004 0.784 0.020 0.000
#> SRR1026897 6 0.0458 0.97381 0.000 0.000 0.000 0.000 0.016 0.984
#> SRR1026898 4 0.2006 0.62247 0.104 0.000 0.000 0.892 0.004 0.000
#> SRR1026899 1 0.4344 0.87164 0.568 0.000 0.012 0.412 0.008 0.000
#> SRR1026900 2 0.4254 0.60530 0.024 0.704 0.000 0.252 0.020 0.000
#> SRR1026901 2 0.4254 0.60530 0.024 0.704 0.000 0.252 0.020 0.000
#> SRR1026902 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026903 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026904 4 0.2545 0.64144 0.020 0.068 0.000 0.888 0.024 0.000
#> SRR1026905 4 0.2545 0.64144 0.020 0.068 0.000 0.888 0.024 0.000
#> SRR1026906 2 0.1349 0.70327 0.004 0.940 0.000 0.056 0.000 0.000
#> SRR1026907 2 0.1349 0.70327 0.004 0.940 0.000 0.056 0.000 0.000
#> SRR1026908 2 0.1349 0.70327 0.004 0.940 0.000 0.056 0.000 0.000
#> SRR1026909 2 0.1349 0.70327 0.004 0.940 0.000 0.056 0.000 0.000
#> SRR1026910 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026911 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026912 3 0.0748 0.89378 0.016 0.004 0.976 0.004 0.000 0.000
#> SRR1026913 3 0.0748 0.89378 0.016 0.004 0.976 0.004 0.000 0.000
#> SRR1026914 2 0.2092 0.70330 0.000 0.876 0.000 0.124 0.000 0.000
#> SRR1026915 2 0.2092 0.70330 0.000 0.876 0.000 0.124 0.000 0.000
#> SRR1026916 2 0.2092 0.70330 0.000 0.876 0.000 0.124 0.000 0.000
#> SRR1026917 2 0.2092 0.70330 0.000 0.876 0.000 0.124 0.000 0.000
#> SRR1026918 2 0.3915 0.63400 0.016 0.732 0.000 0.236 0.016 0.000
#> SRR1026919 2 0.3915 0.63400 0.016 0.732 0.000 0.236 0.016 0.000
#> SRR1026920 2 0.3915 0.63400 0.016 0.732 0.000 0.236 0.016 0.000
#> SRR1026921 2 0.3915 0.63400 0.016 0.732 0.000 0.236 0.016 0.000
#> SRR1026922 2 0.3829 0.65945 0.024 0.760 0.000 0.200 0.016 0.000
#> SRR1026923 2 0.3829 0.65945 0.024 0.760 0.000 0.200 0.016 0.000
#> SRR1026924 4 0.3395 0.58411 0.020 0.148 0.000 0.812 0.020 0.000
#> SRR1026925 3 0.0748 0.89378 0.016 0.004 0.976 0.004 0.000 0.000
#> SRR1026926 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026927 4 0.1262 0.66756 0.008 0.016 0.000 0.956 0.020 0.000
#> SRR1026928 2 0.3915 0.63499 0.016 0.732 0.000 0.236 0.016 0.000
#> SRR1026929 3 0.0146 0.89585 0.004 0.000 0.996 0.000 0.000 0.000
#> SRR1026930 2 0.3288 0.67988 0.016 0.800 0.000 0.176 0.008 0.000
#> SRR1026931 2 0.3288 0.67988 0.016 0.800 0.000 0.176 0.008 0.000
#> SRR1026932 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1026933 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1026934 2 0.1349 0.70327 0.004 0.940 0.000 0.056 0.000 0.000
#> SRR1026935 2 0.1349 0.70327 0.004 0.940 0.000 0.056 0.000 0.000
#> SRR1026936 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026937 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026938 2 0.3546 0.67489 0.012 0.776 0.000 0.196 0.016 0.000
#> SRR1026939 2 0.3546 0.67489 0.012 0.776 0.000 0.196 0.016 0.000
#> SRR1026940 4 0.1349 0.65156 0.056 0.000 0.000 0.940 0.004 0.000
#> SRR1026941 3 0.1141 0.89667 0.052 0.000 0.948 0.000 0.000 0.000
#> SRR1026942 4 0.3772 0.05399 0.296 0.004 0.000 0.692 0.008 0.000
#> SRR1026943 4 0.3772 0.05399 0.296 0.004 0.000 0.692 0.008 0.000
#> SRR1026944 4 0.3714 -0.15352 0.340 0.000 0.000 0.656 0.000 0.004
#> SRR1026945 3 0.2213 0.86785 0.100 0.000 0.888 0.004 0.008 0.000
#> SRR1026947 2 0.1349 0.70327 0.004 0.940 0.000 0.056 0.000 0.000
#> SRR1026946 2 0.1349 0.70327 0.004 0.940 0.000 0.056 0.000 0.000
#> SRR1026948 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1026949 4 0.1075 0.65192 0.048 0.000 0.000 0.952 0.000 0.000
#> SRR1026950 4 0.3126 0.25910 0.248 0.000 0.000 0.752 0.000 0.000
#> SRR1026951 2 0.5863 0.22469 0.124 0.440 0.000 0.420 0.016 0.000
#> SRR1026952 4 0.3126 0.25910 0.248 0.000 0.000 0.752 0.000 0.000
#> SRR1026953 3 0.1757 0.88797 0.076 0.000 0.916 0.000 0.008 0.000
#> SRR1026954 4 0.1974 0.66452 0.020 0.048 0.000 0.920 0.012 0.000
#> SRR1026955 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1026956 4 0.0865 0.65926 0.036 0.000 0.000 0.964 0.000 0.000
#> SRR1026957 2 0.3546 0.67489 0.012 0.776 0.000 0.196 0.016 0.000
#> SRR1026958 4 0.1267 0.64411 0.060 0.000 0.000 0.940 0.000 0.000
#> SRR1026959 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1026960 4 0.1049 0.66935 0.008 0.032 0.000 0.960 0.000 0.000
#> SRR1026961 4 0.1049 0.66899 0.008 0.032 0.000 0.960 0.000 0.000
#> SRR1026962 4 0.3986 -0.60021 0.464 0.000 0.000 0.532 0.000 0.004
#> SRR1026963 4 0.3995 -0.64944 0.480 0.000 0.000 0.516 0.000 0.004
#> SRR1026964 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026965 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026966 3 0.0000 0.89602 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026967 3 0.0000 0.89602 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026968 4 0.1010 0.66840 0.004 0.036 0.000 0.960 0.000 0.000
#> SRR1026969 4 0.0935 0.66875 0.004 0.032 0.000 0.964 0.000 0.000
#> SRR1026970 4 0.2022 0.65584 0.008 0.052 0.000 0.916 0.024 0.000
#> SRR1026971 4 0.2022 0.65584 0.008 0.052 0.000 0.916 0.024 0.000
#> SRR1026972 4 0.2400 0.64763 0.016 0.064 0.000 0.896 0.024 0.000
#> SRR1026973 4 0.2400 0.64763 0.016 0.064 0.000 0.896 0.024 0.000
#> SRR1026974 4 0.0865 0.65926 0.036 0.000 0.000 0.964 0.000 0.000
#> SRR1026975 4 0.0865 0.65926 0.036 0.000 0.000 0.964 0.000 0.000
#> SRR1026976 4 0.1245 0.66546 0.032 0.016 0.000 0.952 0.000 0.000
#> SRR1026977 4 0.1245 0.66546 0.032 0.016 0.000 0.952 0.000 0.000
#> SRR1026978 4 0.3419 0.60223 0.072 0.096 0.000 0.824 0.008 0.000
#> SRR1026979 3 0.1387 0.89407 0.068 0.000 0.932 0.000 0.000 0.000
#> SRR1026980 4 0.5745 -0.07490 0.120 0.348 0.000 0.516 0.016 0.000
#> SRR1026981 3 0.5429 0.50545 0.100 0.100 0.692 0.104 0.004 0.000
#> SRR1026982 4 0.1049 0.66899 0.008 0.032 0.000 0.960 0.000 0.000
#> SRR1026983 4 0.1049 0.66899 0.008 0.032 0.000 0.960 0.000 0.000
#> SRR1026984 4 0.1049 0.66899 0.008 0.032 0.000 0.960 0.000 0.000
#> SRR1026985 4 0.1049 0.66899 0.008 0.032 0.000 0.960 0.000 0.000
#> SRR1026986 4 0.2612 0.61515 0.016 0.108 0.000 0.868 0.008 0.000
#> SRR1026987 4 0.2517 0.62055 0.016 0.100 0.000 0.876 0.008 0.000
#> SRR1026988 1 0.5278 0.82855 0.544 0.000 0.084 0.364 0.008 0.000
#> SRR1026989 1 0.5908 0.69316 0.492 0.000 0.176 0.324 0.008 0.000
#> SRR1026990 4 0.1010 0.66060 0.036 0.000 0.000 0.960 0.004 0.000
#> SRR1026991 3 0.1387 0.89407 0.068 0.000 0.932 0.000 0.000 0.000
#> SRR1026992 4 0.3930 -0.26428 0.364 0.000 0.000 0.628 0.004 0.004
#> SRR1026993 4 0.3907 -0.40822 0.408 0.000 0.000 0.588 0.000 0.004
#> SRR1026994 4 0.2714 0.64859 0.036 0.064 0.000 0.880 0.020 0.000
#> SRR1026995 4 0.2714 0.64859 0.036 0.064 0.000 0.880 0.020 0.000
#> SRR1026996 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026997 4 0.3230 0.60813 0.024 0.116 0.000 0.836 0.024 0.000
#> SRR1026998 3 0.0000 0.89602 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026999 3 0.0000 0.89602 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1027000 4 0.1841 0.65687 0.064 0.008 0.000 0.920 0.008 0.000
#> SRR1027001 1 0.5260 0.82830 0.552 0.000 0.084 0.356 0.008 0.000
#> SRR1027002 4 0.3174 0.60772 0.040 0.108 0.000 0.840 0.012 0.000
#> SRR1027003 2 0.4937 0.36469 0.032 0.548 0.000 0.400 0.020 0.000
#> SRR1027004 4 0.1765 0.60639 0.096 0.000 0.000 0.904 0.000 0.000
#> SRR1027005 3 0.1806 0.84692 0.088 0.000 0.908 0.000 0.004 0.000
#> SRR1027006 1 0.5278 0.82855 0.544 0.000 0.084 0.364 0.008 0.000
#> SRR1027007 4 0.3427 0.60815 0.088 0.080 0.000 0.824 0.008 0.000
#> SRR1027008 4 0.2006 0.60304 0.104 0.000 0.000 0.892 0.004 0.000
#> SRR1027009 3 0.1701 0.88998 0.072 0.000 0.920 0.000 0.008 0.000
#> SRR1027010 1 0.4989 0.86429 0.532 0.000 0.052 0.408 0.008 0.000
#> SRR1027011 3 0.1644 0.89088 0.076 0.000 0.920 0.000 0.004 0.000
#> SRR1177668 1 0.4265 0.87302 0.596 0.000 0.016 0.384 0.004 0.000
#> SRR1177667 4 0.3915 -0.39656 0.412 0.000 0.000 0.584 0.000 0.004
#> SRR1177669 1 0.5344 0.82815 0.528 0.000 0.088 0.376 0.008 0.000
#> SRR1177670 3 0.4573 0.55995 0.288 0.000 0.656 0.048 0.008 0.000
#> SRR1177671 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1177672 3 0.4305 0.64953 0.228 0.000 0.712 0.052 0.008 0.000
#> SRR1177673 1 0.3982 0.79273 0.536 0.000 0.000 0.460 0.000 0.004
#> SRR1177674 3 0.4024 0.70210 0.196 0.000 0.748 0.048 0.008 0.000
#> SRR1177675 4 0.3995 -0.64683 0.480 0.000 0.000 0.516 0.000 0.004
#> SRR1177676 1 0.4892 0.86665 0.560 0.000 0.048 0.384 0.008 0.000
#> SRR1177677 4 0.2697 0.50560 0.188 0.000 0.000 0.812 0.000 0.000
#> SRR1177678 4 0.3866 -0.62762 0.484 0.000 0.000 0.516 0.000 0.000
#> SRR1177679 2 0.3314 0.54809 0.224 0.764 0.000 0.000 0.012 0.000
#> SRR1177680 2 0.5761 0.27608 0.112 0.472 0.000 0.400 0.016 0.000
#> SRR1177681 4 0.2006 0.62247 0.104 0.000 0.000 0.892 0.004 0.000
#> SRR1177682 4 0.2006 0.62247 0.104 0.000 0.000 0.892 0.004 0.000
#> SRR1177683 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1177684 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1177685 4 0.3986 -0.60642 0.464 0.000 0.000 0.532 0.000 0.004
#> SRR1177686 3 0.1806 0.84692 0.088 0.000 0.908 0.000 0.004 0.000
#> SRR1177687 2 0.5765 0.27107 0.112 0.468 0.000 0.404 0.016 0.000
#> SRR1177688 4 0.1991 0.66856 0.044 0.024 0.000 0.920 0.012 0.000
#> SRR1177689 4 0.2002 0.64592 0.076 0.012 0.000 0.908 0.004 0.000
#> SRR1177690 4 0.3695 -0.28137 0.376 0.000 0.000 0.624 0.000 0.000
#> SRR1177691 2 0.3454 0.55150 0.224 0.760 0.000 0.004 0.012 0.000
#> SRR1177692 2 0.5753 0.28284 0.112 0.480 0.000 0.392 0.016 0.000
#> SRR1177693 2 0.1643 0.70490 0.008 0.924 0.000 0.068 0.000 0.000
#> SRR1177694 2 0.1643 0.70490 0.008 0.924 0.000 0.068 0.000 0.000
#> SRR1177695 4 0.2006 0.62247 0.104 0.000 0.000 0.892 0.004 0.000
#> SRR1177697 4 0.3636 -0.03897 0.320 0.000 0.000 0.676 0.004 0.000
#> SRR1177696 4 0.1974 0.66849 0.048 0.020 0.000 0.920 0.012 0.000
#> SRR1177698 3 0.1644 0.89088 0.076 0.000 0.920 0.000 0.004 0.000
#> SRR1177700 4 0.1991 0.66928 0.044 0.024 0.000 0.920 0.012 0.000
#> SRR1177701 4 0.1753 0.62371 0.084 0.000 0.000 0.912 0.004 0.000
#> SRR1177702 5 0.1007 -0.33041 0.000 0.000 0.000 0.000 0.956 0.044
#> SRR1177703 4 0.1285 0.65286 0.052 0.000 0.000 0.944 0.004 0.000
#> SRR1177704 5 0.4733 0.37244 0.020 0.028 0.000 0.344 0.608 0.000
#> SRR1177705 4 0.1644 0.63159 0.076 0.000 0.000 0.920 0.004 0.000
#> SRR1177706 2 0.3901 0.61624 0.176 0.768 0.000 0.044 0.012 0.000
#> SRR1177707 4 0.1082 0.66106 0.040 0.000 0.000 0.956 0.004 0.000
#> SRR1177708 4 0.0935 0.66266 0.032 0.000 0.000 0.964 0.004 0.000
#> SRR1177709 1 0.5024 0.83393 0.500 0.000 0.052 0.440 0.008 0.000
#> SRR1177710 1 0.5024 0.83393 0.500 0.000 0.052 0.440 0.008 0.000
#> SRR1177711 4 0.3995 -0.64683 0.480 0.000 0.000 0.516 0.000 0.004
#> SRR1177712 5 0.4805 0.36623 0.024 0.024 0.000 0.368 0.584 0.000
#> SRR1177714 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1177713 5 0.3867 -0.64575 0.000 0.000 0.000 0.000 0.512 0.488
#> SRR1177715 2 0.5253 0.56587 0.224 0.628 0.000 0.140 0.008 0.000
#> SRR1177716 3 0.1327 0.89585 0.064 0.000 0.936 0.000 0.000 0.000
#> SRR1177717 4 0.3982 -0.59008 0.460 0.000 0.000 0.536 0.000 0.004
#> SRR1177718 4 0.3991 -0.61925 0.472 0.000 0.000 0.524 0.000 0.004
#> SRR1177719 4 0.2191 0.57443 0.120 0.000 0.000 0.876 0.004 0.000
#> SRR1177720 3 0.1949 0.84353 0.088 0.004 0.904 0.000 0.004 0.000
#> SRR1177721 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1177722 2 0.3420 0.53578 0.240 0.748 0.000 0.000 0.012 0.000
#> SRR1177723 4 0.3841 -0.30079 0.380 0.000 0.000 0.616 0.000 0.004
#> SRR1177725 4 0.3982 -0.59008 0.460 0.000 0.000 0.536 0.000 0.004
#> SRR1177724 4 0.3841 -0.30079 0.380 0.000 0.000 0.616 0.000 0.004
#> SRR1177726 3 0.1701 0.88998 0.072 0.000 0.920 0.000 0.008 0.000
#> SRR1177727 1 0.3774 0.86340 0.592 0.000 0.000 0.408 0.000 0.000
#> SRR1177728 3 0.1588 0.89165 0.072 0.000 0.924 0.000 0.004 0.000
#> SRR1177729 4 0.3907 -0.41663 0.408 0.000 0.000 0.588 0.000 0.004
#> SRR1177730 3 0.4894 0.53030 0.268 0.000 0.644 0.080 0.008 0.000
#> SRR1177731 1 0.4374 0.83169 0.532 0.000 0.016 0.448 0.004 0.000
#> SRR1177732 1 0.3774 0.86340 0.592 0.000 0.000 0.408 0.000 0.000
#> SRR1177733 4 0.1411 0.64821 0.060 0.000 0.000 0.936 0.004 0.000
#> SRR1177734 4 0.1411 0.64821 0.060 0.000 0.000 0.936 0.004 0.000
#> SRR1177735 4 0.1349 0.65156 0.056 0.000 0.000 0.940 0.004 0.000
#> SRR1177736 4 0.1349 0.65156 0.056 0.000 0.000 0.940 0.004 0.000
#> SRR1177737 2 0.3982 0.59103 0.016 0.696 0.000 0.280 0.008 0.000
#> SRR1177738 3 0.0922 0.89086 0.024 0.004 0.968 0.004 0.000 0.000
#> SRR1177739 4 0.1411 0.64821 0.060 0.000 0.000 0.936 0.004 0.000
#> SRR1177740 4 0.1411 0.64821 0.060 0.000 0.000 0.936 0.004 0.000
#> SRR1177741 1 0.3782 0.86009 0.588 0.000 0.000 0.412 0.000 0.000
#> SRR1177742 3 0.1588 0.89165 0.072 0.000 0.924 0.000 0.004 0.000
#> SRR1177743 1 0.4344 0.87164 0.568 0.000 0.012 0.412 0.008 0.000
#> SRR1177744 1 0.4344 0.87164 0.568 0.000 0.012 0.412 0.008 0.000
#> SRR1177745 2 0.5761 0.27608 0.112 0.472 0.000 0.400 0.016 0.000
#> SRR1177746 2 0.5761 0.27608 0.112 0.472 0.000 0.400 0.016 0.000
#> SRR1177747 1 0.4989 0.86429 0.532 0.000 0.052 0.408 0.008 0.000
#> SRR1177748 3 0.1531 0.89332 0.068 0.000 0.928 0.000 0.004 0.000
#> SRR1177749 4 0.3995 -0.64683 0.480 0.000 0.000 0.516 0.000 0.004
#> SRR1177750 4 0.3695 -0.28137 0.376 0.000 0.000 0.624 0.000 0.000
#> SRR1177751 4 0.3841 -0.30079 0.380 0.000 0.000 0.616 0.000 0.004
#> SRR1177752 4 0.3841 -0.30079 0.380 0.000 0.000 0.616 0.000 0.004
#> SRR1177753 1 0.4374 0.83169 0.532 0.000 0.016 0.448 0.004 0.000
#> SRR1177754 1 0.4374 0.83169 0.532 0.000 0.016 0.448 0.004 0.000
#> SRR1177755 4 0.3930 -0.46463 0.420 0.000 0.000 0.576 0.000 0.004
#> SRR1177756 4 0.3844 -0.00755 0.312 0.004 0.000 0.676 0.008 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["SD", "kmeans"]
# you can also extract it by
# res = res_list["SD:kmeans"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'SD' method.
#> Subgroups are detected by 'kmeans' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.584 0.832 0.922 0.4795 0.506 0.506
#> 3 3 0.781 0.872 0.933 0.3108 0.735 0.530
#> 4 4 0.681 0.732 0.843 0.1454 0.802 0.512
#> 5 5 0.666 0.576 0.774 0.0778 0.930 0.754
#> 6 6 0.667 0.492 0.692 0.0438 0.930 0.724
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.9283 0.000 1.000
#> SRR1026871 2 0.0000 0.9283 0.000 1.000
#> SRR1026872 2 0.0000 0.9283 0.000 1.000
#> SRR1026873 1 0.1843 0.8983 0.972 0.028
#> SRR1026874 1 0.0000 0.8972 1.000 0.000
#> SRR1026875 2 0.0000 0.9283 0.000 1.000
#> SRR1026876 2 0.0000 0.9283 0.000 1.000
#> SRR1026877 1 0.0000 0.8972 1.000 0.000
#> SRR1026878 1 0.0000 0.8972 1.000 0.000
#> SRR1026879 1 0.0938 0.8982 0.988 0.012
#> SRR1026880 1 0.0000 0.8972 1.000 0.000
#> SRR1026881 2 0.0000 0.9283 0.000 1.000
#> SRR1026882 2 0.0000 0.9283 0.000 1.000
#> SRR1026883 2 0.0000 0.9283 0.000 1.000
#> SRR1026884 2 0.0000 0.9283 0.000 1.000
#> SRR1026885 2 0.9732 0.2443 0.404 0.596
#> SRR1026886 2 0.9732 0.2443 0.404 0.596
#> SRR1026887 1 0.0000 0.8972 1.000 0.000
#> SRR1026888 1 0.0000 0.8972 1.000 0.000
#> SRR1026889 2 0.0000 0.9283 0.000 1.000
#> SRR1026890 2 0.0000 0.9283 0.000 1.000
#> SRR1026891 1 0.5294 0.8729 0.880 0.120
#> SRR1026892 1 0.5294 0.8729 0.880 0.120
#> SRR1026893 1 0.0000 0.8972 1.000 0.000
#> SRR1026894 1 0.0000 0.8972 1.000 0.000
#> SRR1026895 2 0.0000 0.9283 0.000 1.000
#> SRR1026896 2 0.0000 0.9283 0.000 1.000
#> SRR1026897 1 0.0672 0.8980 0.992 0.008
#> SRR1026898 1 0.2948 0.8960 0.948 0.052
#> SRR1026899 1 0.0000 0.8972 1.000 0.000
#> SRR1026900 2 0.0000 0.9283 0.000 1.000
#> SRR1026901 2 0.0000 0.9283 0.000 1.000
#> SRR1026902 1 0.9491 0.5206 0.632 0.368
#> SRR1026903 1 0.9491 0.5206 0.632 0.368
#> SRR1026904 2 0.8713 0.5246 0.292 0.708
#> SRR1026905 2 0.8713 0.5246 0.292 0.708
#> SRR1026906 2 0.0000 0.9283 0.000 1.000
#> SRR1026907 2 0.0000 0.9283 0.000 1.000
#> SRR1026908 2 0.0000 0.9283 0.000 1.000
#> SRR1026909 2 0.0000 0.9283 0.000 1.000
#> SRR1026910 2 0.0000 0.9283 0.000 1.000
#> SRR1026911 2 0.0000 0.9283 0.000 1.000
#> SRR1026912 1 0.5294 0.8300 0.880 0.120
#> SRR1026913 1 0.5294 0.8300 0.880 0.120
#> SRR1026914 2 0.0000 0.9283 0.000 1.000
#> SRR1026915 2 0.0000 0.9283 0.000 1.000
#> SRR1026916 2 0.0000 0.9283 0.000 1.000
#> SRR1026917 2 0.0000 0.9283 0.000 1.000
#> SRR1026918 2 0.0000 0.9283 0.000 1.000
#> SRR1026919 2 0.0000 0.9283 0.000 1.000
#> SRR1026920 2 0.0000 0.9283 0.000 1.000
#> SRR1026921 2 0.0000 0.9283 0.000 1.000
#> SRR1026922 2 0.0000 0.9283 0.000 1.000
#> SRR1026923 2 0.0000 0.9283 0.000 1.000
#> SRR1026924 2 0.0000 0.9283 0.000 1.000
#> SRR1026925 1 0.0000 0.8972 1.000 0.000
#> SRR1026926 2 0.0000 0.9283 0.000 1.000
#> SRR1026927 1 0.4815 0.8828 0.896 0.104
#> SRR1026928 2 0.0000 0.9283 0.000 1.000
#> SRR1026929 1 0.0000 0.8972 1.000 0.000
#> SRR1026930 2 0.0000 0.9283 0.000 1.000
#> SRR1026931 2 0.0000 0.9283 0.000 1.000
#> SRR1026932 2 0.0000 0.9283 0.000 1.000
#> SRR1026933 2 0.0000 0.9283 0.000 1.000
#> SRR1026934 2 0.0000 0.9283 0.000 1.000
#> SRR1026935 2 0.0000 0.9283 0.000 1.000
#> SRR1026936 2 0.0000 0.9283 0.000 1.000
#> SRR1026937 2 0.0000 0.9283 0.000 1.000
#> SRR1026938 2 0.0000 0.9283 0.000 1.000
#> SRR1026939 2 0.0000 0.9283 0.000 1.000
#> SRR1026940 1 0.4939 0.8806 0.892 0.108
#> SRR1026941 1 0.0000 0.8972 1.000 0.000
#> SRR1026942 1 0.5294 0.8729 0.880 0.120
#> SRR1026943 1 0.9933 0.2979 0.548 0.452
#> SRR1026944 1 0.3114 0.8953 0.944 0.056
#> SRR1026945 1 0.0000 0.8972 1.000 0.000
#> SRR1026947 2 0.0000 0.9283 0.000 1.000
#> SRR1026946 2 0.0000 0.9283 0.000 1.000
#> SRR1026948 2 0.0000 0.9283 0.000 1.000
#> SRR1026949 2 0.9970 -0.0025 0.468 0.532
#> SRR1026950 1 0.4939 0.8806 0.892 0.108
#> SRR1026951 2 0.1414 0.9095 0.020 0.980
#> SRR1026952 1 0.4690 0.8838 0.900 0.100
#> SRR1026953 1 0.0000 0.8972 1.000 0.000
#> SRR1026954 2 0.9775 0.2188 0.412 0.588
#> SRR1026955 2 0.0000 0.9283 0.000 1.000
#> SRR1026956 1 0.7602 0.7711 0.780 0.220
#> SRR1026957 2 0.0000 0.9283 0.000 1.000
#> SRR1026958 1 0.5294 0.8729 0.880 0.120
#> SRR1026959 2 0.0000 0.9283 0.000 1.000
#> SRR1026960 2 0.0000 0.9283 0.000 1.000
#> SRR1026961 2 0.0000 0.9283 0.000 1.000
#> SRR1026962 1 0.4690 0.8838 0.900 0.100
#> SRR1026963 1 0.1843 0.8983 0.972 0.028
#> SRR1026964 2 0.0000 0.9283 0.000 1.000
#> SRR1026965 2 0.0000 0.9283 0.000 1.000
#> SRR1026966 1 0.0000 0.8972 1.000 0.000
#> SRR1026967 1 0.0000 0.8972 1.000 0.000
#> SRR1026968 2 0.0000 0.9283 0.000 1.000
#> SRR1026969 2 0.9710 0.2575 0.400 0.600
#> SRR1026970 2 0.9754 0.2310 0.408 0.592
#> SRR1026971 2 0.9754 0.2310 0.408 0.592
#> SRR1026972 2 0.9608 0.3042 0.384 0.616
#> SRR1026973 2 0.9608 0.3042 0.384 0.616
#> SRR1026974 1 0.4939 0.8806 0.892 0.108
#> SRR1026975 1 0.4939 0.8806 0.892 0.108
#> SRR1026976 1 0.9970 0.2450 0.532 0.468
#> SRR1026977 1 0.9970 0.2450 0.532 0.468
#> SRR1026978 2 0.0000 0.9283 0.000 1.000
#> SRR1026979 1 0.0000 0.8972 1.000 0.000
#> SRR1026980 2 0.0000 0.9283 0.000 1.000
#> SRR1026981 1 0.0000 0.8972 1.000 0.000
#> SRR1026982 2 0.0000 0.9283 0.000 1.000
#> SRR1026983 2 0.0000 0.9283 0.000 1.000
#> SRR1026984 2 0.0000 0.9283 0.000 1.000
#> SRR1026985 2 0.0000 0.9283 0.000 1.000
#> SRR1026986 2 0.0000 0.9283 0.000 1.000
#> SRR1026987 1 0.9866 0.3556 0.568 0.432
#> SRR1026988 1 0.0000 0.8972 1.000 0.000
#> SRR1026989 1 0.0000 0.8972 1.000 0.000
#> SRR1026990 2 0.9661 0.2813 0.392 0.608
#> SRR1026991 1 0.0000 0.8972 1.000 0.000
#> SRR1026992 1 0.4815 0.8823 0.896 0.104
#> SRR1026993 1 0.4939 0.8806 0.892 0.108
#> SRR1026994 2 0.0000 0.9283 0.000 1.000
#> SRR1026995 1 0.5059 0.8782 0.888 0.112
#> SRR1026996 2 0.9686 0.2695 0.396 0.604
#> SRR1026997 2 0.9686 0.2695 0.396 0.604
#> SRR1026998 1 0.0000 0.8972 1.000 0.000
#> SRR1026999 1 0.0000 0.8972 1.000 0.000
#> SRR1027000 1 0.4939 0.8806 0.892 0.108
#> SRR1027001 1 0.0000 0.8972 1.000 0.000
#> SRR1027002 2 0.0000 0.9283 0.000 1.000
#> SRR1027003 2 0.0000 0.9283 0.000 1.000
#> SRR1027004 1 0.4161 0.8888 0.916 0.084
#> SRR1027005 1 0.0000 0.8972 1.000 0.000
#> SRR1027006 1 0.0000 0.8972 1.000 0.000
#> SRR1027007 2 0.3431 0.8671 0.064 0.936
#> SRR1027008 1 0.5294 0.8729 0.880 0.120
#> SRR1027009 1 0.0000 0.8972 1.000 0.000
#> SRR1027010 1 0.0000 0.8972 1.000 0.000
#> SRR1027011 1 0.0000 0.8972 1.000 0.000
#> SRR1177668 1 0.0000 0.8972 1.000 0.000
#> SRR1177667 1 0.4562 0.8852 0.904 0.096
#> SRR1177669 1 0.0000 0.8972 1.000 0.000
#> SRR1177670 1 0.0000 0.8972 1.000 0.000
#> SRR1177671 2 0.0000 0.9283 0.000 1.000
#> SRR1177672 1 0.0000 0.8972 1.000 0.000
#> SRR1177673 1 0.0672 0.8980 0.992 0.008
#> SRR1177674 1 0.0000 0.8972 1.000 0.000
#> SRR1177675 1 0.4161 0.8888 0.916 0.084
#> SRR1177676 1 0.0000 0.8972 1.000 0.000
#> SRR1177677 1 0.5294 0.8729 0.880 0.120
#> SRR1177678 1 0.2043 0.8981 0.968 0.032
#> SRR1177679 2 0.0000 0.9283 0.000 1.000
#> SRR1177680 2 0.0000 0.9283 0.000 1.000
#> SRR1177681 1 0.4939 0.8806 0.892 0.108
#> SRR1177682 1 0.8608 0.6773 0.716 0.284
#> SRR1177683 2 0.0000 0.9283 0.000 1.000
#> SRR1177684 2 0.0000 0.9283 0.000 1.000
#> SRR1177685 1 0.3114 0.8953 0.944 0.056
#> SRR1177686 1 0.0000 0.8972 1.000 0.000
#> SRR1177687 2 0.0000 0.9283 0.000 1.000
#> SRR1177688 1 0.4939 0.8806 0.892 0.108
#> SRR1177689 2 0.0000 0.9283 0.000 1.000
#> SRR1177690 1 0.6887 0.8134 0.816 0.184
#> SRR1177691 2 0.0000 0.9283 0.000 1.000
#> SRR1177692 2 0.0000 0.9283 0.000 1.000
#> SRR1177693 2 0.0000 0.9283 0.000 1.000
#> SRR1177694 2 0.0000 0.9283 0.000 1.000
#> SRR1177695 1 0.8909 0.6359 0.692 0.308
#> SRR1177697 1 0.6801 0.8178 0.820 0.180
#> SRR1177696 1 0.1184 0.8983 0.984 0.016
#> SRR1177698 1 0.0000 0.8972 1.000 0.000
#> SRR1177700 1 0.4939 0.8806 0.892 0.108
#> SRR1177701 1 0.9850 0.3679 0.572 0.428
#> SRR1177702 1 0.3584 0.8934 0.932 0.068
#> SRR1177703 1 0.7950 0.7446 0.760 0.240
#> SRR1177704 1 0.6973 0.7976 0.812 0.188
#> SRR1177705 1 0.9286 0.5696 0.656 0.344
#> SRR1177706 2 0.0000 0.9283 0.000 1.000
#> SRR1177707 1 0.8608 0.6792 0.716 0.284
#> SRR1177708 1 0.4939 0.8806 0.892 0.108
#> SRR1177709 1 0.1633 0.8986 0.976 0.024
#> SRR1177710 1 0.0000 0.8972 1.000 0.000
#> SRR1177711 1 0.2778 0.8965 0.952 0.048
#> SRR1177712 1 0.8443 0.7011 0.728 0.272
#> SRR1177714 2 0.0000 0.9283 0.000 1.000
#> SRR1177713 1 0.2236 0.8978 0.964 0.036
#> SRR1177715 2 0.0000 0.9283 0.000 1.000
#> SRR1177716 1 0.0000 0.8972 1.000 0.000
#> SRR1177717 1 0.4939 0.8806 0.892 0.108
#> SRR1177718 1 0.3114 0.8953 0.944 0.056
#> SRR1177719 1 0.5294 0.8729 0.880 0.120
#> SRR1177720 1 0.0000 0.8972 1.000 0.000
#> SRR1177721 2 0.0000 0.9283 0.000 1.000
#> SRR1177722 2 0.0000 0.9283 0.000 1.000
#> SRR1177723 1 0.4939 0.8806 0.892 0.108
#> SRR1177725 1 0.4690 0.8838 0.900 0.100
#> SRR1177724 1 0.4939 0.8806 0.892 0.108
#> SRR1177726 1 0.0000 0.8972 1.000 0.000
#> SRR1177727 1 0.0672 0.8980 0.992 0.008
#> SRR1177728 1 0.0000 0.8972 1.000 0.000
#> SRR1177729 1 0.5294 0.8729 0.880 0.120
#> SRR1177730 1 0.0000 0.8972 1.000 0.000
#> SRR1177731 1 0.0672 0.8980 0.992 0.008
#> SRR1177732 1 0.0000 0.8972 1.000 0.000
#> SRR1177733 1 0.9000 0.6244 0.684 0.316
#> SRR1177734 1 0.5059 0.8782 0.888 0.112
#> SRR1177735 2 0.9775 0.2199 0.412 0.588
#> SRR1177736 1 0.2043 0.8981 0.968 0.032
#> SRR1177737 2 0.0000 0.9283 0.000 1.000
#> SRR1177738 1 0.2948 0.8777 0.948 0.052
#> SRR1177739 1 0.4939 0.8806 0.892 0.108
#> SRR1177740 1 0.9775 0.4095 0.588 0.412
#> SRR1177741 1 0.2043 0.8981 0.968 0.032
#> SRR1177742 1 0.0000 0.8972 1.000 0.000
#> SRR1177743 1 0.0000 0.8972 1.000 0.000
#> SRR1177744 1 0.0000 0.8972 1.000 0.000
#> SRR1177745 2 0.0000 0.9283 0.000 1.000
#> SRR1177746 2 0.0000 0.9283 0.000 1.000
#> SRR1177747 1 0.0000 0.8972 1.000 0.000
#> SRR1177748 1 0.0000 0.8972 1.000 0.000
#> SRR1177749 1 0.3114 0.8953 0.944 0.056
#> SRR1177750 1 0.5294 0.8729 0.880 0.120
#> SRR1177751 1 0.9970 0.2398 0.532 0.468
#> SRR1177752 1 0.4939 0.8806 0.892 0.108
#> SRR1177753 1 0.4939 0.8806 0.892 0.108
#> SRR1177754 1 0.0000 0.8972 1.000 0.000
#> SRR1177755 1 0.6623 0.8263 0.828 0.172
#> SRR1177756 1 0.9970 0.2398 0.532 0.468
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026874 3 0.6045 0.412 0.380 0.000 0.620
#> SRR1026875 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026877 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026878 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026879 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026880 1 0.3116 0.835 0.892 0.000 0.108
#> SRR1026881 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026883 2 0.5070 0.763 0.224 0.772 0.004
#> SRR1026884 2 0.5070 0.763 0.224 0.772 0.004
#> SRR1026885 1 0.4047 0.798 0.848 0.148 0.004
#> SRR1026886 1 0.4047 0.798 0.848 0.148 0.004
#> SRR1026887 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026888 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026889 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026890 2 0.5070 0.763 0.224 0.772 0.004
#> SRR1026891 1 0.0237 0.949 0.996 0.000 0.004
#> SRR1026892 1 0.0237 0.949 0.996 0.000 0.004
#> SRR1026893 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026894 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026895 2 0.5070 0.763 0.224 0.772 0.004
#> SRR1026896 2 0.5070 0.763 0.224 0.772 0.004
#> SRR1026897 3 0.4555 0.751 0.200 0.000 0.800
#> SRR1026898 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026899 1 0.4842 0.653 0.776 0.000 0.224
#> SRR1026900 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026901 2 0.5024 0.766 0.220 0.776 0.004
#> SRR1026902 1 0.1399 0.936 0.968 0.028 0.004
#> SRR1026903 1 0.1399 0.936 0.968 0.028 0.004
#> SRR1026904 2 0.6008 0.624 0.332 0.664 0.004
#> SRR1026905 2 0.6008 0.624 0.332 0.664 0.004
#> SRR1026906 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026910 2 0.5982 0.630 0.328 0.668 0.004
#> SRR1026911 2 0.5982 0.630 0.328 0.668 0.004
#> SRR1026912 3 0.1399 0.953 0.028 0.004 0.968
#> SRR1026913 3 0.1399 0.953 0.028 0.004 0.968
#> SRR1026914 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026918 2 0.2400 0.854 0.064 0.932 0.004
#> SRR1026919 2 0.2400 0.854 0.064 0.932 0.004
#> SRR1026920 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026924 2 0.4883 0.776 0.208 0.788 0.004
#> SRR1026925 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026926 2 0.5070 0.763 0.224 0.772 0.004
#> SRR1026927 1 0.0237 0.949 0.996 0.000 0.004
#> SRR1026928 2 0.4654 0.778 0.208 0.792 0.000
#> SRR1026929 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026930 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026931 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026936 2 0.5982 0.630 0.328 0.668 0.004
#> SRR1026937 2 0.5982 0.630 0.328 0.668 0.004
#> SRR1026938 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026940 1 0.0237 0.949 0.996 0.000 0.004
#> SRR1026941 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1026942 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026943 1 0.1129 0.941 0.976 0.020 0.004
#> SRR1026944 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026945 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1026947 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026949 1 0.0983 0.943 0.980 0.016 0.004
#> SRR1026950 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026951 2 0.5785 0.675 0.300 0.696 0.004
#> SRR1026952 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026953 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1026954 1 0.4733 0.724 0.800 0.196 0.004
#> SRR1026955 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026956 1 0.0661 0.947 0.988 0.008 0.004
#> SRR1026957 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026958 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1026960 1 0.1765 0.925 0.956 0.040 0.004
#> SRR1026961 2 0.5070 0.763 0.224 0.772 0.004
#> SRR1026962 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026964 2 0.5982 0.630 0.328 0.668 0.004
#> SRR1026965 2 0.5982 0.630 0.328 0.668 0.004
#> SRR1026966 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026967 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026968 2 0.5982 0.630 0.328 0.668 0.004
#> SRR1026969 1 0.1525 0.933 0.964 0.032 0.004
#> SRR1026970 1 0.1129 0.941 0.976 0.020 0.004
#> SRR1026971 1 0.1129 0.941 0.976 0.020 0.004
#> SRR1026972 1 0.4883 0.704 0.788 0.208 0.004
#> SRR1026973 1 0.4883 0.704 0.788 0.208 0.004
#> SRR1026974 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026976 1 0.2200 0.911 0.940 0.056 0.004
#> SRR1026977 1 0.2200 0.911 0.940 0.056 0.004
#> SRR1026978 1 0.1525 0.931 0.964 0.032 0.004
#> SRR1026979 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1026980 2 0.4883 0.776 0.208 0.788 0.004
#> SRR1026981 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026982 2 0.6209 0.552 0.368 0.628 0.004
#> SRR1026983 2 0.6209 0.552 0.368 0.628 0.004
#> SRR1026984 2 0.5070 0.763 0.224 0.772 0.004
#> SRR1026985 2 0.5070 0.763 0.224 0.772 0.004
#> SRR1026986 1 0.1411 0.930 0.964 0.036 0.000
#> SRR1026987 1 0.0983 0.943 0.980 0.016 0.004
#> SRR1026988 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026989 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1026990 1 0.1525 0.933 0.964 0.032 0.004
#> SRR1026991 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026992 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1026994 2 0.5815 0.664 0.304 0.692 0.004
#> SRR1026995 1 0.0237 0.949 0.996 0.000 0.004
#> SRR1026996 1 0.5480 0.593 0.732 0.264 0.004
#> SRR1026997 1 0.5480 0.593 0.732 0.264 0.004
#> SRR1026998 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1026999 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1027000 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1027001 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1027002 1 0.5254 0.605 0.736 0.264 0.000
#> SRR1027003 2 0.6516 0.228 0.480 0.516 0.004
#> SRR1027004 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1027005 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1027006 1 0.2066 0.903 0.940 0.000 0.060
#> SRR1027007 1 0.1267 0.938 0.972 0.024 0.004
#> SRR1027008 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1027009 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1027010 3 0.6168 0.394 0.412 0.000 0.588
#> SRR1027011 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177668 1 0.5905 0.371 0.648 0.000 0.352
#> SRR1177667 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177669 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177670 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177671 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177672 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177673 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177674 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177675 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177676 3 0.2711 0.913 0.088 0.000 0.912
#> SRR1177677 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177679 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177680 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177681 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177682 1 0.0424 0.948 0.992 0.008 0.000
#> SRR1177683 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177686 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177687 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177688 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177689 1 0.1525 0.931 0.964 0.032 0.004
#> SRR1177690 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177692 2 0.0237 0.881 0.000 0.996 0.004
#> SRR1177693 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177695 1 0.0424 0.948 0.992 0.008 0.000
#> SRR1177697 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177696 1 0.0237 0.948 0.996 0.000 0.004
#> SRR1177698 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177700 1 0.0237 0.949 0.996 0.000 0.004
#> SRR1177701 1 0.1129 0.941 0.976 0.020 0.004
#> SRR1177702 1 0.6215 0.228 0.572 0.000 0.428
#> SRR1177703 1 0.0661 0.947 0.988 0.008 0.004
#> SRR1177704 3 0.8512 0.536 0.212 0.176 0.612
#> SRR1177705 1 0.0983 0.943 0.980 0.016 0.004
#> SRR1177706 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177707 1 0.0661 0.947 0.988 0.008 0.004
#> SRR1177708 1 0.0237 0.949 0.996 0.000 0.004
#> SRR1177709 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177710 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177711 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177712 1 0.1315 0.940 0.972 0.008 0.020
#> SRR1177714 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177713 3 0.6045 0.412 0.380 0.000 0.620
#> SRR1177715 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177716 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177717 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177720 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1177721 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177726 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177727 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177728 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177729 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177730 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177731 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177732 1 0.4842 0.653 0.776 0.000 0.224
#> SRR1177733 1 0.0829 0.945 0.984 0.012 0.004
#> SRR1177734 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177735 1 0.0983 0.943 0.980 0.016 0.004
#> SRR1177736 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177737 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177738 3 0.1289 0.957 0.032 0.000 0.968
#> SRR1177739 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177740 1 0.0983 0.943 0.980 0.016 0.004
#> SRR1177741 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177742 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177743 1 0.4842 0.653 0.776 0.000 0.224
#> SRR1177744 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177745 2 0.0237 0.881 0.000 0.996 0.004
#> SRR1177746 2 0.0000 0.883 0.000 1.000 0.000
#> SRR1177747 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177748 3 0.1411 0.958 0.036 0.000 0.964
#> SRR1177749 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177751 1 0.0892 0.942 0.980 0.020 0.000
#> SRR1177752 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177754 1 0.3551 0.804 0.868 0.000 0.132
#> SRR1177755 1 0.0000 0.950 1.000 0.000 0.000
#> SRR1177756 1 0.0747 0.944 0.984 0.016 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0592 0.8901 0.000 0.984 0.000 0.016
#> SRR1026871 2 0.0592 0.8901 0.000 0.984 0.000 0.016
#> SRR1026872 2 0.0469 0.8903 0.000 0.988 0.000 0.012
#> SRR1026873 1 0.0188 0.8765 0.996 0.000 0.000 0.004
#> SRR1026874 3 0.7006 0.1278 0.428 0.000 0.456 0.116
#> SRR1026875 2 0.0000 0.8891 0.000 1.000 0.000 0.000
#> SRR1026876 2 0.0000 0.8891 0.000 1.000 0.000 0.000
#> SRR1026877 3 0.2216 0.9168 0.000 0.000 0.908 0.092
#> SRR1026878 3 0.2216 0.9168 0.000 0.000 0.908 0.092
#> SRR1026879 1 0.1042 0.8679 0.972 0.000 0.020 0.008
#> SRR1026880 1 0.2401 0.8132 0.904 0.000 0.092 0.004
#> SRR1026881 2 0.4713 0.4638 0.000 0.640 0.000 0.360
#> SRR1026882 2 0.4134 0.6642 0.000 0.740 0.000 0.260
#> SRR1026883 4 0.4574 0.6903 0.024 0.220 0.000 0.756
#> SRR1026884 4 0.4574 0.6903 0.024 0.220 0.000 0.756
#> SRR1026885 4 0.4353 0.7300 0.232 0.012 0.000 0.756
#> SRR1026886 4 0.4353 0.7300 0.232 0.012 0.000 0.756
#> SRR1026887 3 0.2216 0.9168 0.000 0.000 0.908 0.092
#> SRR1026888 3 0.2216 0.9168 0.000 0.000 0.908 0.092
#> SRR1026889 2 0.0469 0.8901 0.000 0.988 0.000 0.012
#> SRR1026890 4 0.4538 0.6923 0.024 0.216 0.000 0.760
#> SRR1026891 4 0.4948 0.4301 0.440 0.000 0.000 0.560
#> SRR1026892 4 0.4948 0.4301 0.440 0.000 0.000 0.560
#> SRR1026893 3 0.2216 0.9168 0.000 0.000 0.908 0.092
#> SRR1026894 3 0.2216 0.9168 0.000 0.000 0.908 0.092
#> SRR1026895 4 0.4538 0.6923 0.024 0.216 0.000 0.760
#> SRR1026896 4 0.4538 0.6923 0.024 0.216 0.000 0.760
#> SRR1026897 3 0.6774 0.4425 0.312 0.000 0.568 0.120
#> SRR1026898 1 0.0707 0.8733 0.980 0.000 0.000 0.020
#> SRR1026899 1 0.2714 0.7959 0.884 0.000 0.112 0.004
#> SRR1026900 4 0.4356 0.5660 0.000 0.292 0.000 0.708
#> SRR1026901 4 0.3972 0.6840 0.008 0.204 0.000 0.788
#> SRR1026902 4 0.4295 0.7242 0.240 0.008 0.000 0.752
#> SRR1026903 4 0.4295 0.7242 0.240 0.008 0.000 0.752
#> SRR1026904 4 0.5032 0.7365 0.080 0.156 0.000 0.764
#> SRR1026905 4 0.5032 0.7365 0.080 0.156 0.000 0.764
#> SRR1026906 2 0.0469 0.8901 0.000 0.988 0.000 0.012
#> SRR1026907 2 0.0469 0.8901 0.000 0.988 0.000 0.012
#> SRR1026908 2 0.0469 0.8903 0.000 0.988 0.000 0.012
#> SRR1026909 2 0.0469 0.8903 0.000 0.988 0.000 0.012
#> SRR1026910 4 0.5076 0.7319 0.072 0.172 0.000 0.756
#> SRR1026911 4 0.5076 0.7319 0.072 0.172 0.000 0.756
#> SRR1026912 3 0.2281 0.9150 0.000 0.000 0.904 0.096
#> SRR1026913 3 0.2281 0.9150 0.000 0.000 0.904 0.096
#> SRR1026914 2 0.3172 0.7964 0.000 0.840 0.000 0.160
#> SRR1026915 2 0.3172 0.7964 0.000 0.840 0.000 0.160
#> SRR1026916 2 0.3219 0.7931 0.000 0.836 0.000 0.164
#> SRR1026917 2 0.3219 0.7931 0.000 0.836 0.000 0.164
#> SRR1026918 4 0.4262 0.6663 0.008 0.236 0.000 0.756
#> SRR1026919 4 0.4262 0.6663 0.008 0.236 0.000 0.756
#> SRR1026920 2 0.4382 0.6113 0.000 0.704 0.000 0.296
#> SRR1026921 2 0.4382 0.6113 0.000 0.704 0.000 0.296
#> SRR1026922 2 0.0592 0.8891 0.000 0.984 0.000 0.016
#> SRR1026923 2 0.1716 0.8683 0.000 0.936 0.000 0.064
#> SRR1026924 4 0.4538 0.6923 0.024 0.216 0.000 0.760
#> SRR1026925 3 0.2216 0.9168 0.000 0.000 0.908 0.092
#> SRR1026926 4 0.4574 0.6903 0.024 0.220 0.000 0.756
#> SRR1026927 4 0.4948 0.4301 0.440 0.000 0.000 0.560
#> SRR1026928 4 0.4609 0.6876 0.024 0.224 0.000 0.752
#> SRR1026929 3 0.2081 0.9179 0.000 0.000 0.916 0.084
#> SRR1026930 2 0.4999 0.0528 0.000 0.508 0.000 0.492
#> SRR1026931 2 0.0188 0.8888 0.000 0.996 0.000 0.004
#> SRR1026932 2 0.0000 0.8891 0.000 1.000 0.000 0.000
#> SRR1026933 2 0.0000 0.8891 0.000 1.000 0.000 0.000
#> SRR1026934 2 0.0469 0.8903 0.000 0.988 0.000 0.012
#> SRR1026935 2 0.0469 0.8903 0.000 0.988 0.000 0.012
#> SRR1026936 4 0.5033 0.7328 0.072 0.168 0.000 0.760
#> SRR1026937 4 0.5033 0.7328 0.072 0.168 0.000 0.760
#> SRR1026938 2 0.2081 0.8548 0.000 0.916 0.000 0.084
#> SRR1026939 2 0.2081 0.8548 0.000 0.916 0.000 0.084
#> SRR1026940 4 0.4730 0.5935 0.364 0.000 0.000 0.636
#> SRR1026941 3 0.1940 0.9186 0.000 0.000 0.924 0.076
#> SRR1026942 1 0.0336 0.8759 0.992 0.000 0.000 0.008
#> SRR1026943 1 0.4730 0.2311 0.636 0.000 0.000 0.364
#> SRR1026944 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1026945 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1026947 2 0.0000 0.8891 0.000 1.000 0.000 0.000
#> SRR1026946 2 0.0469 0.8901 0.000 0.988 0.000 0.012
#> SRR1026948 2 0.0000 0.8891 0.000 1.000 0.000 0.000
#> SRR1026949 4 0.4331 0.6877 0.288 0.000 0.000 0.712
#> SRR1026950 1 0.2216 0.7920 0.908 0.000 0.000 0.092
#> SRR1026951 4 0.4544 0.7223 0.048 0.164 0.000 0.788
#> SRR1026952 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1026953 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1026954 4 0.4669 0.7492 0.200 0.036 0.000 0.764
#> SRR1026955 2 0.0000 0.8891 0.000 1.000 0.000 0.000
#> SRR1026956 1 0.4994 -0.2060 0.520 0.000 0.000 0.480
#> SRR1026957 2 0.1867 0.8617 0.000 0.928 0.000 0.072
#> SRR1026958 1 0.4164 0.5016 0.736 0.000 0.000 0.264
#> SRR1026959 2 0.0000 0.8891 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.4053 0.7314 0.228 0.004 0.000 0.768
#> SRR1026961 4 0.4538 0.6901 0.024 0.216 0.000 0.760
#> SRR1026962 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1026963 1 0.0188 0.8765 0.996 0.000 0.000 0.004
#> SRR1026964 4 0.5076 0.7319 0.072 0.172 0.000 0.756
#> SRR1026965 4 0.5076 0.7319 0.072 0.172 0.000 0.756
#> SRR1026966 3 0.2081 0.9179 0.000 0.000 0.916 0.084
#> SRR1026967 3 0.2081 0.9179 0.000 0.000 0.916 0.084
#> SRR1026968 4 0.5033 0.7317 0.072 0.168 0.000 0.760
#> SRR1026969 4 0.4262 0.7315 0.236 0.008 0.000 0.756
#> SRR1026970 4 0.4889 0.5896 0.360 0.004 0.000 0.636
#> SRR1026971 4 0.4889 0.5896 0.360 0.004 0.000 0.636
#> SRR1026972 4 0.5557 0.6586 0.308 0.040 0.000 0.652
#> SRR1026973 4 0.5557 0.6586 0.308 0.040 0.000 0.652
#> SRR1026974 1 0.4431 0.4176 0.696 0.000 0.000 0.304
#> SRR1026975 1 0.4431 0.4176 0.696 0.000 0.000 0.304
#> SRR1026976 4 0.4434 0.7352 0.228 0.016 0.000 0.756
#> SRR1026977 4 0.4434 0.7352 0.228 0.016 0.000 0.756
#> SRR1026978 1 0.4996 -0.1604 0.516 0.000 0.000 0.484
#> SRR1026979 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1026980 4 0.4158 0.6605 0.008 0.224 0.000 0.768
#> SRR1026981 3 0.2011 0.9182 0.000 0.000 0.920 0.080
#> SRR1026982 4 0.5151 0.7426 0.100 0.140 0.000 0.760
#> SRR1026983 4 0.5151 0.7426 0.100 0.140 0.000 0.760
#> SRR1026984 4 0.4574 0.6876 0.024 0.220 0.000 0.756
#> SRR1026985 4 0.4574 0.6876 0.024 0.220 0.000 0.756
#> SRR1026986 4 0.4992 0.2686 0.476 0.000 0.000 0.524
#> SRR1026987 1 0.4981 -0.1245 0.536 0.000 0.000 0.464
#> SRR1026988 1 0.1209 0.8600 0.964 0.000 0.032 0.004
#> SRR1026989 3 0.0469 0.9178 0.000 0.000 0.988 0.012
#> SRR1026990 4 0.4295 0.7250 0.240 0.008 0.000 0.752
#> SRR1026991 3 0.0921 0.9185 0.000 0.000 0.972 0.028
#> SRR1026992 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1026993 1 0.0188 0.8770 0.996 0.000 0.000 0.004
#> SRR1026994 4 0.4801 0.7080 0.048 0.188 0.000 0.764
#> SRR1026995 1 0.2469 0.8004 0.892 0.000 0.000 0.108
#> SRR1026996 4 0.4800 0.7508 0.196 0.044 0.000 0.760
#> SRR1026997 4 0.4800 0.7508 0.196 0.044 0.000 0.760
#> SRR1026998 3 0.2216 0.9168 0.000 0.000 0.908 0.092
#> SRR1026999 3 0.2216 0.9168 0.000 0.000 0.908 0.092
#> SRR1027000 1 0.1022 0.8674 0.968 0.000 0.000 0.032
#> SRR1027001 3 0.3751 0.7273 0.196 0.000 0.800 0.004
#> SRR1027002 4 0.6305 0.3699 0.424 0.060 0.000 0.516
#> SRR1027003 4 0.6449 0.6232 0.140 0.220 0.000 0.640
#> SRR1027004 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1027005 3 0.1940 0.9186 0.000 0.000 0.924 0.076
#> SRR1027006 1 0.1743 0.8456 0.940 0.000 0.056 0.004
#> SRR1027007 4 0.4877 0.4957 0.408 0.000 0.000 0.592
#> SRR1027008 1 0.0707 0.8733 0.980 0.000 0.000 0.020
#> SRR1027009 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1027010 1 0.4741 0.4562 0.668 0.000 0.328 0.004
#> SRR1027011 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1177668 1 0.2976 0.7877 0.872 0.000 0.120 0.008
#> SRR1177667 1 0.0188 0.8768 0.996 0.000 0.000 0.004
#> SRR1177669 3 0.0895 0.9071 0.020 0.000 0.976 0.004
#> SRR1177670 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1177671 2 0.0336 0.8880 0.000 0.992 0.000 0.008
#> SRR1177672 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1177673 1 0.1059 0.8673 0.972 0.000 0.016 0.012
#> SRR1177674 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1177675 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177676 1 0.4535 0.5113 0.704 0.000 0.292 0.004
#> SRR1177677 1 0.0921 0.8708 0.972 0.000 0.000 0.028
#> SRR1177678 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177679 2 0.0592 0.8856 0.000 0.984 0.000 0.016
#> SRR1177680 4 0.5000 -0.0587 0.000 0.496 0.000 0.504
#> SRR1177681 1 0.0817 0.8717 0.976 0.000 0.000 0.024
#> SRR1177682 1 0.3172 0.7361 0.840 0.000 0.000 0.160
#> SRR1177683 2 0.0188 0.8883 0.000 0.996 0.000 0.004
#> SRR1177684 2 0.0336 0.8876 0.000 0.992 0.000 0.008
#> SRR1177685 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177686 3 0.1940 0.9186 0.000 0.000 0.924 0.076
#> SRR1177687 2 0.5000 0.0362 0.000 0.500 0.000 0.500
#> SRR1177688 1 0.0817 0.8717 0.976 0.000 0.000 0.024
#> SRR1177689 4 0.4996 0.2422 0.484 0.000 0.000 0.516
#> SRR1177690 1 0.0817 0.8717 0.976 0.000 0.000 0.024
#> SRR1177691 2 0.0817 0.8821 0.000 0.976 0.000 0.024
#> SRR1177692 4 0.4999 -0.0436 0.000 0.492 0.000 0.508
#> SRR1177693 2 0.0336 0.8902 0.000 0.992 0.000 0.008
#> SRR1177694 2 0.3266 0.7851 0.000 0.832 0.000 0.168
#> SRR1177695 1 0.1867 0.8436 0.928 0.000 0.000 0.072
#> SRR1177697 1 0.0469 0.8754 0.988 0.000 0.000 0.012
#> SRR1177696 1 0.2563 0.8334 0.908 0.000 0.020 0.072
#> SRR1177698 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1177700 4 0.4679 0.6115 0.352 0.000 0.000 0.648
#> SRR1177701 4 0.4776 0.5634 0.376 0.000 0.000 0.624
#> SRR1177702 1 0.6961 0.1727 0.524 0.000 0.352 0.124
#> SRR1177703 4 0.4866 0.5096 0.404 0.000 0.000 0.596
#> SRR1177704 4 0.6083 0.0732 0.012 0.032 0.368 0.588
#> SRR1177705 1 0.4981 -0.1553 0.536 0.000 0.000 0.464
#> SRR1177706 2 0.1022 0.8747 0.000 0.968 0.000 0.032
#> SRR1177707 4 0.4746 0.5892 0.368 0.000 0.000 0.632
#> SRR1177708 4 0.4564 0.6433 0.328 0.000 0.000 0.672
#> SRR1177709 1 0.0188 0.8768 0.996 0.000 0.000 0.004
#> SRR1177710 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1177711 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177712 4 0.4477 0.5697 0.312 0.000 0.000 0.688
#> SRR1177714 2 0.0188 0.8888 0.000 0.996 0.000 0.004
#> SRR1177713 3 0.7047 0.1099 0.436 0.000 0.444 0.120
#> SRR1177715 2 0.6425 0.1233 0.068 0.508 0.000 0.424
#> SRR1177716 3 0.1940 0.9186 0.000 0.000 0.924 0.076
#> SRR1177717 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177718 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177719 1 0.0188 0.8768 0.996 0.000 0.000 0.004
#> SRR1177720 3 0.2149 0.9173 0.000 0.000 0.912 0.088
#> SRR1177721 2 0.0000 0.8891 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0188 0.8888 0.000 0.996 0.000 0.004
#> SRR1177723 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177725 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177724 1 0.0336 0.8764 0.992 0.000 0.000 0.008
#> SRR1177726 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1177727 1 0.0524 0.8733 0.988 0.000 0.008 0.004
#> SRR1177728 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1177729 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177730 3 0.0524 0.9128 0.008 0.000 0.988 0.004
#> SRR1177731 1 0.0188 0.8765 0.996 0.000 0.000 0.004
#> SRR1177732 1 0.2593 0.8025 0.892 0.000 0.104 0.004
#> SRR1177733 1 0.4977 -0.1406 0.540 0.000 0.000 0.460
#> SRR1177734 1 0.0336 0.8759 0.992 0.000 0.000 0.008
#> SRR1177735 4 0.4250 0.6990 0.276 0.000 0.000 0.724
#> SRR1177736 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177737 4 0.4040 0.6472 0.000 0.248 0.000 0.752
#> SRR1177738 3 0.2281 0.9150 0.000 0.000 0.904 0.096
#> SRR1177739 1 0.0469 0.8735 0.988 0.000 0.000 0.012
#> SRR1177740 1 0.4817 0.1490 0.612 0.000 0.000 0.388
#> SRR1177741 1 0.0188 0.8768 0.996 0.000 0.000 0.004
#> SRR1177742 3 0.0188 0.9159 0.000 0.000 0.996 0.004
#> SRR1177743 1 0.2593 0.8025 0.892 0.000 0.104 0.004
#> SRR1177744 3 0.4936 0.4164 0.372 0.000 0.624 0.004
#> SRR1177745 4 0.4999 -0.0436 0.000 0.492 0.000 0.508
#> SRR1177746 2 0.5000 0.0362 0.000 0.500 0.000 0.500
#> SRR1177747 3 0.0657 0.9117 0.012 0.000 0.984 0.004
#> SRR1177748 3 0.0592 0.9180 0.000 0.000 0.984 0.016
#> SRR1177749 1 0.0000 0.8773 1.000 0.000 0.000 0.000
#> SRR1177750 1 0.0817 0.8726 0.976 0.000 0.000 0.024
#> SRR1177751 1 0.1118 0.8665 0.964 0.000 0.000 0.036
#> SRR1177752 1 0.0188 0.8768 0.996 0.000 0.000 0.004
#> SRR1177753 1 0.0188 0.8768 0.996 0.000 0.000 0.004
#> SRR1177754 1 0.2611 0.8110 0.896 0.000 0.096 0.008
#> SRR1177755 1 0.0188 0.8770 0.996 0.000 0.000 0.004
#> SRR1177756 1 0.0921 0.8708 0.972 0.000 0.000 0.028
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.1582 0.85484 0.000 0.944 0.000 0.028 0.028
#> SRR1026871 2 0.1582 0.85484 0.000 0.944 0.000 0.028 0.028
#> SRR1026872 2 0.0807 0.85900 0.000 0.976 0.000 0.012 0.012
#> SRR1026873 1 0.4708 0.00482 0.548 0.000 0.000 0.016 0.436
#> SRR1026874 5 0.6776 0.42768 0.152 0.000 0.372 0.020 0.456
#> SRR1026875 2 0.1478 0.85066 0.000 0.936 0.000 0.000 0.064
#> SRR1026876 2 0.1478 0.85066 0.000 0.936 0.000 0.000 0.064
#> SRR1026877 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1026878 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1026879 1 0.4752 -0.03726 0.556 0.000 0.004 0.012 0.428
#> SRR1026880 5 0.6785 0.85392 0.328 0.000 0.212 0.008 0.452
#> SRR1026881 2 0.5435 0.28930 0.000 0.512 0.000 0.428 0.060
#> SRR1026882 2 0.5297 0.45660 0.000 0.580 0.000 0.360 0.060
#> SRR1026883 4 0.1205 0.76245 0.000 0.040 0.000 0.956 0.004
#> SRR1026884 4 0.1205 0.76245 0.000 0.040 0.000 0.956 0.004
#> SRR1026885 4 0.1857 0.76699 0.060 0.004 0.000 0.928 0.008
#> SRR1026886 4 0.1857 0.76699 0.060 0.004 0.000 0.928 0.008
#> SRR1026887 3 0.3934 0.78235 0.000 0.000 0.716 0.008 0.276
#> SRR1026888 3 0.3934 0.78235 0.000 0.000 0.716 0.008 0.276
#> SRR1026889 2 0.1836 0.84967 0.000 0.932 0.000 0.032 0.036
#> SRR1026890 4 0.1205 0.76245 0.000 0.040 0.000 0.956 0.004
#> SRR1026891 4 0.4318 0.53697 0.292 0.000 0.000 0.688 0.020
#> SRR1026892 4 0.4318 0.53697 0.292 0.000 0.000 0.688 0.020
#> SRR1026893 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1026894 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1026895 4 0.1484 0.75711 0.000 0.048 0.000 0.944 0.008
#> SRR1026896 4 0.1484 0.75711 0.000 0.048 0.000 0.944 0.008
#> SRR1026897 3 0.6476 -0.09018 0.112 0.000 0.484 0.020 0.384
#> SRR1026898 1 0.3636 0.39968 0.728 0.000 0.000 0.000 0.272
#> SRR1026899 5 0.6830 0.85570 0.308 0.000 0.232 0.008 0.452
#> SRR1026900 4 0.7294 0.42729 0.208 0.188 0.000 0.528 0.076
#> SRR1026901 4 0.5844 0.62405 0.216 0.060 0.000 0.664 0.060
#> SRR1026902 4 0.2462 0.74376 0.112 0.000 0.000 0.880 0.008
#> SRR1026903 4 0.2462 0.74376 0.112 0.000 0.000 0.880 0.008
#> SRR1026904 4 0.1026 0.77016 0.004 0.024 0.000 0.968 0.004
#> SRR1026905 4 0.1026 0.77016 0.004 0.024 0.000 0.968 0.004
#> SRR1026906 2 0.1836 0.84967 0.000 0.932 0.000 0.032 0.036
#> SRR1026907 2 0.1836 0.84967 0.000 0.932 0.000 0.032 0.036
#> SRR1026908 2 0.0451 0.85880 0.000 0.988 0.000 0.008 0.004
#> SRR1026909 2 0.0451 0.85880 0.000 0.988 0.000 0.008 0.004
#> SRR1026910 4 0.0992 0.77038 0.008 0.024 0.000 0.968 0.000
#> SRR1026911 4 0.0992 0.77038 0.008 0.024 0.000 0.968 0.000
#> SRR1026912 3 0.3934 0.78235 0.000 0.000 0.716 0.008 0.276
#> SRR1026913 3 0.3934 0.78235 0.000 0.000 0.716 0.008 0.276
#> SRR1026914 2 0.4769 0.64603 0.000 0.688 0.000 0.256 0.056
#> SRR1026915 2 0.4769 0.64603 0.000 0.688 0.000 0.256 0.056
#> SRR1026916 2 0.4769 0.64603 0.000 0.688 0.000 0.256 0.056
#> SRR1026917 2 0.4769 0.64603 0.000 0.688 0.000 0.256 0.056
#> SRR1026918 4 0.2719 0.72955 0.000 0.068 0.000 0.884 0.048
#> SRR1026919 4 0.2719 0.72955 0.000 0.068 0.000 0.884 0.048
#> SRR1026920 2 0.5498 0.24836 0.000 0.496 0.000 0.440 0.064
#> SRR1026921 2 0.5498 0.24836 0.000 0.496 0.000 0.440 0.064
#> SRR1026922 2 0.2370 0.84059 0.000 0.904 0.000 0.040 0.056
#> SRR1026923 2 0.3596 0.81160 0.016 0.844 0.000 0.084 0.056
#> SRR1026924 4 0.1408 0.75925 0.000 0.044 0.000 0.948 0.008
#> SRR1026925 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1026926 4 0.1043 0.76342 0.000 0.040 0.000 0.960 0.000
#> SRR1026927 4 0.4229 0.55904 0.276 0.000 0.000 0.704 0.020
#> SRR1026928 4 0.2790 0.72900 0.000 0.068 0.000 0.880 0.052
#> SRR1026929 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1026930 4 0.7430 0.00712 0.132 0.376 0.000 0.416 0.076
#> SRR1026931 2 0.0880 0.85807 0.000 0.968 0.000 0.000 0.032
#> SRR1026932 2 0.1478 0.85066 0.000 0.936 0.000 0.000 0.064
#> SRR1026933 2 0.1478 0.85066 0.000 0.936 0.000 0.000 0.064
#> SRR1026934 2 0.0579 0.85888 0.000 0.984 0.000 0.008 0.008
#> SRR1026935 2 0.0579 0.85888 0.000 0.984 0.000 0.008 0.008
#> SRR1026936 4 0.0794 0.76850 0.000 0.028 0.000 0.972 0.000
#> SRR1026937 4 0.0794 0.76850 0.000 0.028 0.000 0.972 0.000
#> SRR1026938 2 0.3413 0.79495 0.000 0.832 0.000 0.124 0.044
#> SRR1026939 2 0.3413 0.79495 0.000 0.832 0.000 0.124 0.044
#> SRR1026940 4 0.4557 0.46098 0.404 0.000 0.000 0.584 0.012
#> SRR1026941 3 0.3242 0.78784 0.000 0.000 0.784 0.000 0.216
#> SRR1026942 1 0.3759 0.47571 0.764 0.000 0.000 0.016 0.220
#> SRR1026943 1 0.3093 0.48535 0.824 0.000 0.000 0.168 0.008
#> SRR1026944 1 0.4451 0.31811 0.644 0.000 0.000 0.016 0.340
#> SRR1026945 3 0.2020 0.69773 0.000 0.000 0.900 0.000 0.100
#> SRR1026947 2 0.0404 0.85699 0.000 0.988 0.000 0.000 0.012
#> SRR1026946 2 0.1668 0.85159 0.000 0.940 0.000 0.032 0.028
#> SRR1026948 2 0.1608 0.84939 0.000 0.928 0.000 0.000 0.072
#> SRR1026949 4 0.4555 0.56671 0.344 0.000 0.000 0.636 0.020
#> SRR1026950 1 0.4237 0.52774 0.772 0.000 0.000 0.076 0.152
#> SRR1026951 4 0.5548 0.63910 0.220 0.040 0.000 0.680 0.060
#> SRR1026952 1 0.4269 0.39378 0.684 0.000 0.000 0.016 0.300
#> SRR1026953 3 0.0510 0.75206 0.000 0.000 0.984 0.000 0.016
#> SRR1026954 4 0.1728 0.77378 0.036 0.004 0.000 0.940 0.020
#> SRR1026955 2 0.1478 0.85066 0.000 0.936 0.000 0.000 0.064
#> SRR1026956 4 0.4878 0.19768 0.440 0.000 0.000 0.536 0.024
#> SRR1026957 2 0.3164 0.80899 0.000 0.852 0.000 0.104 0.044
#> SRR1026958 1 0.3615 0.50917 0.808 0.000 0.000 0.156 0.036
#> SRR1026959 2 0.1608 0.84939 0.000 0.928 0.000 0.000 0.072
#> SRR1026960 4 0.2616 0.75475 0.100 0.000 0.000 0.880 0.020
#> SRR1026961 4 0.2927 0.72546 0.000 0.068 0.000 0.872 0.060
#> SRR1026962 1 0.4497 0.29020 0.632 0.000 0.000 0.016 0.352
#> SRR1026963 1 0.4708 0.00482 0.548 0.000 0.000 0.016 0.436
#> SRR1026964 4 0.0955 0.76928 0.004 0.028 0.000 0.968 0.000
#> SRR1026965 4 0.0955 0.76928 0.004 0.028 0.000 0.968 0.000
#> SRR1026966 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1026967 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1026968 4 0.1690 0.76793 0.008 0.024 0.000 0.944 0.024
#> SRR1026969 4 0.2036 0.77073 0.056 0.000 0.000 0.920 0.024
#> SRR1026970 4 0.4147 0.53523 0.316 0.000 0.000 0.676 0.008
#> SRR1026971 4 0.4147 0.53523 0.316 0.000 0.000 0.676 0.008
#> SRR1026972 4 0.4359 0.56203 0.304 0.008 0.000 0.680 0.008
#> SRR1026973 4 0.4359 0.56203 0.304 0.008 0.000 0.680 0.008
#> SRR1026974 1 0.6387 0.19817 0.440 0.000 0.000 0.392 0.168
#> SRR1026975 1 0.6387 0.19817 0.440 0.000 0.000 0.392 0.168
#> SRR1026976 4 0.1740 0.76904 0.056 0.000 0.000 0.932 0.012
#> SRR1026977 4 0.1740 0.76904 0.056 0.000 0.000 0.932 0.012
#> SRR1026978 1 0.4114 0.44092 0.776 0.000 0.000 0.164 0.060
#> SRR1026979 3 0.0162 0.75580 0.000 0.000 0.996 0.000 0.004
#> SRR1026980 4 0.6709 0.54907 0.228 0.100 0.000 0.592 0.080
#> SRR1026981 3 0.3336 0.78785 0.000 0.000 0.772 0.000 0.228
#> SRR1026982 4 0.1710 0.76993 0.012 0.024 0.000 0.944 0.020
#> SRR1026983 4 0.1710 0.76993 0.012 0.024 0.000 0.944 0.020
#> SRR1026984 4 0.2989 0.72255 0.000 0.072 0.000 0.868 0.060
#> SRR1026985 4 0.2989 0.72255 0.000 0.072 0.000 0.868 0.060
#> SRR1026986 1 0.4610 0.41917 0.756 0.008 0.000 0.156 0.080
#> SRR1026987 1 0.3456 0.45432 0.800 0.000 0.000 0.184 0.016
#> SRR1026988 1 0.5985 -0.33173 0.480 0.000 0.068 0.016 0.436
#> SRR1026989 3 0.0404 0.76039 0.000 0.000 0.988 0.000 0.012
#> SRR1026990 4 0.2411 0.74362 0.108 0.000 0.000 0.884 0.008
#> SRR1026991 3 0.2230 0.77448 0.000 0.000 0.884 0.000 0.116
#> SRR1026992 1 0.3878 0.46650 0.748 0.000 0.000 0.016 0.236
#> SRR1026993 1 0.3988 0.45807 0.732 0.000 0.000 0.016 0.252
#> SRR1026994 4 0.6533 0.39673 0.428 0.060 0.000 0.456 0.056
#> SRR1026995 1 0.1430 0.53137 0.944 0.000 0.000 0.052 0.004
#> SRR1026996 4 0.1329 0.77253 0.032 0.008 0.000 0.956 0.004
#> SRR1026997 4 0.1329 0.77253 0.032 0.008 0.000 0.956 0.004
#> SRR1026998 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1026999 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1027000 1 0.1043 0.53552 0.960 0.000 0.000 0.000 0.040
#> SRR1027001 3 0.5685 -0.34707 0.084 0.000 0.520 0.000 0.396
#> SRR1027002 1 0.4745 0.42149 0.764 0.032 0.000 0.144 0.060
#> SRR1027003 1 0.6896 -0.13318 0.516 0.088 0.000 0.324 0.072
#> SRR1027004 1 0.3602 0.50924 0.796 0.000 0.000 0.024 0.180
#> SRR1027005 3 0.3242 0.78784 0.000 0.000 0.784 0.000 0.216
#> SRR1027006 1 0.6465 -0.46975 0.436 0.000 0.116 0.016 0.432
#> SRR1027007 1 0.4104 0.40513 0.748 0.000 0.000 0.220 0.032
#> SRR1027008 1 0.0807 0.54302 0.976 0.000 0.000 0.012 0.012
#> SRR1027009 3 0.0510 0.75206 0.000 0.000 0.984 0.000 0.016
#> SRR1027010 5 0.6631 0.84237 0.292 0.000 0.256 0.000 0.452
#> SRR1027011 3 0.0510 0.75206 0.000 0.000 0.984 0.000 0.016
#> SRR1177668 5 0.6828 0.82863 0.356 0.000 0.212 0.008 0.424
#> SRR1177667 1 0.4206 0.39609 0.696 0.000 0.000 0.016 0.288
#> SRR1177669 3 0.3452 0.48831 0.000 0.000 0.756 0.000 0.244
#> SRR1177670 3 0.2127 0.69028 0.000 0.000 0.892 0.000 0.108
#> SRR1177671 2 0.1851 0.84700 0.000 0.912 0.000 0.000 0.088
#> SRR1177672 3 0.2377 0.66925 0.000 0.000 0.872 0.000 0.128
#> SRR1177673 1 0.4622 -0.01287 0.548 0.000 0.000 0.012 0.440
#> SRR1177674 3 0.1671 0.71664 0.000 0.000 0.924 0.000 0.076
#> SRR1177675 1 0.4525 0.27070 0.624 0.000 0.000 0.016 0.360
#> SRR1177676 5 0.6627 0.79670 0.252 0.000 0.296 0.000 0.452
#> SRR1177677 1 0.0703 0.54019 0.976 0.000 0.000 0.000 0.024
#> SRR1177678 1 0.4610 0.19095 0.596 0.000 0.000 0.016 0.388
#> SRR1177679 2 0.2193 0.84237 0.008 0.900 0.000 0.000 0.092
#> SRR1177680 4 0.7644 0.31955 0.212 0.232 0.000 0.472 0.084
#> SRR1177681 1 0.1012 0.54291 0.968 0.000 0.000 0.012 0.020
#> SRR1177682 1 0.1549 0.52671 0.944 0.000 0.000 0.040 0.016
#> SRR1177683 2 0.1792 0.84707 0.000 0.916 0.000 0.000 0.084
#> SRR1177684 2 0.1792 0.84707 0.000 0.916 0.000 0.000 0.084
#> SRR1177685 1 0.4551 0.24945 0.616 0.000 0.000 0.016 0.368
#> SRR1177686 3 0.3210 0.78767 0.000 0.000 0.788 0.000 0.212
#> SRR1177687 4 0.7668 0.32012 0.212 0.228 0.000 0.472 0.088
#> SRR1177688 1 0.1012 0.54291 0.968 0.000 0.000 0.012 0.020
#> SRR1177689 1 0.4234 0.42270 0.760 0.000 0.000 0.184 0.056
#> SRR1177690 1 0.0290 0.54130 0.992 0.000 0.000 0.000 0.008
#> SRR1177691 2 0.2305 0.84005 0.012 0.896 0.000 0.000 0.092
#> SRR1177692 4 0.7668 0.32012 0.212 0.228 0.000 0.472 0.088
#> SRR1177693 2 0.0579 0.85876 0.000 0.984 0.000 0.008 0.008
#> SRR1177694 2 0.4878 0.63177 0.000 0.676 0.000 0.264 0.060
#> SRR1177695 1 0.1493 0.53314 0.948 0.000 0.000 0.028 0.024
#> SRR1177697 1 0.2046 0.54522 0.916 0.000 0.000 0.016 0.068
#> SRR1177696 1 0.3614 0.48146 0.852 0.000 0.048 0.052 0.048
#> SRR1177698 3 0.1671 0.71664 0.000 0.000 0.924 0.000 0.076
#> SRR1177700 4 0.4508 0.54373 0.332 0.000 0.000 0.648 0.020
#> SRR1177701 4 0.4402 0.45077 0.352 0.000 0.000 0.636 0.012
#> SRR1177702 1 0.7481 -0.35526 0.344 0.000 0.312 0.032 0.312
#> SRR1177703 4 0.4610 0.37139 0.388 0.000 0.000 0.596 0.016
#> SRR1177704 4 0.8151 0.16570 0.140 0.000 0.244 0.408 0.208
#> SRR1177705 1 0.3455 0.45556 0.784 0.000 0.000 0.208 0.008
#> SRR1177706 2 0.5450 0.63879 0.228 0.648 0.000 0.000 0.124
#> SRR1177707 4 0.4565 0.52902 0.308 0.000 0.000 0.664 0.028
#> SRR1177708 4 0.3912 0.66412 0.228 0.000 0.000 0.752 0.020
#> SRR1177709 1 0.3462 0.49486 0.792 0.000 0.000 0.012 0.196
#> SRR1177710 3 0.1908 0.70478 0.000 0.000 0.908 0.000 0.092
#> SRR1177711 1 0.4588 0.21484 0.604 0.000 0.000 0.016 0.380
#> SRR1177712 1 0.5836 -0.22152 0.492 0.000 0.000 0.412 0.096
#> SRR1177714 2 0.1608 0.84939 0.000 0.928 0.000 0.000 0.072
#> SRR1177713 3 0.6851 -0.37573 0.160 0.000 0.412 0.020 0.408
#> SRR1177715 1 0.7889 -0.16933 0.416 0.260 0.000 0.236 0.088
#> SRR1177716 3 0.3242 0.78784 0.000 0.000 0.784 0.000 0.216
#> SRR1177717 1 0.4114 0.43535 0.712 0.000 0.000 0.016 0.272
#> SRR1177718 1 0.4588 0.21484 0.604 0.000 0.000 0.016 0.380
#> SRR1177719 1 0.4333 0.48700 0.740 0.000 0.000 0.048 0.212
#> SRR1177720 3 0.3661 0.78557 0.000 0.000 0.724 0.000 0.276
#> SRR1177721 2 0.1608 0.84939 0.000 0.928 0.000 0.000 0.072
#> SRR1177722 2 0.1608 0.84939 0.000 0.928 0.000 0.000 0.072
#> SRR1177723 1 0.4065 0.44431 0.720 0.000 0.000 0.016 0.264
#> SRR1177725 1 0.4269 0.39479 0.684 0.000 0.000 0.016 0.300
#> SRR1177724 1 0.3906 0.46285 0.744 0.000 0.000 0.016 0.240
#> SRR1177726 3 0.0510 0.75206 0.000 0.000 0.984 0.000 0.016
#> SRR1177727 1 0.4708 0.00482 0.548 0.000 0.000 0.016 0.436
#> SRR1177728 3 0.0510 0.75206 0.000 0.000 0.984 0.000 0.016
#> SRR1177729 1 0.4040 0.44879 0.724 0.000 0.000 0.016 0.260
#> SRR1177730 3 0.4108 0.30153 0.008 0.000 0.684 0.000 0.308
#> SRR1177731 1 0.4708 0.00482 0.548 0.000 0.000 0.016 0.436
#> SRR1177732 5 0.6785 0.85392 0.328 0.000 0.212 0.008 0.452
#> SRR1177733 1 0.3196 0.46636 0.804 0.000 0.000 0.192 0.004
#> SRR1177734 1 0.2520 0.54819 0.896 0.000 0.000 0.056 0.048
#> SRR1177735 4 0.4663 0.54039 0.376 0.000 0.000 0.604 0.020
#> SRR1177736 1 0.4168 0.50321 0.756 0.000 0.000 0.044 0.200
#> SRR1177737 4 0.3527 0.68793 0.000 0.116 0.000 0.828 0.056
#> SRR1177738 3 0.3814 0.78401 0.000 0.000 0.720 0.004 0.276
#> SRR1177739 1 0.3569 0.54344 0.828 0.000 0.000 0.068 0.104
#> SRR1177740 1 0.2970 0.48193 0.828 0.000 0.000 0.168 0.004
#> SRR1177741 1 0.4538 0.23185 0.620 0.000 0.000 0.016 0.364
#> SRR1177742 3 0.0510 0.75206 0.000 0.000 0.984 0.000 0.016
#> SRR1177743 5 0.6785 0.85392 0.328 0.000 0.212 0.008 0.452
#> SRR1177744 3 0.6273 -0.59276 0.148 0.000 0.436 0.000 0.416
#> SRR1177745 4 0.7648 0.32446 0.208 0.228 0.000 0.476 0.088
#> SRR1177746 4 0.7686 0.31027 0.212 0.232 0.000 0.468 0.088
#> SRR1177747 3 0.2233 0.68851 0.004 0.000 0.892 0.000 0.104
#> SRR1177748 3 0.0290 0.75942 0.000 0.000 0.992 0.000 0.008
#> SRR1177749 1 0.4588 0.21484 0.604 0.000 0.000 0.016 0.380
#> SRR1177750 1 0.0880 0.54082 0.968 0.000 0.000 0.000 0.032
#> SRR1177751 1 0.0703 0.53638 0.976 0.000 0.000 0.000 0.024
#> SRR1177752 1 0.3906 0.46285 0.744 0.000 0.000 0.016 0.240
#> SRR1177753 1 0.3039 0.51904 0.836 0.000 0.000 0.012 0.152
#> SRR1177754 5 0.6849 0.82434 0.360 0.000 0.216 0.008 0.416
#> SRR1177755 1 0.3934 0.46553 0.740 0.000 0.000 0.016 0.244
#> SRR1177756 1 0.0162 0.54185 0.996 0.000 0.000 0.000 0.004
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.2002 0.76427 0.000 0.916 0.000 0.020 0.056 0.008
#> SRR1026871 2 0.2002 0.76427 0.000 0.916 0.000 0.020 0.056 0.008
#> SRR1026872 2 0.1080 0.77452 0.000 0.960 0.000 0.004 0.032 0.004
#> SRR1026873 6 0.4080 0.07638 0.456 0.000 0.000 0.008 0.000 0.536
#> SRR1026874 6 0.5789 0.41695 0.076 0.000 0.068 0.000 0.260 0.596
#> SRR1026875 2 0.2442 0.75793 0.000 0.852 0.000 0.000 0.144 0.004
#> SRR1026876 2 0.2442 0.75793 0.000 0.852 0.000 0.000 0.144 0.004
#> SRR1026877 3 0.0146 0.77427 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026878 3 0.0146 0.77427 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026879 6 0.3955 0.23607 0.384 0.000 0.000 0.008 0.000 0.608
#> SRR1026880 6 0.2964 0.50525 0.204 0.000 0.000 0.004 0.000 0.792
#> SRR1026881 4 0.5519 -0.17685 0.000 0.436 0.000 0.448 0.112 0.004
#> SRR1026882 2 0.5458 0.20979 0.000 0.512 0.000 0.372 0.112 0.004
#> SRR1026883 4 0.1296 0.66783 0.000 0.012 0.000 0.952 0.032 0.004
#> SRR1026884 4 0.1296 0.66783 0.000 0.012 0.000 0.952 0.032 0.004
#> SRR1026885 4 0.1934 0.67156 0.044 0.000 0.000 0.916 0.040 0.000
#> SRR1026886 4 0.1934 0.67156 0.044 0.000 0.000 0.916 0.040 0.000
#> SRR1026887 3 0.1452 0.75842 0.000 0.000 0.948 0.020 0.020 0.012
#> SRR1026888 3 0.1452 0.75842 0.000 0.000 0.948 0.020 0.020 0.012
#> SRR1026889 2 0.2658 0.75948 0.000 0.864 0.000 0.036 0.100 0.000
#> SRR1026890 4 0.1644 0.66498 0.000 0.012 0.000 0.932 0.052 0.004
#> SRR1026891 4 0.4390 0.49096 0.272 0.000 0.000 0.676 0.048 0.004
#> SRR1026892 4 0.4390 0.49096 0.272 0.000 0.000 0.676 0.048 0.004
#> SRR1026893 3 0.0692 0.77050 0.000 0.000 0.976 0.000 0.020 0.004
#> SRR1026894 3 0.0692 0.77050 0.000 0.000 0.976 0.000 0.020 0.004
#> SRR1026895 4 0.1801 0.66024 0.000 0.016 0.000 0.924 0.056 0.004
#> SRR1026896 4 0.1801 0.66024 0.000 0.016 0.000 0.924 0.056 0.004
#> SRR1026897 6 0.6528 0.30567 0.068 0.000 0.156 0.000 0.268 0.508
#> SRR1026898 1 0.4532 0.46701 0.636 0.000 0.000 0.000 0.056 0.308
#> SRR1026899 6 0.2420 0.55722 0.128 0.000 0.000 0.004 0.004 0.864
#> SRR1026900 4 0.7576 -0.52431 0.136 0.168 0.000 0.356 0.328 0.012
#> SRR1026901 4 0.7066 -0.42962 0.188 0.060 0.000 0.416 0.324 0.012
#> SRR1026902 4 0.2499 0.65618 0.072 0.000 0.000 0.880 0.048 0.000
#> SRR1026903 4 0.2499 0.65618 0.072 0.000 0.000 0.880 0.048 0.000
#> SRR1026904 4 0.1152 0.67435 0.000 0.000 0.000 0.952 0.044 0.004
#> SRR1026905 4 0.1152 0.67435 0.000 0.000 0.000 0.952 0.044 0.004
#> SRR1026906 2 0.2066 0.76182 0.000 0.908 0.000 0.040 0.052 0.000
#> SRR1026907 2 0.2066 0.76182 0.000 0.908 0.000 0.040 0.052 0.000
#> SRR1026908 2 0.0551 0.77713 0.000 0.984 0.000 0.004 0.008 0.004
#> SRR1026909 2 0.0551 0.77713 0.000 0.984 0.000 0.004 0.008 0.004
#> SRR1026910 4 0.0291 0.68143 0.000 0.004 0.000 0.992 0.004 0.000
#> SRR1026911 4 0.0291 0.68143 0.000 0.004 0.000 0.992 0.004 0.000
#> SRR1026912 3 0.1616 0.75342 0.000 0.000 0.940 0.020 0.028 0.012
#> SRR1026913 3 0.1616 0.75342 0.000 0.000 0.940 0.020 0.028 0.012
#> SRR1026914 2 0.4807 0.53002 0.000 0.684 0.000 0.212 0.092 0.012
#> SRR1026915 2 0.4807 0.53002 0.000 0.684 0.000 0.212 0.092 0.012
#> SRR1026916 2 0.4807 0.53002 0.000 0.684 0.000 0.212 0.092 0.012
#> SRR1026917 2 0.4807 0.53002 0.000 0.684 0.000 0.212 0.092 0.012
#> SRR1026918 4 0.3047 0.59545 0.004 0.064 0.000 0.848 0.084 0.000
#> SRR1026919 4 0.3047 0.59545 0.004 0.064 0.000 0.848 0.084 0.000
#> SRR1026920 2 0.5609 0.07863 0.000 0.464 0.000 0.416 0.112 0.008
#> SRR1026921 2 0.5609 0.07863 0.000 0.464 0.000 0.416 0.112 0.008
#> SRR1026922 2 0.2934 0.73376 0.000 0.844 0.000 0.044 0.112 0.000
#> SRR1026923 2 0.3949 0.68074 0.008 0.772 0.000 0.068 0.152 0.000
#> SRR1026924 4 0.1053 0.67378 0.000 0.012 0.000 0.964 0.020 0.004
#> SRR1026925 3 0.0547 0.77149 0.000 0.000 0.980 0.000 0.020 0.000
#> SRR1026926 4 0.0665 0.67650 0.000 0.008 0.000 0.980 0.008 0.004
#> SRR1026927 4 0.4283 0.50898 0.252 0.000 0.000 0.696 0.048 0.004
#> SRR1026928 4 0.2945 0.61025 0.004 0.048 0.000 0.860 0.084 0.004
#> SRR1026929 3 0.0000 0.77406 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026930 5 0.7486 0.45216 0.092 0.296 0.000 0.292 0.312 0.008
#> SRR1026931 2 0.1588 0.77684 0.000 0.924 0.000 0.000 0.072 0.004
#> SRR1026932 2 0.2320 0.75809 0.000 0.864 0.000 0.000 0.132 0.004
#> SRR1026933 2 0.2320 0.75809 0.000 0.864 0.000 0.000 0.132 0.004
#> SRR1026934 2 0.0551 0.77713 0.000 0.984 0.000 0.004 0.008 0.004
#> SRR1026935 2 0.0551 0.77713 0.000 0.984 0.000 0.004 0.008 0.004
#> SRR1026936 4 0.0436 0.67901 0.000 0.004 0.000 0.988 0.004 0.004
#> SRR1026937 4 0.0436 0.67901 0.000 0.004 0.000 0.988 0.004 0.004
#> SRR1026938 2 0.3698 0.68387 0.000 0.788 0.000 0.116 0.096 0.000
#> SRR1026939 2 0.3698 0.68387 0.000 0.788 0.000 0.116 0.096 0.000
#> SRR1026940 4 0.6021 -0.07498 0.332 0.000 0.000 0.448 0.216 0.004
#> SRR1026941 3 0.3377 0.74518 0.000 0.000 0.808 0.000 0.136 0.056
#> SRR1026942 1 0.3426 0.52450 0.764 0.000 0.000 0.004 0.012 0.220
#> SRR1026943 1 0.3108 0.53609 0.828 0.000 0.000 0.044 0.128 0.000
#> SRR1026944 1 0.4138 0.36155 0.620 0.000 0.000 0.008 0.008 0.364
#> SRR1026945 6 0.5443 -0.32283 0.000 0.000 0.384 0.000 0.124 0.492
#> SRR1026947 2 0.0547 0.77629 0.000 0.980 0.000 0.000 0.020 0.000
#> SRR1026946 2 0.1649 0.76807 0.000 0.932 0.000 0.036 0.032 0.000
#> SRR1026948 2 0.2595 0.75014 0.000 0.836 0.000 0.000 0.160 0.004
#> SRR1026949 4 0.5881 -0.00378 0.288 0.000 0.000 0.500 0.208 0.004
#> SRR1026950 1 0.4512 0.56068 0.752 0.000 0.000 0.056 0.056 0.136
#> SRR1026951 4 0.6696 -0.34916 0.196 0.036 0.000 0.480 0.276 0.012
#> SRR1026952 1 0.4096 0.44644 0.672 0.000 0.000 0.008 0.016 0.304
#> SRR1026953 3 0.5547 0.55298 0.000 0.000 0.508 0.000 0.148 0.344
#> SRR1026954 4 0.2574 0.67073 0.024 0.004 0.000 0.884 0.080 0.008
#> SRR1026955 2 0.2320 0.75809 0.000 0.864 0.000 0.000 0.132 0.004
#> SRR1026956 4 0.4947 0.30092 0.416 0.000 0.000 0.528 0.048 0.008
#> SRR1026957 2 0.3701 0.69897 0.000 0.788 0.000 0.112 0.100 0.000
#> SRR1026958 1 0.3510 0.55721 0.820 0.000 0.000 0.068 0.100 0.012
#> SRR1026959 2 0.2706 0.74923 0.000 0.832 0.000 0.000 0.160 0.008
#> SRR1026960 4 0.3938 0.63578 0.108 0.004 0.000 0.784 0.100 0.004
#> SRR1026961 4 0.3368 0.57727 0.000 0.052 0.000 0.828 0.108 0.012
#> SRR1026962 1 0.3934 0.34381 0.616 0.000 0.000 0.008 0.000 0.376
#> SRR1026963 6 0.4080 0.07638 0.456 0.000 0.000 0.008 0.000 0.536
#> SRR1026964 4 0.0291 0.68143 0.000 0.004 0.000 0.992 0.004 0.000
#> SRR1026965 4 0.0291 0.68143 0.000 0.004 0.000 0.992 0.004 0.000
#> SRR1026966 3 0.0547 0.77449 0.000 0.000 0.980 0.000 0.020 0.000
#> SRR1026967 3 0.0547 0.77449 0.000 0.000 0.980 0.000 0.020 0.000
#> SRR1026968 4 0.1882 0.65671 0.000 0.012 0.000 0.920 0.060 0.008
#> SRR1026969 4 0.2854 0.66726 0.036 0.004 0.000 0.868 0.084 0.008
#> SRR1026970 4 0.4729 0.46096 0.284 0.000 0.000 0.636 0.080 0.000
#> SRR1026971 4 0.4729 0.46096 0.284 0.000 0.000 0.636 0.080 0.000
#> SRR1026972 4 0.4892 0.46375 0.272 0.000 0.000 0.628 0.100 0.000
#> SRR1026973 4 0.4892 0.46375 0.272 0.000 0.000 0.628 0.100 0.000
#> SRR1026974 1 0.6469 0.02027 0.416 0.000 0.000 0.400 0.060 0.124
#> SRR1026975 1 0.6469 0.02027 0.416 0.000 0.000 0.400 0.060 0.124
#> SRR1026976 4 0.2285 0.67472 0.028 0.000 0.000 0.900 0.064 0.008
#> SRR1026977 4 0.2285 0.67472 0.028 0.000 0.000 0.900 0.064 0.008
#> SRR1026978 1 0.4107 0.38302 0.700 0.000 0.000 0.044 0.256 0.000
#> SRR1026979 3 0.5480 0.58441 0.000 0.000 0.540 0.000 0.152 0.308
#> SRR1026980 4 0.7356 -0.49545 0.196 0.072 0.000 0.396 0.316 0.020
#> SRR1026981 3 0.2384 0.76696 0.000 0.000 0.888 0.000 0.064 0.048
#> SRR1026982 4 0.1964 0.65990 0.004 0.012 0.000 0.920 0.056 0.008
#> SRR1026983 4 0.1964 0.65990 0.004 0.012 0.000 0.920 0.056 0.008
#> SRR1026984 4 0.3752 0.55932 0.004 0.076 0.000 0.804 0.108 0.008
#> SRR1026985 4 0.3752 0.55932 0.004 0.076 0.000 0.804 0.108 0.008
#> SRR1026986 1 0.4456 0.30815 0.660 0.004 0.000 0.036 0.296 0.004
#> SRR1026987 1 0.4305 0.39712 0.708 0.000 0.000 0.076 0.216 0.000
#> SRR1026988 6 0.4069 0.24283 0.376 0.000 0.000 0.008 0.004 0.612
#> SRR1026989 3 0.5224 0.62095 0.000 0.000 0.588 0.000 0.132 0.280
#> SRR1026990 4 0.2442 0.65892 0.068 0.000 0.000 0.884 0.048 0.000
#> SRR1026991 3 0.4147 0.66717 0.000 0.000 0.716 0.000 0.060 0.224
#> SRR1026992 1 0.3398 0.50509 0.740 0.000 0.000 0.008 0.000 0.252
#> SRR1026993 1 0.3215 0.52001 0.756 0.000 0.000 0.004 0.000 0.240
#> SRR1026994 1 0.6186 -0.31658 0.440 0.008 0.000 0.252 0.300 0.000
#> SRR1026995 1 0.4102 0.47907 0.736 0.000 0.000 0.020 0.216 0.028
#> SRR1026996 4 0.1562 0.67771 0.024 0.000 0.000 0.940 0.032 0.004
#> SRR1026997 4 0.1562 0.67771 0.024 0.000 0.000 0.940 0.032 0.004
#> SRR1026998 3 0.0146 0.77427 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026999 3 0.0146 0.77427 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1027000 1 0.3912 0.48307 0.732 0.000 0.000 0.000 0.224 0.044
#> SRR1027001 6 0.3654 0.45959 0.020 0.000 0.100 0.004 0.056 0.820
#> SRR1027002 1 0.4127 0.34627 0.684 0.004 0.000 0.028 0.284 0.000
#> SRR1027003 1 0.6255 -0.22697 0.488 0.032 0.000 0.164 0.316 0.000
#> SRR1027004 1 0.4685 0.56662 0.692 0.000 0.000 0.008 0.092 0.208
#> SRR1027005 3 0.2875 0.75572 0.000 0.000 0.852 0.000 0.096 0.052
#> SRR1027006 6 0.4210 0.31947 0.332 0.000 0.000 0.008 0.016 0.644
#> SRR1027007 1 0.4357 0.37289 0.700 0.000 0.000 0.076 0.224 0.000
#> SRR1027008 1 0.2988 0.56086 0.824 0.000 0.000 0.000 0.152 0.024
#> SRR1027009 3 0.5547 0.55298 0.000 0.000 0.508 0.000 0.148 0.344
#> SRR1027010 6 0.2492 0.56538 0.100 0.000 0.000 0.004 0.020 0.876
#> SRR1027011 3 0.5571 0.53584 0.000 0.000 0.496 0.000 0.148 0.356
#> SRR1177668 6 0.2838 0.53007 0.188 0.000 0.000 0.000 0.004 0.808
#> SRR1177667 1 0.3584 0.44917 0.688 0.000 0.000 0.004 0.000 0.308
#> SRR1177669 6 0.4344 0.23763 0.004 0.000 0.212 0.004 0.060 0.720
#> SRR1177670 6 0.5443 -0.32283 0.000 0.000 0.384 0.000 0.124 0.492
#> SRR1177671 2 0.2814 0.74457 0.000 0.820 0.000 0.000 0.172 0.008
#> SRR1177672 6 0.5395 -0.25555 0.000 0.000 0.356 0.000 0.124 0.520
#> SRR1177673 6 0.4344 0.14607 0.412 0.000 0.000 0.008 0.012 0.568
#> SRR1177674 3 0.5635 0.42227 0.000 0.000 0.432 0.000 0.148 0.420
#> SRR1177675 1 0.3841 0.34342 0.616 0.000 0.000 0.004 0.000 0.380
#> SRR1177676 6 0.2696 0.57014 0.076 0.000 0.000 0.004 0.048 0.872
#> SRR1177677 1 0.2647 0.59748 0.868 0.000 0.000 0.000 0.088 0.044
#> SRR1177678 1 0.4086 0.15000 0.528 0.000 0.000 0.008 0.000 0.464
#> SRR1177679 2 0.3163 0.72046 0.004 0.780 0.000 0.000 0.212 0.004
#> SRR1177680 5 0.7720 0.66525 0.188 0.172 0.000 0.304 0.328 0.008
#> SRR1177681 1 0.3727 0.52588 0.768 0.000 0.000 0.004 0.188 0.040
#> SRR1177682 1 0.3813 0.46476 0.736 0.000 0.000 0.008 0.236 0.020
#> SRR1177683 2 0.2915 0.73985 0.000 0.808 0.000 0.000 0.184 0.008
#> SRR1177684 2 0.2948 0.73989 0.000 0.804 0.000 0.000 0.188 0.008
#> SRR1177685 1 0.3955 0.33302 0.608 0.000 0.000 0.008 0.000 0.384
#> SRR1177686 3 0.2997 0.75385 0.000 0.000 0.844 0.000 0.096 0.060
#> SRR1177687 5 0.7730 0.66021 0.196 0.168 0.000 0.308 0.320 0.008
#> SRR1177688 1 0.3612 0.51954 0.764 0.000 0.000 0.000 0.200 0.036
#> SRR1177689 1 0.4552 0.29660 0.648 0.000 0.000 0.064 0.288 0.000
#> SRR1177690 1 0.1838 0.60192 0.916 0.000 0.000 0.000 0.068 0.016
#> SRR1177691 2 0.3302 0.70514 0.004 0.760 0.000 0.000 0.232 0.004
#> SRR1177692 5 0.7689 0.66283 0.188 0.164 0.000 0.304 0.336 0.008
#> SRR1177693 2 0.1010 0.77456 0.000 0.960 0.000 0.004 0.036 0.000
#> SRR1177694 2 0.4775 0.51077 0.000 0.668 0.000 0.232 0.096 0.004
#> SRR1177695 1 0.3394 0.48183 0.752 0.000 0.000 0.000 0.236 0.012
#> SRR1177697 1 0.1806 0.59340 0.908 0.000 0.000 0.004 0.000 0.088
#> SRR1177696 1 0.6022 0.29087 0.568 0.000 0.000 0.048 0.256 0.128
#> SRR1177698 3 0.5635 0.42227 0.000 0.000 0.432 0.000 0.148 0.420
#> SRR1177700 4 0.5317 0.33760 0.256 0.000 0.000 0.600 0.140 0.004
#> SRR1177701 4 0.4621 0.41344 0.332 0.000 0.000 0.612 0.056 0.000
#> SRR1177702 5 0.7416 -0.14665 0.184 0.000 0.132 0.004 0.384 0.296
#> SRR1177703 4 0.4802 0.32055 0.404 0.000 0.000 0.540 0.056 0.000
#> SRR1177704 5 0.7817 0.35889 0.096 0.000 0.212 0.192 0.440 0.060
#> SRR1177705 1 0.3992 0.45791 0.760 0.000 0.000 0.104 0.136 0.000
#> SRR1177706 2 0.5901 0.09108 0.152 0.448 0.000 0.004 0.392 0.004
#> SRR1177707 4 0.5227 0.33891 0.368 0.000 0.000 0.540 0.088 0.004
#> SRR1177708 4 0.4728 0.47153 0.176 0.000 0.000 0.680 0.144 0.000
#> SRR1177709 1 0.4668 0.49503 0.652 0.000 0.000 0.008 0.056 0.284
#> SRR1177710 6 0.4847 -0.23532 0.000 0.000 0.376 0.000 0.064 0.560
#> SRR1177711 1 0.4057 0.21325 0.556 0.000 0.000 0.008 0.000 0.436
#> SRR1177712 5 0.6960 0.30008 0.296 0.000 0.016 0.228 0.424 0.036
#> SRR1177714 2 0.2706 0.74923 0.000 0.832 0.000 0.000 0.160 0.008
#> SRR1177713 6 0.6487 0.35175 0.080 0.000 0.136 0.000 0.260 0.524
#> SRR1177715 1 0.7570 -0.54506 0.336 0.176 0.000 0.144 0.336 0.008
#> SRR1177716 3 0.3032 0.75313 0.000 0.000 0.840 0.000 0.104 0.056
#> SRR1177717 1 0.3626 0.47508 0.704 0.000 0.000 0.004 0.004 0.288
#> SRR1177718 1 0.3899 0.29430 0.592 0.000 0.000 0.004 0.000 0.404
#> SRR1177719 1 0.4694 0.52208 0.728 0.000 0.000 0.064 0.044 0.164
#> SRR1177720 3 0.0363 0.77231 0.000 0.000 0.988 0.000 0.012 0.000
#> SRR1177721 2 0.2706 0.74923 0.000 0.832 0.000 0.000 0.160 0.008
#> SRR1177722 2 0.2402 0.75587 0.000 0.856 0.000 0.000 0.140 0.004
#> SRR1177723 1 0.3489 0.47480 0.708 0.000 0.000 0.004 0.000 0.288
#> SRR1177725 1 0.3967 0.43603 0.668 0.000 0.000 0.008 0.008 0.316
#> SRR1177724 1 0.3215 0.51370 0.756 0.000 0.000 0.004 0.000 0.240
#> SRR1177726 3 0.5547 0.55298 0.000 0.000 0.508 0.000 0.148 0.344
#> SRR1177727 6 0.4062 0.10792 0.440 0.000 0.000 0.008 0.000 0.552
#> SRR1177728 3 0.5547 0.55298 0.000 0.000 0.508 0.000 0.148 0.344
#> SRR1177729 1 0.3383 0.49542 0.728 0.000 0.000 0.004 0.000 0.268
#> SRR1177730 6 0.4895 0.13116 0.000 0.000 0.228 0.000 0.124 0.648
#> SRR1177731 6 0.4039 0.13901 0.424 0.000 0.000 0.008 0.000 0.568
#> SRR1177732 6 0.2632 0.53841 0.164 0.000 0.000 0.004 0.000 0.832
#> SRR1177733 1 0.3978 0.45016 0.756 0.000 0.000 0.084 0.160 0.000
#> SRR1177734 1 0.3469 0.58717 0.828 0.000 0.000 0.036 0.104 0.032
#> SRR1177735 4 0.6126 -0.22468 0.348 0.000 0.000 0.408 0.240 0.004
#> SRR1177736 1 0.5602 0.52656 0.624 0.000 0.000 0.036 0.124 0.216
#> SRR1177737 4 0.4870 0.39094 0.004 0.164 0.000 0.696 0.128 0.008
#> SRR1177738 3 0.1332 0.76047 0.000 0.000 0.952 0.012 0.028 0.008
#> SRR1177739 1 0.4402 0.59997 0.764 0.000 0.000 0.040 0.108 0.088
#> SRR1177740 1 0.3395 0.51117 0.808 0.000 0.000 0.060 0.132 0.000
#> SRR1177741 1 0.4080 0.13867 0.536 0.000 0.000 0.008 0.000 0.456
#> SRR1177742 3 0.5556 0.55846 0.000 0.000 0.512 0.000 0.152 0.336
#> SRR1177743 6 0.2737 0.54080 0.160 0.000 0.000 0.004 0.004 0.832
#> SRR1177744 6 0.3381 0.52032 0.040 0.000 0.052 0.004 0.056 0.848
#> SRR1177745 5 0.7757 0.65823 0.184 0.164 0.000 0.308 0.332 0.012
#> SRR1177746 5 0.7720 0.66525 0.188 0.172 0.000 0.304 0.328 0.008
#> SRR1177747 6 0.5004 -0.17237 0.000 0.000 0.348 0.004 0.072 0.576
#> SRR1177748 3 0.5381 0.60847 0.000 0.000 0.568 0.000 0.152 0.280
#> SRR1177749 1 0.4010 0.28061 0.584 0.000 0.000 0.008 0.000 0.408
#> SRR1177750 1 0.2451 0.60859 0.884 0.000 0.000 0.000 0.056 0.060
#> SRR1177751 1 0.2841 0.54224 0.824 0.000 0.000 0.000 0.164 0.012
#> SRR1177752 1 0.3290 0.50372 0.744 0.000 0.000 0.004 0.000 0.252
#> SRR1177753 1 0.2982 0.57329 0.820 0.000 0.000 0.004 0.012 0.164
#> SRR1177754 6 0.3357 0.50700 0.224 0.000 0.000 0.004 0.008 0.764
#> SRR1177755 1 0.3215 0.52044 0.756 0.000 0.000 0.004 0.000 0.240
#> SRR1177756 1 0.1686 0.60387 0.924 0.000 0.000 0.000 0.064 0.012
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["SD", "skmeans"]
# you can also extract it by
# res = res_list["SD:skmeans"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'SD' method.
#> Subgroups are detected by 'skmeans' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 4.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 1.000 0.965 0.986 0.5005 0.499 0.499
#> 3 3 0.885 0.906 0.962 0.3132 0.765 0.564
#> 4 4 0.907 0.892 0.956 0.1356 0.863 0.626
#> 5 5 0.719 0.625 0.786 0.0588 0.963 0.859
#> 6 6 0.694 0.515 0.665 0.0425 0.892 0.596
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 4
#> attr(,"optional")
#> [1] 2
There is also optional best \(k\) = 2 that is worth to check.
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.981 0.000 1.000
#> SRR1026871 2 0.0000 0.981 0.000 1.000
#> SRR1026872 2 0.0000 0.981 0.000 1.000
#> SRR1026873 1 0.0000 0.989 1.000 0.000
#> SRR1026874 1 0.0000 0.989 1.000 0.000
#> SRR1026875 2 0.0000 0.981 0.000 1.000
#> SRR1026876 2 0.0000 0.981 0.000 1.000
#> SRR1026877 1 0.1414 0.971 0.980 0.020
#> SRR1026878 1 0.1414 0.971 0.980 0.020
#> SRR1026879 1 0.0000 0.989 1.000 0.000
#> SRR1026880 1 0.0000 0.989 1.000 0.000
#> SRR1026881 2 0.0000 0.981 0.000 1.000
#> SRR1026882 2 0.0000 0.981 0.000 1.000
#> SRR1026883 2 0.0000 0.981 0.000 1.000
#> SRR1026884 2 0.0000 0.981 0.000 1.000
#> SRR1026885 2 0.0000 0.981 0.000 1.000
#> SRR1026886 2 0.0000 0.981 0.000 1.000
#> SRR1026887 1 0.0000 0.989 1.000 0.000
#> SRR1026888 1 0.0000 0.989 1.000 0.000
#> SRR1026889 2 0.0000 0.981 0.000 1.000
#> SRR1026890 2 0.0000 0.981 0.000 1.000
#> SRR1026891 1 0.0000 0.989 1.000 0.000
#> SRR1026892 1 0.0000 0.989 1.000 0.000
#> SRR1026893 1 0.0000 0.989 1.000 0.000
#> SRR1026894 1 0.0000 0.989 1.000 0.000
#> SRR1026895 2 0.0000 0.981 0.000 1.000
#> SRR1026896 2 0.0000 0.981 0.000 1.000
#> SRR1026897 1 0.0000 0.989 1.000 0.000
#> SRR1026898 1 0.0000 0.989 1.000 0.000
#> SRR1026899 1 0.0000 0.989 1.000 0.000
#> SRR1026900 2 0.0000 0.981 0.000 1.000
#> SRR1026901 2 0.0000 0.981 0.000 1.000
#> SRR1026902 2 0.9710 0.341 0.400 0.600
#> SRR1026903 2 0.9710 0.341 0.400 0.600
#> SRR1026904 2 0.0000 0.981 0.000 1.000
#> SRR1026905 2 0.0000 0.981 0.000 1.000
#> SRR1026906 2 0.0000 0.981 0.000 1.000
#> SRR1026907 2 0.0000 0.981 0.000 1.000
#> SRR1026908 2 0.0000 0.981 0.000 1.000
#> SRR1026909 2 0.0000 0.981 0.000 1.000
#> SRR1026910 2 0.0000 0.981 0.000 1.000
#> SRR1026911 2 0.0000 0.981 0.000 1.000
#> SRR1026912 2 0.0672 0.974 0.008 0.992
#> SRR1026913 2 0.0672 0.974 0.008 0.992
#> SRR1026914 2 0.0000 0.981 0.000 1.000
#> SRR1026915 2 0.0000 0.981 0.000 1.000
#> SRR1026916 2 0.0000 0.981 0.000 1.000
#> SRR1026917 2 0.0000 0.981 0.000 1.000
#> SRR1026918 2 0.0000 0.981 0.000 1.000
#> SRR1026919 2 0.0000 0.981 0.000 1.000
#> SRR1026920 2 0.0000 0.981 0.000 1.000
#> SRR1026921 2 0.0000 0.981 0.000 1.000
#> SRR1026922 2 0.0000 0.981 0.000 1.000
#> SRR1026923 2 0.0000 0.981 0.000 1.000
#> SRR1026924 2 0.0000 0.981 0.000 1.000
#> SRR1026925 1 0.0000 0.989 1.000 0.000
#> SRR1026926 2 0.0000 0.981 0.000 1.000
#> SRR1026927 1 0.0000 0.989 1.000 0.000
#> SRR1026928 2 0.0000 0.981 0.000 1.000
#> SRR1026929 1 0.0000 0.989 1.000 0.000
#> SRR1026930 2 0.0000 0.981 0.000 1.000
#> SRR1026931 2 0.0000 0.981 0.000 1.000
#> SRR1026932 2 0.0000 0.981 0.000 1.000
#> SRR1026933 2 0.0000 0.981 0.000 1.000
#> SRR1026934 2 0.0000 0.981 0.000 1.000
#> SRR1026935 2 0.0000 0.981 0.000 1.000
#> SRR1026936 2 0.0000 0.981 0.000 1.000
#> SRR1026937 2 0.0000 0.981 0.000 1.000
#> SRR1026938 2 0.0000 0.981 0.000 1.000
#> SRR1026939 2 0.0000 0.981 0.000 1.000
#> SRR1026940 1 0.0000 0.989 1.000 0.000
#> SRR1026941 1 0.0000 0.989 1.000 0.000
#> SRR1026942 1 0.0000 0.989 1.000 0.000
#> SRR1026943 1 0.7219 0.750 0.800 0.200
#> SRR1026944 1 0.0000 0.989 1.000 0.000
#> SRR1026945 1 0.0000 0.989 1.000 0.000
#> SRR1026947 2 0.0000 0.981 0.000 1.000
#> SRR1026946 2 0.0000 0.981 0.000 1.000
#> SRR1026948 2 0.0000 0.981 0.000 1.000
#> SRR1026949 2 0.4690 0.880 0.100 0.900
#> SRR1026950 1 0.0000 0.989 1.000 0.000
#> SRR1026951 2 0.0000 0.981 0.000 1.000
#> SRR1026952 1 0.0000 0.989 1.000 0.000
#> SRR1026953 1 0.0000 0.989 1.000 0.000
#> SRR1026954 2 0.0000 0.981 0.000 1.000
#> SRR1026955 2 0.0000 0.981 0.000 1.000
#> SRR1026956 1 0.0000 0.989 1.000 0.000
#> SRR1026957 2 0.0000 0.981 0.000 1.000
#> SRR1026958 1 0.0000 0.989 1.000 0.000
#> SRR1026959 2 0.0000 0.981 0.000 1.000
#> SRR1026960 2 0.0000 0.981 0.000 1.000
#> SRR1026961 2 0.0000 0.981 0.000 1.000
#> SRR1026962 1 0.0000 0.989 1.000 0.000
#> SRR1026963 1 0.0000 0.989 1.000 0.000
#> SRR1026964 2 0.0000 0.981 0.000 1.000
#> SRR1026965 2 0.0000 0.981 0.000 1.000
#> SRR1026966 1 0.0000 0.989 1.000 0.000
#> SRR1026967 1 0.0000 0.989 1.000 0.000
#> SRR1026968 2 0.0000 0.981 0.000 1.000
#> SRR1026969 2 0.0000 0.981 0.000 1.000
#> SRR1026970 2 0.9170 0.506 0.332 0.668
#> SRR1026971 2 0.9170 0.506 0.332 0.668
#> SRR1026972 2 0.0000 0.981 0.000 1.000
#> SRR1026973 2 0.0000 0.981 0.000 1.000
#> SRR1026974 1 0.0000 0.989 1.000 0.000
#> SRR1026975 1 0.0000 0.989 1.000 0.000
#> SRR1026976 2 0.0000 0.981 0.000 1.000
#> SRR1026977 2 0.0000 0.981 0.000 1.000
#> SRR1026978 2 0.0000 0.981 0.000 1.000
#> SRR1026979 1 0.0000 0.989 1.000 0.000
#> SRR1026980 2 0.0000 0.981 0.000 1.000
#> SRR1026981 1 0.0000 0.989 1.000 0.000
#> SRR1026982 2 0.0000 0.981 0.000 1.000
#> SRR1026983 2 0.0000 0.981 0.000 1.000
#> SRR1026984 2 0.0000 0.981 0.000 1.000
#> SRR1026985 2 0.0000 0.981 0.000 1.000
#> SRR1026986 2 0.0000 0.981 0.000 1.000
#> SRR1026987 1 0.6623 0.790 0.828 0.172
#> SRR1026988 1 0.0000 0.989 1.000 0.000
#> SRR1026989 1 0.0000 0.989 1.000 0.000
#> SRR1026990 2 0.0000 0.981 0.000 1.000
#> SRR1026991 1 0.0000 0.989 1.000 0.000
#> SRR1026992 1 0.0000 0.989 1.000 0.000
#> SRR1026993 1 0.0000 0.989 1.000 0.000
#> SRR1026994 2 0.0000 0.981 0.000 1.000
#> SRR1026995 1 0.0000 0.989 1.000 0.000
#> SRR1026996 2 0.0000 0.981 0.000 1.000
#> SRR1026997 2 0.0000 0.981 0.000 1.000
#> SRR1026998 1 0.1414 0.971 0.980 0.020
#> SRR1026999 1 0.1414 0.971 0.980 0.020
#> SRR1027000 1 0.0000 0.989 1.000 0.000
#> SRR1027001 1 0.0000 0.989 1.000 0.000
#> SRR1027002 2 0.0000 0.981 0.000 1.000
#> SRR1027003 2 0.0000 0.981 0.000 1.000
#> SRR1027004 1 0.0000 0.989 1.000 0.000
#> SRR1027005 1 0.0000 0.989 1.000 0.000
#> SRR1027006 1 0.0000 0.989 1.000 0.000
#> SRR1027007 2 0.4298 0.893 0.088 0.912
#> SRR1027008 1 0.0000 0.989 1.000 0.000
#> SRR1027009 1 0.0000 0.989 1.000 0.000
#> SRR1027010 1 0.0000 0.989 1.000 0.000
#> SRR1027011 1 0.0000 0.989 1.000 0.000
#> SRR1177668 1 0.0000 0.989 1.000 0.000
#> SRR1177667 1 0.0000 0.989 1.000 0.000
#> SRR1177669 1 0.0000 0.989 1.000 0.000
#> SRR1177670 1 0.0000 0.989 1.000 0.000
#> SRR1177671 2 0.0000 0.981 0.000 1.000
#> SRR1177672 1 0.0000 0.989 1.000 0.000
#> SRR1177673 1 0.0000 0.989 1.000 0.000
#> SRR1177674 1 0.0000 0.989 1.000 0.000
#> SRR1177675 1 0.0000 0.989 1.000 0.000
#> SRR1177676 1 0.0000 0.989 1.000 0.000
#> SRR1177677 1 0.0000 0.989 1.000 0.000
#> SRR1177678 1 0.0000 0.989 1.000 0.000
#> SRR1177679 2 0.0000 0.981 0.000 1.000
#> SRR1177680 2 0.0000 0.981 0.000 1.000
#> SRR1177681 1 0.0000 0.989 1.000 0.000
#> SRR1177682 1 0.0000 0.989 1.000 0.000
#> SRR1177683 2 0.0000 0.981 0.000 1.000
#> SRR1177684 2 0.0000 0.981 0.000 1.000
#> SRR1177685 1 0.0000 0.989 1.000 0.000
#> SRR1177686 1 0.0000 0.989 1.000 0.000
#> SRR1177687 2 0.0000 0.981 0.000 1.000
#> SRR1177688 1 0.0000 0.989 1.000 0.000
#> SRR1177689 2 0.0000 0.981 0.000 1.000
#> SRR1177690 1 0.0000 0.989 1.000 0.000
#> SRR1177691 2 0.0000 0.981 0.000 1.000
#> SRR1177692 2 0.0000 0.981 0.000 1.000
#> SRR1177693 2 0.0000 0.981 0.000 1.000
#> SRR1177694 2 0.0000 0.981 0.000 1.000
#> SRR1177695 1 0.0672 0.982 0.992 0.008
#> SRR1177697 1 0.0000 0.989 1.000 0.000
#> SRR1177696 1 0.0000 0.989 1.000 0.000
#> SRR1177698 1 0.0000 0.989 1.000 0.000
#> SRR1177700 1 0.0000 0.989 1.000 0.000
#> SRR1177701 1 0.7815 0.698 0.768 0.232
#> SRR1177702 1 0.0000 0.989 1.000 0.000
#> SRR1177703 1 0.0000 0.989 1.000 0.000
#> SRR1177704 2 0.9000 0.538 0.316 0.684
#> SRR1177705 1 0.0938 0.978 0.988 0.012
#> SRR1177706 2 0.0000 0.981 0.000 1.000
#> SRR1177707 1 0.0000 0.989 1.000 0.000
#> SRR1177708 1 0.0000 0.989 1.000 0.000
#> SRR1177709 1 0.0000 0.989 1.000 0.000
#> SRR1177710 1 0.0000 0.989 1.000 0.000
#> SRR1177711 1 0.0000 0.989 1.000 0.000
#> SRR1177712 1 0.8327 0.643 0.736 0.264
#> SRR1177714 2 0.0000 0.981 0.000 1.000
#> SRR1177713 1 0.0000 0.989 1.000 0.000
#> SRR1177715 2 0.0000 0.981 0.000 1.000
#> SRR1177716 1 0.0000 0.989 1.000 0.000
#> SRR1177717 1 0.0000 0.989 1.000 0.000
#> SRR1177718 1 0.0000 0.989 1.000 0.000
#> SRR1177719 1 0.0000 0.989 1.000 0.000
#> SRR1177720 1 0.9209 0.487 0.664 0.336
#> SRR1177721 2 0.0000 0.981 0.000 1.000
#> SRR1177722 2 0.0000 0.981 0.000 1.000
#> SRR1177723 1 0.0000 0.989 1.000 0.000
#> SRR1177725 1 0.0000 0.989 1.000 0.000
#> SRR1177724 1 0.0000 0.989 1.000 0.000
#> SRR1177726 1 0.0000 0.989 1.000 0.000
#> SRR1177727 1 0.0000 0.989 1.000 0.000
#> SRR1177728 1 0.0000 0.989 1.000 0.000
#> SRR1177729 1 0.0000 0.989 1.000 0.000
#> SRR1177730 1 0.0000 0.989 1.000 0.000
#> SRR1177731 1 0.0000 0.989 1.000 0.000
#> SRR1177732 1 0.0000 0.989 1.000 0.000
#> SRR1177733 1 0.0000 0.989 1.000 0.000
#> SRR1177734 1 0.0000 0.989 1.000 0.000
#> SRR1177735 2 0.2043 0.951 0.032 0.968
#> SRR1177736 1 0.0000 0.989 1.000 0.000
#> SRR1177737 2 0.0000 0.981 0.000 1.000
#> SRR1177738 2 0.0000 0.981 0.000 1.000
#> SRR1177739 1 0.0000 0.989 1.000 0.000
#> SRR1177740 1 0.0000 0.989 1.000 0.000
#> SRR1177741 1 0.0000 0.989 1.000 0.000
#> SRR1177742 1 0.0000 0.989 1.000 0.000
#> SRR1177743 1 0.0000 0.989 1.000 0.000
#> SRR1177744 1 0.0000 0.989 1.000 0.000
#> SRR1177745 2 0.0000 0.981 0.000 1.000
#> SRR1177746 2 0.0000 0.981 0.000 1.000
#> SRR1177747 1 0.0000 0.989 1.000 0.000
#> SRR1177748 1 0.0000 0.989 1.000 0.000
#> SRR1177749 1 0.0000 0.989 1.000 0.000
#> SRR1177750 1 0.0000 0.989 1.000 0.000
#> SRR1177751 1 0.0672 0.982 0.992 0.008
#> SRR1177752 1 0.0000 0.989 1.000 0.000
#> SRR1177753 1 0.0000 0.989 1.000 0.000
#> SRR1177754 1 0.0000 0.989 1.000 0.000
#> SRR1177755 1 0.0000 0.989 1.000 0.000
#> SRR1177756 1 0.0672 0.982 0.992 0.008
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026874 3 0.5327 0.63633 0.272 0.000 0.728
#> SRR1026875 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026879 1 0.3619 0.80577 0.864 0.000 0.136
#> SRR1026880 1 0.1289 0.91353 0.968 0.000 0.032
#> SRR1026881 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026883 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026884 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026885 2 0.5058 0.68478 0.244 0.756 0.000
#> SRR1026886 2 0.5058 0.68478 0.244 0.756 0.000
#> SRR1026887 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026889 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026890 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026891 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026892 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026893 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026895 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026896 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026897 3 0.3038 0.86282 0.104 0.000 0.896
#> SRR1026898 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026899 1 0.5905 0.43953 0.648 0.000 0.352
#> SRR1026900 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026901 2 0.2625 0.89038 0.000 0.916 0.084
#> SRR1026902 1 0.4605 0.72724 0.796 0.204 0.000
#> SRR1026903 1 0.4605 0.72724 0.796 0.204 0.000
#> SRR1026904 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026905 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026906 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026910 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026911 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026912 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026914 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026918 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026919 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026920 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026924 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026925 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026926 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026927 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026928 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026929 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026930 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026931 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026936 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026937 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026938 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026940 3 0.4291 0.77377 0.180 0.000 0.820
#> SRR1026941 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026942 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026945 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026947 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026949 2 0.4796 0.70817 0.220 0.780 0.000
#> SRR1026950 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026951 2 0.0747 0.95718 0.000 0.984 0.016
#> SRR1026952 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026954 2 0.2772 0.89493 0.080 0.916 0.004
#> SRR1026955 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026957 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026958 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026960 2 0.5291 0.64432 0.268 0.732 0.000
#> SRR1026961 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026962 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026964 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026965 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026966 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026968 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026969 2 0.5016 0.69113 0.240 0.760 0.000
#> SRR1026970 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026971 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026972 1 0.4555 0.73286 0.800 0.200 0.000
#> SRR1026973 1 0.4555 0.73286 0.800 0.200 0.000
#> SRR1026974 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026976 2 0.5420 0.68491 0.240 0.752 0.008
#> SRR1026977 2 0.5420 0.68491 0.240 0.752 0.008
#> SRR1026978 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026979 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026980 2 0.0424 0.96419 0.000 0.992 0.008
#> SRR1026981 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026982 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026983 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026984 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026985 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026986 1 0.0237 0.93650 0.996 0.004 0.000
#> SRR1026987 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026988 1 0.5988 0.42272 0.632 0.000 0.368
#> SRR1026989 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026990 1 0.4605 0.72724 0.796 0.204 0.000
#> SRR1026991 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1026994 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026995 1 0.3619 0.80604 0.864 0.000 0.136
#> SRR1026996 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026997 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1026998 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1027000 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1027001 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1027002 1 0.6309 -0.00348 0.500 0.500 0.000
#> SRR1027003 2 0.3879 0.80620 0.152 0.848 0.000
#> SRR1027004 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1027006 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1027007 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1027008 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1027010 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1027011 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177668 1 0.4974 0.66182 0.764 0.000 0.236
#> SRR1177667 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177669 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177670 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177671 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177672 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177673 1 0.2625 0.86437 0.916 0.000 0.084
#> SRR1177674 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177676 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177677 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177679 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177680 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177681 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177682 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177683 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177687 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177688 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177689 2 0.6215 0.23907 0.428 0.572 0.000
#> SRR1177690 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177692 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177693 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177695 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177697 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177696 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177698 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177700 3 0.5621 0.54378 0.308 0.000 0.692
#> SRR1177701 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177702 3 0.5760 0.53049 0.328 0.000 0.672
#> SRR1177703 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177704 3 0.1031 0.93732 0.000 0.024 0.976
#> SRR1177705 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177706 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177707 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177708 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177709 1 0.6307 0.07126 0.512 0.000 0.488
#> SRR1177710 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177711 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177712 3 0.6483 0.36683 0.392 0.008 0.600
#> SRR1177714 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177713 3 0.5733 0.53884 0.324 0.000 0.676
#> SRR1177715 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177716 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177720 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177727 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177728 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177730 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177731 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177732 1 0.1753 0.89934 0.952 0.000 0.048
#> SRR1177733 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177735 1 0.6235 0.19891 0.564 0.436 0.000
#> SRR1177736 3 0.4504 0.75241 0.196 0.000 0.804
#> SRR1177737 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177738 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177739 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177741 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177742 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177743 1 0.6154 0.28839 0.592 0.000 0.408
#> SRR1177744 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177745 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177746 2 0.0000 0.97080 0.000 1.000 0.000
#> SRR1177747 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177748 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177754 3 0.0000 0.95935 0.000 0.000 1.000
#> SRR1177755 1 0.0000 0.93986 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.93986 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026871 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026872 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026873 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026874 3 0.4855 0.3847 0.400 0.000 0.600 0.000
#> SRR1026875 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026876 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026877 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026878 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026879 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026880 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026881 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026882 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026883 4 0.0921 0.9075 0.000 0.028 0.000 0.972
#> SRR1026884 4 0.0921 0.9075 0.000 0.028 0.000 0.972
#> SRR1026885 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026886 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026887 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026888 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026889 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026890 4 0.4008 0.6931 0.000 0.244 0.000 0.756
#> SRR1026891 4 0.0188 0.9172 0.004 0.000 0.000 0.996
#> SRR1026892 4 0.0188 0.9172 0.004 0.000 0.000 0.996
#> SRR1026893 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026894 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026895 4 0.4040 0.6875 0.000 0.248 0.000 0.752
#> SRR1026896 4 0.4040 0.6875 0.000 0.248 0.000 0.752
#> SRR1026897 3 0.3266 0.7734 0.168 0.000 0.832 0.000
#> SRR1026898 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026899 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026900 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026901 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026902 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026903 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026904 4 0.0707 0.9119 0.000 0.020 0.000 0.980
#> SRR1026905 4 0.0707 0.9119 0.000 0.020 0.000 0.980
#> SRR1026906 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026907 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026908 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026909 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026910 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026911 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026912 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026913 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026914 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026915 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026916 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026917 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026918 2 0.4817 0.3466 0.000 0.612 0.000 0.388
#> SRR1026919 2 0.4817 0.3466 0.000 0.612 0.000 0.388
#> SRR1026920 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026921 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026922 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026923 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026924 4 0.0336 0.9167 0.000 0.008 0.000 0.992
#> SRR1026925 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026926 4 0.0336 0.9167 0.000 0.008 0.000 0.992
#> SRR1026927 4 0.0188 0.9172 0.004 0.000 0.000 0.996
#> SRR1026928 4 0.4985 0.1704 0.000 0.468 0.000 0.532
#> SRR1026929 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026930 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026931 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026932 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026933 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026934 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026935 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026936 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026937 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026938 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026939 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1026940 3 0.4916 0.3233 0.424 0.000 0.576 0.000
#> SRR1026941 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026943 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026944 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026945 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026947 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026946 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026948 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026949 2 0.3873 0.6954 0.228 0.772 0.000 0.000
#> SRR1026950 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026951 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026952 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026953 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026955 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026956 4 0.2921 0.8060 0.140 0.000 0.000 0.860
#> SRR1026957 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026958 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026959 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.0469 0.9156 0.000 0.012 0.000 0.988
#> SRR1026961 4 0.4972 0.2374 0.000 0.456 0.000 0.544
#> SRR1026962 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026963 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026964 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026965 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026966 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.0707 0.9128 0.000 0.020 0.000 0.980
#> SRR1026969 4 0.0469 0.9156 0.000 0.012 0.000 0.988
#> SRR1026970 4 0.0188 0.9172 0.004 0.000 0.000 0.996
#> SRR1026971 4 0.0188 0.9172 0.004 0.000 0.000 0.996
#> SRR1026972 4 0.0188 0.9172 0.004 0.000 0.000 0.996
#> SRR1026973 4 0.0188 0.9172 0.004 0.000 0.000 0.996
#> SRR1026974 4 0.3569 0.7390 0.196 0.000 0.000 0.804
#> SRR1026975 4 0.3569 0.7390 0.196 0.000 0.000 0.804
#> SRR1026976 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026977 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026978 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026979 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026980 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026981 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026982 4 0.0469 0.9156 0.000 0.012 0.000 0.988
#> SRR1026983 4 0.0469 0.9156 0.000 0.012 0.000 0.988
#> SRR1026984 4 0.4277 0.6239 0.000 0.280 0.000 0.720
#> SRR1026985 4 0.4277 0.6239 0.000 0.280 0.000 0.720
#> SRR1026986 1 0.4898 0.2514 0.584 0.416 0.000 0.000
#> SRR1026987 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026988 1 0.3569 0.7309 0.804 0.000 0.196 0.000
#> SRR1026989 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026990 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026991 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026992 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026993 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026994 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1026995 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1026996 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026997 4 0.0000 0.9182 0.000 0.000 0.000 1.000
#> SRR1026998 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1027000 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1027001 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1027002 2 0.3907 0.6904 0.232 0.768 0.000 0.000
#> SRR1027003 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1027004 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1027005 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1027006 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1027007 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1027008 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1027009 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1027010 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1027011 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177668 1 0.2216 0.8761 0.908 0.000 0.092 0.000
#> SRR1177667 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177669 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177670 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177671 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177673 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177674 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177675 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177676 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177677 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177678 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177679 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177680 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177681 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177682 1 0.0188 0.9717 0.996 0.004 0.000 0.000
#> SRR1177683 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177686 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177687 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177688 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177689 2 0.3801 0.7060 0.220 0.780 0.000 0.000
#> SRR1177690 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177691 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177692 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177693 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177694 2 0.0188 0.9613 0.000 0.996 0.000 0.004
#> SRR1177695 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177697 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177696 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177698 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177700 3 0.6108 0.1269 0.048 0.000 0.528 0.424
#> SRR1177701 4 0.2921 0.8067 0.140 0.000 0.000 0.860
#> SRR1177702 3 0.4855 0.3847 0.400 0.000 0.600 0.000
#> SRR1177703 4 0.4356 0.5866 0.292 0.000 0.000 0.708
#> SRR1177704 3 0.3610 0.7230 0.000 0.200 0.800 0.000
#> SRR1177705 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177706 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177707 1 0.4977 0.0962 0.540 0.000 0.000 0.460
#> SRR1177708 3 0.0188 0.9302 0.000 0.000 0.996 0.004
#> SRR1177709 1 0.3688 0.7117 0.792 0.000 0.208 0.000
#> SRR1177710 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177711 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177712 3 0.6586 0.4800 0.316 0.072 0.600 0.012
#> SRR1177714 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177713 3 0.4855 0.3847 0.400 0.000 0.600 0.000
#> SRR1177715 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177716 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177718 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177719 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177720 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177721 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177725 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177724 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177726 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177728 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177730 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177731 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177732 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177733 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177734 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177735 2 0.5695 0.0593 0.476 0.500 0.000 0.024
#> SRR1177736 3 0.4994 0.1534 0.480 0.000 0.520 0.000
#> SRR1177737 2 0.0817 0.9429 0.000 0.976 0.000 0.024
#> SRR1177738 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177739 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177740 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177741 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177742 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177744 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177745 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177746 2 0.0000 0.9632 0.000 1.000 0.000 0.000
#> SRR1177747 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177748 3 0.0000 0.9336 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177750 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177751 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177752 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177753 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177754 3 0.0469 0.9236 0.012 0.000 0.988 0.000
#> SRR1177755 1 0.0000 0.9758 1.000 0.000 0.000 0.000
#> SRR1177756 1 0.0000 0.9758 1.000 0.000 0.000 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.1697 0.77643 0.000 0.932 0.000 0.008 0.060
#> SRR1026871 2 0.1697 0.77643 0.000 0.932 0.000 0.008 0.060
#> SRR1026872 2 0.1697 0.77643 0.000 0.932 0.000 0.008 0.060
#> SRR1026873 1 0.0510 0.64202 0.984 0.000 0.000 0.000 0.016
#> SRR1026874 1 0.6770 -0.17111 0.384 0.000 0.340 0.000 0.276
#> SRR1026875 2 0.1121 0.80077 0.000 0.956 0.000 0.000 0.044
#> SRR1026876 2 0.1121 0.80077 0.000 0.956 0.000 0.000 0.044
#> SRR1026877 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026878 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026879 1 0.3857 0.46393 0.688 0.000 0.000 0.000 0.312
#> SRR1026880 1 0.3857 0.46393 0.688 0.000 0.000 0.000 0.312
#> SRR1026881 2 0.1914 0.77163 0.000 0.924 0.000 0.016 0.060
#> SRR1026882 2 0.1914 0.77163 0.000 0.924 0.000 0.016 0.060
#> SRR1026883 4 0.4665 0.63802 0.000 0.260 0.000 0.692 0.048
#> SRR1026884 4 0.4665 0.63802 0.000 0.260 0.000 0.692 0.048
#> SRR1026885 4 0.0510 0.73567 0.000 0.000 0.000 0.984 0.016
#> SRR1026886 4 0.0510 0.73567 0.000 0.000 0.000 0.984 0.016
#> SRR1026887 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026888 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026889 2 0.0000 0.80024 0.000 1.000 0.000 0.000 0.000
#> SRR1026890 4 0.7492 0.41567 0.000 0.288 0.232 0.432 0.048
#> SRR1026891 4 0.3242 0.67820 0.116 0.000 0.000 0.844 0.040
#> SRR1026892 4 0.3242 0.67820 0.116 0.000 0.000 0.844 0.040
#> SRR1026893 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026894 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026895 4 0.5260 0.53102 0.000 0.348 0.000 0.592 0.060
#> SRR1026896 4 0.5273 0.52533 0.000 0.352 0.000 0.588 0.060
#> SRR1026897 3 0.4916 0.68548 0.160 0.000 0.716 0.000 0.124
#> SRR1026898 1 0.3210 0.56182 0.788 0.000 0.000 0.000 0.212
#> SRR1026899 1 0.3707 0.46144 0.716 0.000 0.000 0.000 0.284
#> SRR1026900 2 0.1544 0.80122 0.000 0.932 0.000 0.000 0.068
#> SRR1026901 2 0.1704 0.80103 0.000 0.928 0.004 0.000 0.068
#> SRR1026902 4 0.0510 0.73567 0.000 0.000 0.000 0.984 0.016
#> SRR1026903 4 0.0510 0.73567 0.000 0.000 0.000 0.984 0.016
#> SRR1026904 4 0.4918 0.66003 0.000 0.228 0.008 0.704 0.060
#> SRR1026905 4 0.4918 0.66003 0.000 0.228 0.008 0.704 0.060
#> SRR1026906 2 0.0000 0.80024 0.000 1.000 0.000 0.000 0.000
#> SRR1026907 2 0.0000 0.80024 0.000 1.000 0.000 0.000 0.000
#> SRR1026908 2 0.0162 0.79979 0.000 0.996 0.000 0.000 0.004
#> SRR1026909 2 0.0162 0.79979 0.000 0.996 0.000 0.000 0.004
#> SRR1026910 4 0.1915 0.74227 0.000 0.032 0.000 0.928 0.040
#> SRR1026911 4 0.1915 0.74227 0.000 0.032 0.000 0.928 0.040
#> SRR1026912 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026913 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026914 2 0.2873 0.73512 0.000 0.856 0.000 0.016 0.128
#> SRR1026915 2 0.2873 0.73512 0.000 0.856 0.000 0.016 0.128
#> SRR1026916 2 0.2873 0.73512 0.000 0.856 0.000 0.016 0.128
#> SRR1026917 2 0.2873 0.73512 0.000 0.856 0.000 0.016 0.128
#> SRR1026918 2 0.5243 0.02631 0.000 0.540 0.000 0.412 0.048
#> SRR1026919 2 0.5243 0.02631 0.000 0.540 0.000 0.412 0.048
#> SRR1026920 2 0.1914 0.77163 0.000 0.924 0.000 0.016 0.060
#> SRR1026921 2 0.1914 0.77163 0.000 0.924 0.000 0.016 0.060
#> SRR1026922 2 0.1270 0.79900 0.000 0.948 0.000 0.000 0.052
#> SRR1026923 2 0.1410 0.79742 0.000 0.940 0.000 0.000 0.060
#> SRR1026924 4 0.4793 0.63462 0.000 0.260 0.000 0.684 0.056
#> SRR1026925 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026926 4 0.4453 0.66450 0.000 0.228 0.000 0.724 0.048
#> SRR1026927 4 0.3037 0.68972 0.100 0.000 0.000 0.860 0.040
#> SRR1026928 2 0.5203 0.20096 0.000 0.608 0.000 0.332 0.060
#> SRR1026929 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026930 2 0.3508 0.70859 0.000 0.748 0.000 0.000 0.252
#> SRR1026931 2 0.3395 0.71787 0.000 0.764 0.000 0.000 0.236
#> SRR1026932 2 0.1121 0.80077 0.000 0.956 0.000 0.000 0.044
#> SRR1026933 2 0.1121 0.80077 0.000 0.956 0.000 0.000 0.044
#> SRR1026934 2 0.0510 0.79730 0.000 0.984 0.000 0.000 0.016
#> SRR1026935 2 0.0510 0.79730 0.000 0.984 0.000 0.000 0.016
#> SRR1026936 4 0.2588 0.73687 0.000 0.060 0.000 0.892 0.048
#> SRR1026937 4 0.2588 0.73687 0.000 0.060 0.000 0.892 0.048
#> SRR1026938 2 0.1282 0.78397 0.000 0.952 0.000 0.004 0.044
#> SRR1026939 2 0.1282 0.78397 0.000 0.952 0.000 0.004 0.044
#> SRR1026940 1 0.6058 0.23805 0.528 0.000 0.136 0.000 0.336
#> SRR1026941 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026942 1 0.3003 0.56609 0.812 0.000 0.000 0.000 0.188
#> SRR1026943 1 0.4165 0.36711 0.672 0.000 0.000 0.008 0.320
#> SRR1026944 1 0.0794 0.63506 0.972 0.000 0.000 0.000 0.028
#> SRR1026945 3 0.3480 0.81269 0.000 0.000 0.752 0.000 0.248
#> SRR1026947 2 0.0000 0.80024 0.000 1.000 0.000 0.000 0.000
#> SRR1026946 2 0.0000 0.80024 0.000 1.000 0.000 0.000 0.000
#> SRR1026948 2 0.3395 0.71781 0.000 0.764 0.000 0.000 0.236
#> SRR1026949 2 0.6531 0.26833 0.204 0.544 0.000 0.012 0.240
#> SRR1026950 1 0.1197 0.62510 0.952 0.000 0.000 0.000 0.048
#> SRR1026951 2 0.4166 0.65099 0.004 0.648 0.000 0.000 0.348
#> SRR1026952 1 0.0880 0.63336 0.968 0.000 0.000 0.000 0.032
#> SRR1026953 3 0.3424 0.81508 0.000 0.000 0.760 0.000 0.240
#> SRR1026954 4 0.2573 0.73380 0.000 0.016 0.000 0.880 0.104
#> SRR1026955 2 0.1121 0.80077 0.000 0.956 0.000 0.000 0.044
#> SRR1026956 4 0.4558 0.56169 0.216 0.000 0.000 0.724 0.060
#> SRR1026957 2 0.1121 0.80077 0.000 0.956 0.000 0.000 0.044
#> SRR1026958 1 0.1671 0.62423 0.924 0.000 0.000 0.000 0.076
#> SRR1026959 2 0.3480 0.70959 0.000 0.752 0.000 0.000 0.248
#> SRR1026960 4 0.4072 0.69579 0.048 0.008 0.000 0.792 0.152
#> SRR1026961 4 0.6191 0.31477 0.000 0.424 0.000 0.440 0.136
#> SRR1026962 1 0.0794 0.63506 0.972 0.000 0.000 0.000 0.028
#> SRR1026963 1 0.0703 0.64010 0.976 0.000 0.000 0.000 0.024
#> SRR1026964 4 0.1830 0.74249 0.000 0.028 0.000 0.932 0.040
#> SRR1026965 4 0.1830 0.74249 0.000 0.028 0.000 0.932 0.040
#> SRR1026966 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026967 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026968 4 0.5905 0.58867 0.000 0.276 0.000 0.580 0.144
#> SRR1026969 4 0.3575 0.70494 0.056 0.000 0.000 0.824 0.120
#> SRR1026970 4 0.3368 0.65747 0.024 0.000 0.000 0.820 0.156
#> SRR1026971 4 0.3368 0.65747 0.024 0.000 0.000 0.820 0.156
#> SRR1026972 4 0.4114 0.56391 0.024 0.000 0.000 0.732 0.244
#> SRR1026973 4 0.4114 0.56391 0.024 0.000 0.000 0.732 0.244
#> SRR1026974 4 0.5965 0.39180 0.328 0.000 0.000 0.544 0.128
#> SRR1026975 4 0.5965 0.39180 0.328 0.000 0.000 0.544 0.128
#> SRR1026976 4 0.2074 0.73300 0.000 0.000 0.000 0.896 0.104
#> SRR1026977 4 0.2074 0.73300 0.000 0.000 0.000 0.896 0.104
#> SRR1026978 1 0.5042 -0.31959 0.512 0.024 0.000 0.004 0.460
#> SRR1026979 3 0.2127 0.82847 0.000 0.000 0.892 0.000 0.108
#> SRR1026980 2 0.3876 0.68565 0.000 0.684 0.000 0.000 0.316
#> SRR1026981 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026982 4 0.4096 0.71598 0.000 0.072 0.000 0.784 0.144
#> SRR1026983 4 0.4096 0.71598 0.000 0.072 0.000 0.784 0.144
#> SRR1026984 4 0.6180 0.36673 0.000 0.404 0.000 0.460 0.136
#> SRR1026985 4 0.6180 0.36673 0.000 0.404 0.000 0.460 0.136
#> SRR1026986 5 0.5964 0.60314 0.340 0.124 0.000 0.000 0.536
#> SRR1026987 1 0.4238 0.18624 0.628 0.004 0.000 0.000 0.368
#> SRR1026988 1 0.6080 0.29046 0.560 0.000 0.168 0.000 0.272
#> SRR1026989 3 0.1851 0.82903 0.000 0.000 0.912 0.000 0.088
#> SRR1026990 4 0.0963 0.73241 0.000 0.000 0.000 0.964 0.036
#> SRR1026991 3 0.0290 0.82828 0.000 0.000 0.992 0.000 0.008
#> SRR1026992 1 0.0162 0.64303 0.996 0.000 0.000 0.000 0.004
#> SRR1026993 1 0.2424 0.59824 0.868 0.000 0.000 0.000 0.132
#> SRR1026994 2 0.4560 0.22406 0.008 0.508 0.000 0.000 0.484
#> SRR1026995 1 0.4126 0.37139 0.620 0.000 0.000 0.000 0.380
#> SRR1026996 4 0.0000 0.73832 0.000 0.000 0.000 1.000 0.000
#> SRR1026997 4 0.0000 0.73832 0.000 0.000 0.000 1.000 0.000
#> SRR1026998 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1026999 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1027000 5 0.4300 0.28618 0.476 0.000 0.000 0.000 0.524
#> SRR1027001 3 0.5136 0.75299 0.080 0.000 0.660 0.000 0.260
#> SRR1027002 5 0.6240 0.64252 0.244 0.212 0.000 0.000 0.544
#> SRR1027003 2 0.4192 0.47373 0.000 0.596 0.000 0.000 0.404
#> SRR1027004 1 0.3424 0.49358 0.760 0.000 0.000 0.000 0.240
#> SRR1027005 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1027006 3 0.5164 0.75238 0.084 0.000 0.660 0.000 0.256
#> SRR1027007 1 0.4066 0.36106 0.672 0.004 0.000 0.000 0.324
#> SRR1027008 1 0.2773 0.57136 0.836 0.000 0.000 0.000 0.164
#> SRR1027009 3 0.3424 0.81508 0.000 0.000 0.760 0.000 0.240
#> SRR1027010 3 0.6358 0.60520 0.208 0.000 0.516 0.000 0.276
#> SRR1027011 3 0.3480 0.81269 0.000 0.000 0.752 0.000 0.248
#> SRR1177668 1 0.4298 0.43595 0.640 0.000 0.008 0.000 0.352
#> SRR1177667 1 0.2891 0.58533 0.824 0.000 0.000 0.000 0.176
#> SRR1177669 3 0.3480 0.81269 0.000 0.000 0.752 0.000 0.248
#> SRR1177670 3 0.3480 0.81269 0.000 0.000 0.752 0.000 0.248
#> SRR1177671 2 0.3508 0.70653 0.000 0.748 0.000 0.000 0.252
#> SRR1177672 3 0.3480 0.81269 0.000 0.000 0.752 0.000 0.248
#> SRR1177673 1 0.3661 0.46443 0.724 0.000 0.000 0.000 0.276
#> SRR1177674 3 0.3480 0.81269 0.000 0.000 0.752 0.000 0.248
#> SRR1177675 1 0.0404 0.63959 0.988 0.000 0.000 0.000 0.012
#> SRR1177676 3 0.5491 0.72287 0.104 0.000 0.624 0.000 0.272
#> SRR1177677 1 0.3837 0.40992 0.692 0.000 0.000 0.000 0.308
#> SRR1177678 1 0.1478 0.63439 0.936 0.000 0.000 0.000 0.064
#> SRR1177679 2 0.3508 0.70653 0.000 0.748 0.000 0.000 0.252
#> SRR1177680 2 0.3534 0.70503 0.000 0.744 0.000 0.000 0.256
#> SRR1177681 1 0.2127 0.62777 0.892 0.000 0.000 0.000 0.108
#> SRR1177682 5 0.4256 0.45314 0.436 0.000 0.000 0.000 0.564
#> SRR1177683 2 0.3508 0.70653 0.000 0.748 0.000 0.000 0.252
#> SRR1177684 2 0.3508 0.70653 0.000 0.748 0.000 0.000 0.252
#> SRR1177685 1 0.0703 0.64010 0.976 0.000 0.000 0.000 0.024
#> SRR1177686 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1177687 2 0.3508 0.70653 0.000 0.748 0.000 0.000 0.252
#> SRR1177688 1 0.3707 0.47025 0.716 0.000 0.000 0.000 0.284
#> SRR1177689 5 0.6086 0.47976 0.152 0.304 0.000 0.000 0.544
#> SRR1177690 1 0.3707 0.41504 0.716 0.000 0.000 0.000 0.284
#> SRR1177691 2 0.3508 0.70653 0.000 0.748 0.000 0.000 0.252
#> SRR1177692 2 0.3508 0.70653 0.000 0.748 0.000 0.000 0.252
#> SRR1177693 2 0.0000 0.80024 0.000 1.000 0.000 0.000 0.000
#> SRR1177694 2 0.1914 0.77163 0.000 0.924 0.000 0.016 0.060
#> SRR1177695 1 0.4278 -0.30264 0.548 0.000 0.000 0.000 0.452
#> SRR1177697 1 0.2561 0.59144 0.856 0.000 0.000 0.000 0.144
#> SRR1177696 3 0.3480 0.81269 0.000 0.000 0.752 0.000 0.248
#> SRR1177698 3 0.3480 0.81269 0.000 0.000 0.752 0.000 0.248
#> SRR1177700 4 0.8382 0.04241 0.280 0.000 0.244 0.328 0.148
#> SRR1177701 4 0.5027 0.53377 0.188 0.000 0.000 0.700 0.112
#> SRR1177702 3 0.5922 0.33340 0.352 0.000 0.532 0.000 0.116
#> SRR1177703 4 0.5648 0.11869 0.448 0.000 0.000 0.476 0.076
#> SRR1177704 3 0.3171 0.64039 0.000 0.176 0.816 0.000 0.008
#> SRR1177705 1 0.4165 0.36711 0.672 0.000 0.000 0.008 0.320
#> SRR1177706 2 0.4138 0.51990 0.000 0.616 0.000 0.000 0.384
#> SRR1177707 1 0.6185 0.00778 0.504 0.000 0.000 0.348 0.148
#> SRR1177708 3 0.7805 0.54168 0.124 0.000 0.456 0.152 0.268
#> SRR1177709 1 0.6392 0.22136 0.468 0.000 0.176 0.000 0.356
#> SRR1177710 3 0.3452 0.81395 0.000 0.000 0.756 0.000 0.244
#> SRR1177711 1 0.0703 0.64010 0.976 0.000 0.000 0.000 0.024
#> SRR1177712 3 0.7236 0.24719 0.104 0.076 0.528 0.008 0.284
#> SRR1177714 2 0.3480 0.70959 0.000 0.752 0.000 0.000 0.248
#> SRR1177713 3 0.6296 0.29576 0.360 0.000 0.480 0.000 0.160
#> SRR1177715 2 0.3661 0.68482 0.000 0.724 0.000 0.000 0.276
#> SRR1177716 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1177717 1 0.0404 0.63959 0.988 0.000 0.000 0.000 0.012
#> SRR1177718 1 0.0290 0.64330 0.992 0.000 0.000 0.000 0.008
#> SRR1177719 1 0.3569 0.49832 0.828 0.000 0.000 0.104 0.068
#> SRR1177720 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1177721 2 0.3424 0.71522 0.000 0.760 0.000 0.000 0.240
#> SRR1177722 2 0.1478 0.79640 0.000 0.936 0.000 0.000 0.064
#> SRR1177723 1 0.2424 0.59924 0.868 0.000 0.000 0.000 0.132
#> SRR1177725 1 0.0404 0.63959 0.988 0.000 0.000 0.000 0.012
#> SRR1177724 1 0.2852 0.57296 0.828 0.000 0.000 0.000 0.172
#> SRR1177726 3 0.3424 0.81508 0.000 0.000 0.760 0.000 0.240
#> SRR1177727 1 0.0703 0.64141 0.976 0.000 0.000 0.000 0.024
#> SRR1177728 3 0.3424 0.81508 0.000 0.000 0.760 0.000 0.240
#> SRR1177729 1 0.2424 0.59824 0.868 0.000 0.000 0.000 0.132
#> SRR1177730 3 0.4640 0.77995 0.048 0.000 0.696 0.000 0.256
#> SRR1177731 1 0.3857 0.46393 0.688 0.000 0.000 0.000 0.312
#> SRR1177732 1 0.3857 0.46393 0.688 0.000 0.000 0.000 0.312
#> SRR1177733 1 0.3774 0.40337 0.704 0.000 0.000 0.000 0.296
#> SRR1177734 1 0.0162 0.64303 0.996 0.000 0.000 0.000 0.004
#> SRR1177735 1 0.6371 -0.40585 0.488 0.120 0.000 0.012 0.380
#> SRR1177736 1 0.5487 0.34784 0.620 0.000 0.100 0.000 0.280
#> SRR1177737 2 0.3016 0.72883 0.000 0.848 0.000 0.020 0.132
#> SRR1177738 3 0.0000 0.82785 0.000 0.000 1.000 0.000 0.000
#> SRR1177739 1 0.0609 0.64214 0.980 0.000 0.000 0.000 0.020
#> SRR1177740 1 0.3816 0.39946 0.696 0.000 0.000 0.000 0.304
#> SRR1177741 1 0.1732 0.62993 0.920 0.000 0.000 0.000 0.080
#> SRR1177742 3 0.3366 0.81654 0.000 0.000 0.768 0.000 0.232
#> SRR1177743 1 0.3707 0.46595 0.716 0.000 0.000 0.000 0.284
#> SRR1177744 3 0.5187 0.74963 0.084 0.000 0.656 0.000 0.260
#> SRR1177745 2 0.3816 0.67769 0.000 0.696 0.000 0.000 0.304
#> SRR1177746 2 0.3534 0.70503 0.000 0.744 0.000 0.000 0.256
#> SRR1177747 3 0.3424 0.81508 0.000 0.000 0.760 0.000 0.240
#> SRR1177748 3 0.1792 0.82921 0.000 0.000 0.916 0.000 0.084
#> SRR1177749 1 0.0703 0.64010 0.976 0.000 0.000 0.000 0.024
#> SRR1177750 1 0.3816 0.40939 0.696 0.000 0.000 0.000 0.304
#> SRR1177751 1 0.3796 0.39258 0.700 0.000 0.000 0.000 0.300
#> SRR1177752 1 0.2516 0.59518 0.860 0.000 0.000 0.000 0.140
#> SRR1177753 1 0.3395 0.51866 0.764 0.000 0.000 0.000 0.236
#> SRR1177754 3 0.6583 0.47618 0.256 0.000 0.468 0.000 0.276
#> SRR1177755 1 0.2377 0.60061 0.872 0.000 0.000 0.000 0.128
#> SRR1177756 1 0.3816 0.39946 0.696 0.000 0.000 0.000 0.304
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.3098 0.6603 0.000 0.812 0.024 0.164 0.000 0.000
#> SRR1026871 2 0.3098 0.6603 0.000 0.812 0.024 0.164 0.000 0.000
#> SRR1026872 2 0.3025 0.6667 0.000 0.820 0.024 0.156 0.000 0.000
#> SRR1026873 1 0.1265 0.5805 0.948 0.000 0.000 0.000 0.044 0.008
#> SRR1026874 5 0.4327 0.5929 0.284 0.000 0.028 0.000 0.676 0.012
#> SRR1026875 2 0.0692 0.7520 0.000 0.976 0.004 0.000 0.000 0.020
#> SRR1026876 2 0.0692 0.7520 0.000 0.976 0.004 0.000 0.000 0.020
#> SRR1026877 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026878 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026879 5 0.4727 0.4707 0.368 0.000 0.000 0.000 0.576 0.056
#> SRR1026880 5 0.4594 0.5136 0.340 0.000 0.000 0.000 0.608 0.052
#> SRR1026881 2 0.3645 0.5876 0.000 0.740 0.024 0.236 0.000 0.000
#> SRR1026882 2 0.3645 0.5876 0.000 0.740 0.024 0.236 0.000 0.000
#> SRR1026883 4 0.2854 0.5402 0.000 0.208 0.000 0.792 0.000 0.000
#> SRR1026884 4 0.2854 0.5402 0.000 0.208 0.000 0.792 0.000 0.000
#> SRR1026885 4 0.4190 0.6190 0.000 0.000 0.112 0.740 0.000 0.148
#> SRR1026886 4 0.4190 0.6190 0.000 0.000 0.112 0.740 0.000 0.148
#> SRR1026887 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026888 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026889 2 0.1075 0.7424 0.000 0.952 0.000 0.048 0.000 0.000
#> SRR1026890 4 0.5095 0.4810 0.000 0.188 0.180 0.632 0.000 0.000
#> SRR1026891 4 0.7133 0.4617 0.168 0.000 0.172 0.464 0.000 0.196
#> SRR1026892 4 0.7133 0.4617 0.168 0.000 0.172 0.464 0.000 0.196
#> SRR1026893 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026894 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026895 4 0.4299 0.3927 0.000 0.308 0.040 0.652 0.000 0.000
#> SRR1026896 4 0.4316 0.3859 0.000 0.312 0.040 0.648 0.000 0.000
#> SRR1026897 5 0.5771 -0.0472 0.128 0.000 0.332 0.000 0.524 0.016
#> SRR1026898 1 0.5608 0.1104 0.540 0.000 0.000 0.000 0.200 0.260
#> SRR1026899 5 0.4495 0.5336 0.340 0.000 0.016 0.000 0.624 0.020
#> SRR1026900 2 0.0909 0.7518 0.000 0.968 0.012 0.000 0.000 0.020
#> SRR1026901 2 0.1760 0.7457 0.000 0.928 0.048 0.000 0.004 0.020
#> SRR1026902 4 0.4267 0.6169 0.000 0.000 0.116 0.732 0.000 0.152
#> SRR1026903 4 0.4267 0.6169 0.000 0.000 0.116 0.732 0.000 0.152
#> SRR1026904 4 0.3062 0.5751 0.000 0.160 0.024 0.816 0.000 0.000
#> SRR1026905 4 0.3062 0.5751 0.000 0.160 0.024 0.816 0.000 0.000
#> SRR1026906 2 0.1075 0.7424 0.000 0.952 0.000 0.048 0.000 0.000
#> SRR1026907 2 0.1075 0.7424 0.000 0.952 0.000 0.048 0.000 0.000
#> SRR1026908 2 0.1007 0.7435 0.000 0.956 0.000 0.044 0.000 0.000
#> SRR1026909 2 0.1007 0.7435 0.000 0.956 0.000 0.044 0.000 0.000
#> SRR1026910 4 0.1148 0.6554 0.000 0.004 0.020 0.960 0.000 0.016
#> SRR1026911 4 0.1148 0.6554 0.000 0.004 0.020 0.960 0.000 0.016
#> SRR1026912 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026913 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026914 2 0.5161 0.4908 0.000 0.640 0.112 0.236 0.000 0.012
#> SRR1026915 2 0.5161 0.4908 0.000 0.640 0.112 0.236 0.000 0.012
#> SRR1026916 2 0.5246 0.4853 0.000 0.636 0.112 0.236 0.000 0.016
#> SRR1026917 2 0.5246 0.4853 0.000 0.636 0.112 0.236 0.000 0.016
#> SRR1026918 4 0.3797 0.1874 0.000 0.420 0.000 0.580 0.000 0.000
#> SRR1026919 4 0.3797 0.1874 0.000 0.420 0.000 0.580 0.000 0.000
#> SRR1026920 2 0.3670 0.5827 0.000 0.736 0.024 0.240 0.000 0.000
#> SRR1026921 2 0.3670 0.5827 0.000 0.736 0.024 0.240 0.000 0.000
#> SRR1026922 2 0.0692 0.7520 0.000 0.976 0.004 0.000 0.000 0.020
#> SRR1026923 2 0.0777 0.7516 0.000 0.972 0.004 0.000 0.000 0.024
#> SRR1026924 4 0.3014 0.5575 0.000 0.184 0.012 0.804 0.000 0.000
#> SRR1026925 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026926 4 0.2416 0.5842 0.000 0.156 0.000 0.844 0.000 0.000
#> SRR1026927 4 0.7062 0.4761 0.156 0.000 0.172 0.476 0.000 0.196
#> SRR1026928 2 0.4334 0.2475 0.000 0.568 0.024 0.408 0.000 0.000
#> SRR1026929 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026930 2 0.3351 0.6959 0.000 0.800 0.040 0.000 0.000 0.160
#> SRR1026931 2 0.3455 0.6864 0.000 0.784 0.036 0.000 0.000 0.180
#> SRR1026932 2 0.0692 0.7520 0.000 0.976 0.004 0.000 0.000 0.020
#> SRR1026933 2 0.0692 0.7520 0.000 0.976 0.004 0.000 0.000 0.020
#> SRR1026934 2 0.1700 0.7351 0.000 0.928 0.024 0.048 0.000 0.000
#> SRR1026935 2 0.1700 0.7351 0.000 0.928 0.024 0.048 0.000 0.000
#> SRR1026936 4 0.1141 0.6441 0.000 0.052 0.000 0.948 0.000 0.000
#> SRR1026937 4 0.1141 0.6441 0.000 0.052 0.000 0.948 0.000 0.000
#> SRR1026938 2 0.2793 0.6433 0.000 0.800 0.000 0.200 0.000 0.000
#> SRR1026939 2 0.2793 0.6433 0.000 0.800 0.000 0.200 0.000 0.000
#> SRR1026940 5 0.5542 0.3036 0.448 0.000 0.064 0.000 0.460 0.028
#> SRR1026941 3 0.3737 0.9120 0.000 0.000 0.608 0.000 0.392 0.000
#> SRR1026942 1 0.3490 0.3192 0.724 0.000 0.008 0.000 0.000 0.268
#> SRR1026943 1 0.4313 -0.2927 0.504 0.000 0.012 0.004 0.000 0.480
#> SRR1026944 1 0.0881 0.5946 0.972 0.000 0.008 0.000 0.012 0.008
#> SRR1026945 5 0.1007 0.5644 0.000 0.000 0.044 0.000 0.956 0.000
#> SRR1026947 2 0.1007 0.7435 0.000 0.956 0.000 0.044 0.000 0.000
#> SRR1026946 2 0.1075 0.7424 0.000 0.952 0.000 0.048 0.000 0.000
#> SRR1026948 2 0.3172 0.7020 0.000 0.816 0.036 0.000 0.000 0.148
#> SRR1026949 2 0.8422 0.0925 0.272 0.344 0.112 0.132 0.000 0.140
#> SRR1026950 1 0.2474 0.5545 0.884 0.000 0.080 0.004 0.000 0.032
#> SRR1026951 2 0.5439 0.6164 0.008 0.624 0.192 0.004 0.000 0.172
#> SRR1026952 1 0.1503 0.5856 0.944 0.000 0.032 0.000 0.008 0.016
#> SRR1026953 5 0.1141 0.5560 0.000 0.000 0.052 0.000 0.948 0.000
#> SRR1026954 4 0.5746 0.6119 0.000 0.024 0.256 0.580 0.000 0.140
#> SRR1026955 2 0.0692 0.7520 0.000 0.976 0.004 0.000 0.000 0.020
#> SRR1026956 4 0.7528 0.3263 0.244 0.000 0.176 0.364 0.000 0.216
#> SRR1026957 2 0.0692 0.7518 0.000 0.976 0.000 0.004 0.000 0.020
#> SRR1026958 1 0.3204 0.5196 0.832 0.000 0.052 0.004 0.000 0.112
#> SRR1026959 2 0.3794 0.6625 0.000 0.744 0.040 0.000 0.000 0.216
#> SRR1026960 4 0.7278 0.5276 0.092 0.016 0.284 0.440 0.000 0.168
#> SRR1026961 4 0.6307 0.1153 0.000 0.396 0.136 0.428 0.000 0.040
#> SRR1026962 1 0.1074 0.5899 0.960 0.000 0.028 0.000 0.000 0.012
#> SRR1026963 1 0.1332 0.5898 0.952 0.000 0.012 0.000 0.028 0.008
#> SRR1026964 4 0.1237 0.6555 0.000 0.004 0.020 0.956 0.000 0.020
#> SRR1026965 4 0.1237 0.6555 0.000 0.004 0.020 0.956 0.000 0.020
#> SRR1026966 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026967 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026968 4 0.6094 0.4766 0.000 0.196 0.172 0.580 0.000 0.052
#> SRR1026969 4 0.6242 0.5859 0.032 0.008 0.272 0.540 0.000 0.148
#> SRR1026970 4 0.7063 0.4621 0.128 0.000 0.160 0.452 0.000 0.260
#> SRR1026971 4 0.7063 0.4621 0.128 0.000 0.160 0.452 0.000 0.260
#> SRR1026972 4 0.6569 0.3846 0.068 0.000 0.128 0.428 0.000 0.376
#> SRR1026973 4 0.6569 0.3846 0.068 0.000 0.128 0.428 0.000 0.376
#> SRR1026974 1 0.7543 -0.0823 0.364 0.000 0.240 0.192 0.000 0.204
#> SRR1026975 1 0.7543 -0.0823 0.364 0.000 0.240 0.192 0.000 0.204
#> SRR1026976 4 0.5628 0.6085 0.000 0.008 0.256 0.568 0.000 0.168
#> SRR1026977 4 0.5628 0.6085 0.000 0.008 0.256 0.568 0.000 0.168
#> SRR1026978 6 0.4080 0.3836 0.456 0.000 0.008 0.000 0.000 0.536
#> SRR1026979 5 0.3563 -0.2966 0.000 0.000 0.336 0.000 0.664 0.000
#> SRR1026980 2 0.4931 0.6367 0.000 0.648 0.136 0.000 0.000 0.216
#> SRR1026981 3 0.3737 0.9120 0.000 0.000 0.608 0.000 0.392 0.000
#> SRR1026982 4 0.4660 0.6074 0.000 0.032 0.192 0.716 0.000 0.060
#> SRR1026983 4 0.4660 0.6074 0.000 0.032 0.192 0.716 0.000 0.060
#> SRR1026984 4 0.6559 0.1831 0.000 0.368 0.156 0.424 0.000 0.052
#> SRR1026985 4 0.6559 0.1831 0.000 0.368 0.156 0.424 0.000 0.052
#> SRR1026986 6 0.5505 0.4840 0.344 0.068 0.032 0.000 0.000 0.556
#> SRR1026987 6 0.3950 0.4385 0.432 0.000 0.004 0.000 0.000 0.564
#> SRR1026988 5 0.3969 0.5816 0.312 0.000 0.000 0.000 0.668 0.020
#> SRR1026989 5 0.3706 -0.4417 0.000 0.000 0.380 0.000 0.620 0.000
#> SRR1026990 4 0.5283 0.5986 0.004 0.000 0.180 0.620 0.000 0.196
#> SRR1026991 3 0.3737 0.9110 0.000 0.000 0.608 0.000 0.392 0.000
#> SRR1026992 1 0.0146 0.5917 0.996 0.000 0.000 0.000 0.000 0.004
#> SRR1026993 1 0.2778 0.4707 0.824 0.000 0.008 0.000 0.000 0.168
#> SRR1026994 6 0.4193 0.0879 0.000 0.352 0.024 0.000 0.000 0.624
#> SRR1026995 6 0.5432 0.3951 0.344 0.000 0.004 0.000 0.116 0.536
#> SRR1026996 4 0.3735 0.6347 0.000 0.004 0.084 0.792 0.000 0.120
#> SRR1026997 4 0.3735 0.6347 0.000 0.004 0.084 0.792 0.000 0.120
#> SRR1026998 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1026999 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1027000 6 0.4023 0.5313 0.240 0.000 0.016 0.000 0.020 0.724
#> SRR1027001 5 0.2092 0.6391 0.124 0.000 0.000 0.000 0.876 0.000
#> SRR1027002 6 0.4419 0.4959 0.136 0.132 0.004 0.000 0.000 0.728
#> SRR1027003 6 0.4570 -0.1949 0.000 0.436 0.036 0.000 0.000 0.528
#> SRR1027004 1 0.4626 -0.0030 0.588 0.000 0.032 0.000 0.372 0.008
#> SRR1027005 3 0.3737 0.9120 0.000 0.000 0.608 0.000 0.392 0.000
#> SRR1027006 5 0.2234 0.6384 0.124 0.000 0.004 0.000 0.872 0.000
#> SRR1027007 1 0.4338 -0.3631 0.496 0.000 0.020 0.000 0.000 0.484
#> SRR1027008 1 0.3607 0.0805 0.652 0.000 0.000 0.000 0.000 0.348
#> SRR1027009 5 0.1141 0.5560 0.000 0.000 0.052 0.000 0.948 0.000
#> SRR1027010 5 0.3957 0.6113 0.280 0.000 0.020 0.000 0.696 0.004
#> SRR1027011 5 0.1007 0.5644 0.000 0.000 0.044 0.000 0.956 0.000
#> SRR1177668 5 0.5138 0.5018 0.276 0.000 0.000 0.000 0.600 0.124
#> SRR1177667 1 0.3333 0.4386 0.784 0.000 0.000 0.000 0.024 0.192
#> SRR1177669 5 0.0790 0.5736 0.000 0.000 0.032 0.000 0.968 0.000
#> SRR1177670 5 0.0865 0.5710 0.000 0.000 0.036 0.000 0.964 0.000
#> SRR1177671 2 0.4110 0.6253 0.000 0.692 0.040 0.000 0.000 0.268
#> SRR1177672 5 0.0260 0.5863 0.000 0.000 0.008 0.000 0.992 0.000
#> SRR1177673 5 0.4474 0.4363 0.412 0.000 0.024 0.000 0.560 0.004
#> SRR1177674 5 0.1007 0.5644 0.000 0.000 0.044 0.000 0.956 0.000
#> SRR1177675 1 0.0363 0.5933 0.988 0.000 0.012 0.000 0.000 0.000
#> SRR1177676 5 0.3122 0.6445 0.176 0.000 0.000 0.000 0.804 0.020
#> SRR1177677 6 0.4453 0.3765 0.452 0.000 0.004 0.000 0.020 0.524
#> SRR1177678 1 0.2258 0.5544 0.896 0.000 0.000 0.000 0.044 0.060
#> SRR1177679 2 0.4151 0.6185 0.000 0.684 0.040 0.000 0.000 0.276
#> SRR1177680 2 0.4131 0.6220 0.000 0.688 0.040 0.000 0.000 0.272
#> SRR1177681 1 0.5176 0.2514 0.608 0.000 0.000 0.000 0.248 0.144
#> SRR1177682 6 0.4264 0.5250 0.208 0.024 0.028 0.000 0.004 0.736
#> SRR1177683 2 0.4089 0.6279 0.000 0.696 0.040 0.000 0.000 0.264
#> SRR1177684 2 0.4089 0.6279 0.000 0.696 0.040 0.000 0.000 0.264
#> SRR1177685 1 0.1225 0.5872 0.952 0.000 0.012 0.000 0.036 0.000
#> SRR1177686 3 0.3737 0.9120 0.000 0.000 0.608 0.000 0.392 0.000
#> SRR1177687 2 0.4151 0.6185 0.000 0.684 0.040 0.000 0.000 0.276
#> SRR1177688 6 0.4986 0.3062 0.444 0.000 0.000 0.000 0.068 0.488
#> SRR1177689 6 0.4389 0.4632 0.064 0.160 0.028 0.000 0.000 0.748
#> SRR1177690 1 0.3996 -0.3522 0.512 0.000 0.004 0.000 0.000 0.484
#> SRR1177691 2 0.4151 0.6185 0.000 0.684 0.040 0.000 0.000 0.276
#> SRR1177692 2 0.4151 0.6185 0.000 0.684 0.040 0.000 0.000 0.276
#> SRR1177693 2 0.1141 0.7410 0.000 0.948 0.000 0.052 0.000 0.000
#> SRR1177694 2 0.3670 0.5827 0.000 0.736 0.024 0.240 0.000 0.000
#> SRR1177695 6 0.3835 0.5192 0.320 0.000 0.012 0.000 0.000 0.668
#> SRR1177697 1 0.2948 0.4462 0.804 0.000 0.008 0.000 0.000 0.188
#> SRR1177696 5 0.0865 0.5710 0.000 0.000 0.036 0.000 0.964 0.000
#> SRR1177698 5 0.1007 0.5644 0.000 0.000 0.044 0.000 0.956 0.000
#> SRR1177700 1 0.8481 -0.0303 0.328 0.000 0.124 0.156 0.276 0.116
#> SRR1177701 4 0.7623 0.2498 0.272 0.000 0.176 0.312 0.000 0.240
#> SRR1177702 3 0.6332 -0.0718 0.304 0.000 0.352 0.000 0.336 0.008
#> SRR1177703 1 0.7485 -0.0586 0.384 0.000 0.188 0.224 0.000 0.204
#> SRR1177704 3 0.5372 0.6671 0.000 0.160 0.600 0.000 0.236 0.004
#> SRR1177705 1 0.4313 -0.2915 0.504 0.000 0.012 0.004 0.000 0.480
#> SRR1177706 2 0.4594 0.2625 0.000 0.488 0.036 0.000 0.000 0.476
#> SRR1177707 1 0.7295 0.0296 0.392 0.000 0.288 0.132 0.000 0.188
#> SRR1177708 5 0.5935 0.5160 0.104 0.000 0.132 0.044 0.668 0.052
#> SRR1177709 5 0.4545 0.5992 0.224 0.000 0.000 0.000 0.684 0.092
#> SRR1177710 5 0.1141 0.5560 0.000 0.000 0.052 0.000 0.948 0.000
#> SRR1177711 1 0.1225 0.5872 0.952 0.000 0.012 0.000 0.036 0.000
#> SRR1177712 3 0.7771 0.2589 0.048 0.036 0.372 0.016 0.212 0.316
#> SRR1177714 2 0.3821 0.6604 0.000 0.740 0.040 0.000 0.000 0.220
#> SRR1177713 5 0.6031 0.2510 0.296 0.000 0.280 0.000 0.424 0.000
#> SRR1177715 2 0.4524 0.4759 0.000 0.584 0.040 0.000 0.000 0.376
#> SRR1177716 3 0.3737 0.9120 0.000 0.000 0.608 0.000 0.392 0.000
#> SRR1177717 1 0.0692 0.5924 0.976 0.000 0.020 0.000 0.000 0.004
#> SRR1177718 1 0.0363 0.5900 0.988 0.000 0.000 0.000 0.000 0.012
#> SRR1177719 1 0.5388 0.3728 0.656 0.000 0.144 0.032 0.000 0.168
#> SRR1177720 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1177721 2 0.3520 0.6820 0.000 0.776 0.036 0.000 0.000 0.188
#> SRR1177722 2 0.1829 0.7428 0.000 0.920 0.024 0.000 0.000 0.056
#> SRR1177723 1 0.2730 0.4531 0.808 0.000 0.000 0.000 0.000 0.192
#> SRR1177725 1 0.0806 0.5921 0.972 0.000 0.020 0.000 0.000 0.008
#> SRR1177724 1 0.3265 0.3515 0.748 0.000 0.004 0.000 0.000 0.248
#> SRR1177726 5 0.1141 0.5560 0.000 0.000 0.052 0.000 0.948 0.000
#> SRR1177727 1 0.1700 0.5709 0.928 0.000 0.000 0.000 0.048 0.024
#> SRR1177728 5 0.1141 0.5560 0.000 0.000 0.052 0.000 0.948 0.000
#> SRR1177729 1 0.2553 0.4946 0.848 0.000 0.008 0.000 0.000 0.144
#> SRR1177730 5 0.2234 0.6384 0.124 0.000 0.004 0.000 0.872 0.000
#> SRR1177731 5 0.4674 0.5143 0.332 0.000 0.000 0.000 0.608 0.060
#> SRR1177732 5 0.4594 0.5136 0.340 0.000 0.000 0.000 0.608 0.052
#> SRR1177733 6 0.4185 0.3021 0.492 0.000 0.012 0.000 0.000 0.496
#> SRR1177734 1 0.1218 0.5933 0.956 0.000 0.012 0.000 0.004 0.028
#> SRR1177735 1 0.6495 0.0722 0.492 0.056 0.132 0.004 0.000 0.316
#> SRR1177736 5 0.4614 0.4248 0.416 0.000 0.032 0.000 0.548 0.004
#> SRR1177737 2 0.5473 0.4603 0.000 0.616 0.128 0.236 0.000 0.020
#> SRR1177738 3 0.3695 0.9237 0.000 0.000 0.624 0.000 0.376 0.000
#> SRR1177739 1 0.2171 0.5843 0.912 0.000 0.016 0.000 0.040 0.032
#> SRR1177740 1 0.4097 -0.3329 0.504 0.000 0.008 0.000 0.000 0.488
#> SRR1177741 1 0.2979 0.5121 0.840 0.000 0.000 0.000 0.044 0.116
#> SRR1177742 5 0.1663 0.4954 0.000 0.000 0.088 0.000 0.912 0.000
#> SRR1177743 5 0.4357 0.5329 0.340 0.000 0.000 0.000 0.624 0.036
#> SRR1177744 5 0.2178 0.6405 0.132 0.000 0.000 0.000 0.868 0.000
#> SRR1177745 2 0.4828 0.5986 0.000 0.640 0.080 0.004 0.000 0.276
#> SRR1177746 2 0.4274 0.6153 0.000 0.676 0.048 0.000 0.000 0.276
#> SRR1177747 5 0.1327 0.5377 0.000 0.000 0.064 0.000 0.936 0.000
#> SRR1177748 5 0.3817 -0.5816 0.000 0.000 0.432 0.000 0.568 0.000
#> SRR1177749 1 0.0922 0.5910 0.968 0.000 0.004 0.000 0.024 0.004
#> SRR1177750 6 0.3998 0.3239 0.492 0.000 0.004 0.000 0.000 0.504
#> SRR1177751 6 0.3991 0.3893 0.472 0.000 0.004 0.000 0.000 0.524
#> SRR1177752 1 0.2854 0.4298 0.792 0.000 0.000 0.000 0.000 0.208
#> SRR1177753 1 0.4252 0.1537 0.652 0.000 0.000 0.000 0.036 0.312
#> SRR1177754 5 0.3481 0.6422 0.192 0.000 0.000 0.000 0.776 0.032
#> SRR1177755 1 0.2909 0.5037 0.836 0.000 0.028 0.000 0.000 0.136
#> SRR1177756 1 0.4097 -0.3589 0.504 0.000 0.008 0.000 0.000 0.488
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["SD", "pam"]
# you can also extract it by
# res = res_list["SD:pam"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'SD' method.
#> Subgroups are detected by 'pam' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 4.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.502 0.735 0.894 0.4793 0.517 0.517
#> 3 3 0.673 0.763 0.886 0.2521 0.750 0.566
#> 4 4 0.830 0.843 0.936 0.1768 0.781 0.516
#> 5 5 0.717 0.710 0.837 0.0691 0.942 0.813
#> 6 6 0.713 0.686 0.806 0.0576 0.887 0.602
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 4
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.89491 0.000 1.000
#> SRR1026871 2 0.0000 0.89491 0.000 1.000
#> SRR1026872 2 0.0000 0.89491 0.000 1.000
#> SRR1026873 1 0.0000 0.85169 1.000 0.000
#> SRR1026874 1 0.0000 0.85169 1.000 0.000
#> SRR1026875 2 0.0000 0.89491 0.000 1.000
#> SRR1026876 2 0.0000 0.89491 0.000 1.000
#> SRR1026877 1 0.9710 0.39882 0.600 0.400
#> SRR1026878 1 0.9710 0.39882 0.600 0.400
#> SRR1026879 1 0.0000 0.85169 1.000 0.000
#> SRR1026880 1 0.0000 0.85169 1.000 0.000
#> SRR1026881 2 0.0000 0.89491 0.000 1.000
#> SRR1026882 2 0.0000 0.89491 0.000 1.000
#> SRR1026883 2 0.0000 0.89491 0.000 1.000
#> SRR1026884 2 0.0000 0.89491 0.000 1.000
#> SRR1026885 2 0.9970 -0.07327 0.468 0.532
#> SRR1026886 2 0.9970 -0.07327 0.468 0.532
#> SRR1026887 1 0.9710 0.39882 0.600 0.400
#> SRR1026888 1 0.9710 0.39882 0.600 0.400
#> SRR1026889 2 0.0000 0.89491 0.000 1.000
#> SRR1026890 2 0.0000 0.89491 0.000 1.000
#> SRR1026891 1 0.8955 0.55234 0.688 0.312
#> SRR1026892 1 0.9087 0.53357 0.676 0.324
#> SRR1026893 1 0.9710 0.39882 0.600 0.400
#> SRR1026894 1 0.9710 0.39882 0.600 0.400
#> SRR1026895 2 0.0000 0.89491 0.000 1.000
#> SRR1026896 2 0.0000 0.89491 0.000 1.000
#> SRR1026897 1 0.0000 0.85169 1.000 0.000
#> SRR1026898 1 0.0000 0.85169 1.000 0.000
#> SRR1026899 1 0.0000 0.85169 1.000 0.000
#> SRR1026900 2 0.0000 0.89491 0.000 1.000
#> SRR1026901 2 0.0376 0.89182 0.004 0.996
#> SRR1026902 2 0.9970 -0.07327 0.468 0.532
#> SRR1026903 2 0.9970 -0.07327 0.468 0.532
#> SRR1026904 2 0.0376 0.89182 0.004 0.996
#> SRR1026905 2 0.1843 0.86977 0.028 0.972
#> SRR1026906 2 0.0000 0.89491 0.000 1.000
#> SRR1026907 2 0.0000 0.89491 0.000 1.000
#> SRR1026908 2 0.0000 0.89491 0.000 1.000
#> SRR1026909 2 0.0000 0.89491 0.000 1.000
#> SRR1026910 2 0.0000 0.89491 0.000 1.000
#> SRR1026911 2 0.0000 0.89491 0.000 1.000
#> SRR1026912 1 0.9732 0.38944 0.596 0.404
#> SRR1026913 1 0.9732 0.38944 0.596 0.404
#> SRR1026914 2 0.0000 0.89491 0.000 1.000
#> SRR1026915 2 0.0000 0.89491 0.000 1.000
#> SRR1026916 2 0.0000 0.89491 0.000 1.000
#> SRR1026917 2 0.0000 0.89491 0.000 1.000
#> SRR1026918 2 0.0000 0.89491 0.000 1.000
#> SRR1026919 2 0.0000 0.89491 0.000 1.000
#> SRR1026920 2 0.0000 0.89491 0.000 1.000
#> SRR1026921 2 0.0000 0.89491 0.000 1.000
#> SRR1026922 2 0.0000 0.89491 0.000 1.000
#> SRR1026923 2 0.0000 0.89491 0.000 1.000
#> SRR1026924 2 0.0000 0.89491 0.000 1.000
#> SRR1026925 1 0.9710 0.39882 0.600 0.400
#> SRR1026926 2 0.0000 0.89491 0.000 1.000
#> SRR1026927 1 0.9710 0.39882 0.600 0.400
#> SRR1026928 2 0.0000 0.89491 0.000 1.000
#> SRR1026929 1 0.9795 0.35969 0.584 0.416
#> SRR1026930 2 0.0000 0.89491 0.000 1.000
#> SRR1026931 2 0.0000 0.89491 0.000 1.000
#> SRR1026932 2 0.0000 0.89491 0.000 1.000
#> SRR1026933 2 0.0000 0.89491 0.000 1.000
#> SRR1026934 2 0.0000 0.89491 0.000 1.000
#> SRR1026935 2 0.0000 0.89491 0.000 1.000
#> SRR1026936 2 0.0000 0.89491 0.000 1.000
#> SRR1026937 2 0.0000 0.89491 0.000 1.000
#> SRR1026938 2 0.0000 0.89491 0.000 1.000
#> SRR1026939 2 0.0000 0.89491 0.000 1.000
#> SRR1026940 1 0.7453 0.72675 0.788 0.212
#> SRR1026941 1 0.2603 0.83224 0.956 0.044
#> SRR1026942 1 0.0000 0.85169 1.000 0.000
#> SRR1026943 1 0.5178 0.79860 0.884 0.116
#> SRR1026944 1 0.0000 0.85169 1.000 0.000
#> SRR1026945 1 0.0000 0.85169 1.000 0.000
#> SRR1026947 2 0.0000 0.89491 0.000 1.000
#> SRR1026946 2 0.0000 0.89491 0.000 1.000
#> SRR1026948 2 0.0000 0.89491 0.000 1.000
#> SRR1026949 1 0.5737 0.78469 0.864 0.136
#> SRR1026950 1 0.5629 0.78669 0.868 0.132
#> SRR1026951 2 0.0672 0.88849 0.008 0.992
#> SRR1026952 1 0.5178 0.79860 0.884 0.116
#> SRR1026953 1 0.0000 0.85169 1.000 0.000
#> SRR1026954 2 0.9970 -0.07327 0.468 0.532
#> SRR1026955 2 0.0000 0.89491 0.000 1.000
#> SRR1026956 1 0.5178 0.79860 0.884 0.116
#> SRR1026957 2 0.0000 0.89491 0.000 1.000
#> SRR1026958 1 0.5178 0.79860 0.884 0.116
#> SRR1026959 2 0.0000 0.89491 0.000 1.000
#> SRR1026960 2 0.3274 0.83512 0.060 0.940
#> SRR1026961 2 0.0000 0.89491 0.000 1.000
#> SRR1026962 1 0.0000 0.85169 1.000 0.000
#> SRR1026963 1 0.0000 0.85169 1.000 0.000
#> SRR1026964 2 0.0000 0.89491 0.000 1.000
#> SRR1026965 2 0.0000 0.89491 0.000 1.000
#> SRR1026966 1 0.9710 0.39882 0.600 0.400
#> SRR1026967 1 0.9710 0.39882 0.600 0.400
#> SRR1026968 2 0.0000 0.89491 0.000 1.000
#> SRR1026969 2 0.9970 -0.07327 0.468 0.532
#> SRR1026970 1 0.9896 0.34305 0.560 0.440
#> SRR1026971 1 0.9635 0.46236 0.612 0.388
#> SRR1026972 1 0.9833 0.38040 0.576 0.424
#> SRR1026973 1 0.9833 0.38040 0.576 0.424
#> SRR1026974 1 0.7376 0.73112 0.792 0.208
#> SRR1026975 1 0.7376 0.73112 0.792 0.208
#> SRR1026976 2 0.9970 -0.07327 0.468 0.532
#> SRR1026977 2 0.9970 -0.07327 0.468 0.532
#> SRR1026978 1 0.5178 0.79860 0.884 0.116
#> SRR1026979 1 0.0000 0.85169 1.000 0.000
#> SRR1026980 1 0.9909 0.32964 0.556 0.444
#> SRR1026981 1 0.9710 0.39882 0.600 0.400
#> SRR1026982 2 0.0000 0.89491 0.000 1.000
#> SRR1026983 2 0.0000 0.89491 0.000 1.000
#> SRR1026984 2 0.0000 0.89491 0.000 1.000
#> SRR1026985 2 0.0000 0.89491 0.000 1.000
#> SRR1026986 1 0.5629 0.78669 0.868 0.132
#> SRR1026987 1 0.5178 0.79860 0.884 0.116
#> SRR1026988 1 0.0000 0.85169 1.000 0.000
#> SRR1026989 1 0.0000 0.85169 1.000 0.000
#> SRR1026990 2 0.9970 -0.07327 0.468 0.532
#> SRR1026991 1 0.9710 0.39882 0.600 0.400
#> SRR1026992 1 0.0000 0.85169 1.000 0.000
#> SRR1026993 1 0.5178 0.79860 0.884 0.116
#> SRR1026994 1 0.9866 0.36038 0.568 0.432
#> SRR1026995 1 0.0000 0.85169 1.000 0.000
#> SRR1026996 2 0.9970 -0.07327 0.468 0.532
#> SRR1026997 2 0.9970 -0.07327 0.468 0.532
#> SRR1026998 1 0.9710 0.39882 0.600 0.400
#> SRR1026999 1 0.9710 0.39882 0.600 0.400
#> SRR1027000 1 0.0000 0.85169 1.000 0.000
#> SRR1027001 1 0.0000 0.85169 1.000 0.000
#> SRR1027002 2 0.9710 0.25151 0.400 0.600
#> SRR1027003 1 1.0000 0.02622 0.500 0.500
#> SRR1027004 1 0.5178 0.79860 0.884 0.116
#> SRR1027005 1 0.9635 0.42347 0.612 0.388
#> SRR1027006 1 0.0000 0.85169 1.000 0.000
#> SRR1027007 1 0.5294 0.79583 0.880 0.120
#> SRR1027008 1 0.5178 0.79860 0.884 0.116
#> SRR1027009 1 0.0000 0.85169 1.000 0.000
#> SRR1027010 1 0.0000 0.85169 1.000 0.000
#> SRR1027011 1 0.0000 0.85169 1.000 0.000
#> SRR1177668 1 0.0000 0.85169 1.000 0.000
#> SRR1177667 1 0.0000 0.85169 1.000 0.000
#> SRR1177669 1 0.0000 0.85169 1.000 0.000
#> SRR1177670 1 0.0000 0.85169 1.000 0.000
#> SRR1177671 2 0.0000 0.89491 0.000 1.000
#> SRR1177672 1 0.0000 0.85169 1.000 0.000
#> SRR1177673 1 0.0000 0.85169 1.000 0.000
#> SRR1177674 1 0.0000 0.85169 1.000 0.000
#> SRR1177675 1 0.0000 0.85169 1.000 0.000
#> SRR1177676 1 0.0000 0.85169 1.000 0.000
#> SRR1177677 1 0.0000 0.85169 1.000 0.000
#> SRR1177678 1 0.0000 0.85169 1.000 0.000
#> SRR1177679 2 0.9044 0.42888 0.320 0.680
#> SRR1177680 2 0.7219 0.65218 0.200 0.800
#> SRR1177681 1 0.0000 0.85169 1.000 0.000
#> SRR1177682 1 0.0000 0.85169 1.000 0.000
#> SRR1177683 2 0.0000 0.89491 0.000 1.000
#> SRR1177684 2 0.0000 0.89491 0.000 1.000
#> SRR1177685 1 0.0000 0.85169 1.000 0.000
#> SRR1177686 1 0.8555 0.60889 0.720 0.280
#> SRR1177687 2 0.0376 0.89159 0.004 0.996
#> SRR1177688 1 0.0000 0.85169 1.000 0.000
#> SRR1177689 1 0.5178 0.79860 0.884 0.116
#> SRR1177690 1 0.0000 0.85169 1.000 0.000
#> SRR1177691 2 0.2603 0.85322 0.044 0.956
#> SRR1177692 2 0.9922 -0.00257 0.448 0.552
#> SRR1177693 2 0.0000 0.89491 0.000 1.000
#> SRR1177694 2 0.0000 0.89491 0.000 1.000
#> SRR1177695 1 0.5178 0.79860 0.884 0.116
#> SRR1177697 1 0.5178 0.79860 0.884 0.116
#> SRR1177696 1 0.0000 0.85169 1.000 0.000
#> SRR1177698 1 0.0000 0.85169 1.000 0.000
#> SRR1177700 1 0.7139 0.74185 0.804 0.196
#> SRR1177701 1 0.7299 0.73497 0.796 0.204
#> SRR1177702 1 0.0000 0.85169 1.000 0.000
#> SRR1177703 1 0.7376 0.73274 0.792 0.208
#> SRR1177704 2 0.9998 -0.15698 0.492 0.508
#> SRR1177705 1 0.5178 0.79860 0.884 0.116
#> SRR1177706 2 0.5408 0.76864 0.124 0.876
#> SRR1177707 1 0.9850 0.37880 0.572 0.428
#> SRR1177708 1 0.8081 0.65295 0.752 0.248
#> SRR1177709 1 0.0000 0.85169 1.000 0.000
#> SRR1177710 1 0.0000 0.85169 1.000 0.000
#> SRR1177711 1 0.0000 0.85169 1.000 0.000
#> SRR1177712 1 0.0376 0.85018 0.996 0.004
#> SRR1177714 2 0.0000 0.89491 0.000 1.000
#> SRR1177713 1 0.0000 0.85169 1.000 0.000
#> SRR1177715 1 0.5408 0.79296 0.876 0.124
#> SRR1177716 1 0.9044 0.54717 0.680 0.320
#> SRR1177717 1 0.0000 0.85169 1.000 0.000
#> SRR1177718 1 0.0000 0.85169 1.000 0.000
#> SRR1177719 1 0.5178 0.79860 0.884 0.116
#> SRR1177720 1 0.9710 0.39882 0.600 0.400
#> SRR1177721 2 0.0000 0.89491 0.000 1.000
#> SRR1177722 2 0.0000 0.89491 0.000 1.000
#> SRR1177723 1 0.0000 0.85169 1.000 0.000
#> SRR1177725 1 0.0000 0.85169 1.000 0.000
#> SRR1177724 1 0.0000 0.85169 1.000 0.000
#> SRR1177726 1 0.0000 0.85169 1.000 0.000
#> SRR1177727 1 0.0000 0.85169 1.000 0.000
#> SRR1177728 1 0.0000 0.85169 1.000 0.000
#> SRR1177729 1 0.0000 0.85169 1.000 0.000
#> SRR1177730 1 0.0000 0.85169 1.000 0.000
#> SRR1177731 1 0.0000 0.85169 1.000 0.000
#> SRR1177732 1 0.0000 0.85169 1.000 0.000
#> SRR1177733 1 0.5178 0.79860 0.884 0.116
#> SRR1177734 1 0.0000 0.85169 1.000 0.000
#> SRR1177735 1 0.9170 0.56948 0.668 0.332
#> SRR1177736 1 0.0000 0.85169 1.000 0.000
#> SRR1177737 2 0.0000 0.89491 0.000 1.000
#> SRR1177738 2 0.0672 0.88849 0.008 0.992
#> SRR1177739 1 0.0000 0.85169 1.000 0.000
#> SRR1177740 1 0.1184 0.84598 0.984 0.016
#> SRR1177741 1 0.0000 0.85169 1.000 0.000
#> SRR1177742 1 0.0000 0.85169 1.000 0.000
#> SRR1177743 1 0.0000 0.85169 1.000 0.000
#> SRR1177744 1 0.0000 0.85169 1.000 0.000
#> SRR1177745 2 0.0000 0.89491 0.000 1.000
#> SRR1177746 2 0.7139 0.67691 0.196 0.804
#> SRR1177747 1 0.4431 0.80296 0.908 0.092
#> SRR1177748 1 0.0000 0.85169 1.000 0.000
#> SRR1177749 1 0.0000 0.85169 1.000 0.000
#> SRR1177750 1 0.0000 0.85169 1.000 0.000
#> SRR1177751 1 0.5178 0.79860 0.884 0.116
#> SRR1177752 1 0.0000 0.85169 1.000 0.000
#> SRR1177753 1 0.0000 0.85169 1.000 0.000
#> SRR1177754 1 0.0000 0.85169 1.000 0.000
#> SRR1177755 1 0.5178 0.79860 0.884 0.116
#> SRR1177756 1 0.5178 0.79860 0.884 0.116
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026874 1 0.5968 0.2754 0.636 0.000 0.364
#> SRR1026875 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026879 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026880 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026881 2 0.2625 0.7415 0.000 0.916 0.084
#> SRR1026882 2 0.2625 0.7415 0.000 0.916 0.084
#> SRR1026883 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026884 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026885 1 0.4790 0.7883 0.848 0.056 0.096
#> SRR1026886 1 0.5253 0.7658 0.828 0.076 0.096
#> SRR1026887 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026889 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026890 2 0.6822 0.2280 0.012 0.508 0.480
#> SRR1026891 1 0.2625 0.8473 0.916 0.000 0.084
#> SRR1026892 1 0.2625 0.8473 0.916 0.000 0.084
#> SRR1026893 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026895 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026896 2 0.8425 0.5138 0.364 0.540 0.096
#> SRR1026897 1 0.6140 0.1579 0.596 0.000 0.404
#> SRR1026898 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026899 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026900 2 0.0237 0.7556 0.000 0.996 0.004
#> SRR1026901 1 0.8578 -0.1055 0.504 0.396 0.100
#> SRR1026902 1 0.6935 0.6104 0.728 0.176 0.096
#> SRR1026903 1 0.6425 0.6749 0.764 0.140 0.096
#> SRR1026904 2 0.9243 0.4470 0.368 0.472 0.160
#> SRR1026905 2 0.9252 0.4386 0.372 0.468 0.160
#> SRR1026906 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026910 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026911 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026912 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026914 2 0.2711 0.7401 0.000 0.912 0.088
#> SRR1026915 2 0.2448 0.7436 0.000 0.924 0.076
#> SRR1026916 2 0.0747 0.7542 0.000 0.984 0.016
#> SRR1026917 2 0.0747 0.7542 0.000 0.984 0.016
#> SRR1026918 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026919 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026920 2 0.2878 0.7371 0.000 0.904 0.096
#> SRR1026921 2 0.2878 0.7371 0.000 0.904 0.096
#> SRR1026922 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026923 2 0.1411 0.7517 0.000 0.964 0.036
#> SRR1026924 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026925 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026926 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026927 1 0.2878 0.8369 0.904 0.000 0.096
#> SRR1026928 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026929 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026930 2 0.3207 0.7414 0.012 0.904 0.084
#> SRR1026931 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026936 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026937 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026938 2 0.2625 0.7415 0.000 0.916 0.084
#> SRR1026939 2 0.2625 0.7415 0.000 0.916 0.084
#> SRR1026940 1 0.0747 0.8974 0.984 0.000 0.016
#> SRR1026941 3 0.2796 0.8894 0.092 0.000 0.908
#> SRR1026942 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026945 3 0.4842 0.7713 0.224 0.000 0.776
#> SRR1026947 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026949 1 0.1529 0.8796 0.960 0.040 0.000
#> SRR1026950 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026951 1 0.7971 0.3311 0.624 0.280 0.096
#> SRR1026952 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026953 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1026954 1 0.4369 0.8041 0.864 0.040 0.096
#> SRR1026955 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026957 2 0.1289 0.7526 0.000 0.968 0.032
#> SRR1026958 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1026960 2 0.8188 0.5073 0.372 0.548 0.080
#> SRR1026961 2 0.6486 0.6939 0.144 0.760 0.096
#> SRR1026962 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026964 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026965 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026966 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026968 2 0.8519 0.4492 0.396 0.508 0.096
#> SRR1026969 1 0.4887 0.7856 0.844 0.060 0.096
#> SRR1026970 1 0.6731 0.6254 0.740 0.172 0.088
#> SRR1026971 1 0.6407 0.6544 0.760 0.160 0.080
#> SRR1026972 1 0.7226 0.5245 0.692 0.228 0.080
#> SRR1026973 1 0.7226 0.5245 0.692 0.228 0.080
#> SRR1026974 1 0.0747 0.8974 0.984 0.000 0.016
#> SRR1026975 1 0.0747 0.8974 0.984 0.000 0.016
#> SRR1026976 1 0.4369 0.8041 0.864 0.040 0.096
#> SRR1026977 1 0.4369 0.8041 0.864 0.040 0.096
#> SRR1026978 1 0.1411 0.8827 0.964 0.036 0.000
#> SRR1026979 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1026980 1 0.4925 0.7961 0.844 0.076 0.080
#> SRR1026981 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026982 2 0.8465 0.4928 0.376 0.528 0.096
#> SRR1026983 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026984 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026985 2 0.8439 0.5086 0.368 0.536 0.096
#> SRR1026986 1 0.1860 0.8730 0.948 0.052 0.000
#> SRR1026987 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026988 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026989 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1026990 1 0.6031 0.7124 0.788 0.116 0.096
#> SRR1026991 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026994 1 0.7065 0.5378 0.700 0.228 0.072
#> SRR1026995 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1026996 1 0.7525 0.4982 0.676 0.228 0.096
#> SRR1026997 1 0.7525 0.4982 0.676 0.228 0.096
#> SRR1026998 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1027000 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1027001 1 0.6140 0.1595 0.596 0.000 0.404
#> SRR1027002 1 0.6215 0.0093 0.572 0.428 0.000
#> SRR1027003 1 0.4452 0.6964 0.808 0.192 0.000
#> SRR1027004 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1027006 1 0.0424 0.9004 0.992 0.000 0.008
#> SRR1027007 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1027008 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1027009 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1027010 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1027011 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1177668 1 0.1860 0.8656 0.948 0.000 0.052
#> SRR1177667 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177669 1 0.5968 0.2754 0.636 0.000 0.364
#> SRR1177670 3 0.4842 0.7713 0.224 0.000 0.776
#> SRR1177671 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1177672 3 0.4062 0.8359 0.164 0.000 0.836
#> SRR1177673 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177674 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1177675 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177676 1 0.2356 0.8469 0.928 0.000 0.072
#> SRR1177677 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177679 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1177680 2 0.7722 0.3172 0.432 0.520 0.048
#> SRR1177681 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177682 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177683 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177686 3 0.1411 0.8997 0.036 0.000 0.964
#> SRR1177687 2 0.8268 0.5545 0.328 0.576 0.096
#> SRR1177688 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177689 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177690 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1177692 1 0.6486 0.6873 0.760 0.144 0.096
#> SRR1177693 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1177694 2 0.2878 0.7371 0.000 0.904 0.096
#> SRR1177695 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177697 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177696 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177698 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1177700 1 0.0892 0.8949 0.980 0.000 0.020
#> SRR1177701 1 0.0747 0.8974 0.984 0.000 0.016
#> SRR1177702 1 0.0747 0.8968 0.984 0.000 0.016
#> SRR1177703 1 0.1411 0.8853 0.964 0.000 0.036
#> SRR1177704 3 0.5958 0.5297 0.300 0.008 0.692
#> SRR1177705 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177706 2 0.5733 0.5827 0.324 0.676 0.000
#> SRR1177707 1 0.2537 0.8511 0.920 0.000 0.080
#> SRR1177708 1 0.1860 0.8734 0.948 0.000 0.052
#> SRR1177709 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177710 3 0.6295 0.2388 0.472 0.000 0.528
#> SRR1177711 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177712 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177714 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1177713 1 0.6008 0.2525 0.628 0.000 0.372
#> SRR1177715 1 0.3482 0.8074 0.872 0.128 0.000
#> SRR1177716 3 0.0592 0.9021 0.012 0.000 0.988
#> SRR1177717 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177720 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.7558 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177726 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1177727 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177728 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1177729 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177730 3 0.4062 0.8352 0.164 0.000 0.836
#> SRR1177731 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177732 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177733 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177735 1 0.3369 0.8458 0.908 0.040 0.052
#> SRR1177736 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177737 2 0.3459 0.7362 0.012 0.892 0.096
#> SRR1177738 3 0.0000 0.9023 0.000 0.000 1.000
#> SRR1177739 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177741 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177742 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1177743 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177744 1 0.3879 0.7688 0.848 0.000 0.152
#> SRR1177745 2 0.7564 0.6134 0.232 0.672 0.096
#> SRR1177746 2 0.7841 0.1336 0.468 0.480 0.052
#> SRR1177747 1 0.5397 0.5625 0.720 0.000 0.280
#> SRR1177748 3 0.2878 0.8886 0.096 0.000 0.904
#> SRR1177749 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177754 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177755 1 0.0000 0.9054 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.9054 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026871 2 0.0188 0.9391 0.000 0.996 0.000 0.004
#> SRR1026872 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026873 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026874 1 0.4981 0.1374 0.536 0.000 0.464 0.000
#> SRR1026875 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026876 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026877 3 0.3123 0.7970 0.000 0.000 0.844 0.156
#> SRR1026878 3 0.2530 0.8503 0.000 0.000 0.888 0.112
#> SRR1026879 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026880 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026881 4 0.1302 0.8697 0.000 0.044 0.000 0.956
#> SRR1026882 4 0.1389 0.8667 0.000 0.048 0.000 0.952
#> SRR1026883 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026884 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026885 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026886 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026887 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026888 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026889 2 0.0188 0.9392 0.000 0.996 0.000 0.004
#> SRR1026890 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026891 1 0.4477 0.5580 0.688 0.000 0.000 0.312
#> SRR1026892 1 0.4543 0.5352 0.676 0.000 0.000 0.324
#> SRR1026893 4 0.4040 0.6498 0.000 0.000 0.248 0.752
#> SRR1026894 4 0.3873 0.6781 0.000 0.000 0.228 0.772
#> SRR1026895 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026896 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026897 3 0.4985 0.0765 0.468 0.000 0.532 0.000
#> SRR1026898 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026899 1 0.1792 0.8765 0.932 0.000 0.068 0.000
#> SRR1026900 2 0.2408 0.8592 0.000 0.896 0.000 0.104
#> SRR1026901 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026902 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026903 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026904 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026905 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026906 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026907 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026908 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026909 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026910 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026911 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026912 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026913 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026914 2 0.4564 0.5446 0.000 0.672 0.000 0.328
#> SRR1026915 2 0.4543 0.5560 0.000 0.676 0.000 0.324
#> SRR1026916 2 0.2589 0.8464 0.000 0.884 0.000 0.116
#> SRR1026917 2 0.2589 0.8464 0.000 0.884 0.000 0.116
#> SRR1026918 4 0.0188 0.8960 0.000 0.004 0.000 0.996
#> SRR1026919 4 0.0188 0.8960 0.000 0.004 0.000 0.996
#> SRR1026920 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026921 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026922 2 0.0469 0.9334 0.000 0.988 0.000 0.012
#> SRR1026923 2 0.2704 0.8349 0.000 0.876 0.000 0.124
#> SRR1026924 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026925 4 0.3837 0.6835 0.000 0.000 0.224 0.776
#> SRR1026926 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026927 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026928 4 0.0336 0.8938 0.000 0.008 0.000 0.992
#> SRR1026929 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1026930 4 0.4981 0.0793 0.000 0.464 0.000 0.536
#> SRR1026931 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026932 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026933 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026934 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026935 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026936 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026937 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026938 4 0.3444 0.7288 0.000 0.184 0.000 0.816
#> SRR1026939 4 0.3764 0.6829 0.000 0.216 0.000 0.784
#> SRR1026940 4 0.4477 0.5549 0.312 0.000 0.000 0.688
#> SRR1026941 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026943 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026944 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026945 1 0.4661 0.4769 0.652 0.000 0.348 0.000
#> SRR1026947 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026946 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026948 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026949 1 0.4916 0.2178 0.576 0.000 0.000 0.424
#> SRR1026950 1 0.0469 0.9186 0.988 0.000 0.000 0.012
#> SRR1026951 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026952 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026953 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026955 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026956 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026957 2 0.2704 0.8325 0.000 0.876 0.000 0.124
#> SRR1026958 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026959 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.2919 0.8314 0.044 0.060 0.000 0.896
#> SRR1026961 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026962 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026963 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026964 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026965 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026966 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026969 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026970 1 0.4981 0.1803 0.536 0.000 0.000 0.464
#> SRR1026971 1 0.4454 0.5687 0.692 0.000 0.000 0.308
#> SRR1026972 1 0.4746 0.5617 0.688 0.008 0.000 0.304
#> SRR1026973 1 0.4746 0.5617 0.688 0.008 0.000 0.304
#> SRR1026974 4 0.4543 0.5339 0.324 0.000 0.000 0.676
#> SRR1026975 4 0.4605 0.5113 0.336 0.000 0.000 0.664
#> SRR1026976 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026977 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026978 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026979 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1026980 4 0.4916 0.2143 0.424 0.000 0.000 0.576
#> SRR1026981 4 0.4955 0.2389 0.000 0.000 0.444 0.556
#> SRR1026982 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026983 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026984 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026985 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026986 1 0.1474 0.8885 0.948 0.052 0.000 0.000
#> SRR1026987 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026988 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026989 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1026990 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026991 3 0.0188 0.9536 0.000 0.000 0.996 0.004
#> SRR1026992 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026993 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026994 1 0.4647 0.5900 0.704 0.008 0.000 0.288
#> SRR1026995 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1026996 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026997 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1026998 3 0.1474 0.9125 0.000 0.000 0.948 0.052
#> SRR1026999 3 0.1302 0.9200 0.000 0.000 0.956 0.044
#> SRR1027000 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1027001 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1027002 1 0.1211 0.8983 0.960 0.040 0.000 0.000
#> SRR1027003 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1027004 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1027005 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1027006 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1027007 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1027008 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1027009 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1027010 1 0.1792 0.8765 0.932 0.000 0.068 0.000
#> SRR1027011 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1177668 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177667 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177669 1 0.0921 0.9093 0.972 0.000 0.028 0.000
#> SRR1177670 3 0.0188 0.9533 0.004 0.000 0.996 0.000
#> SRR1177671 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.0188 0.9533 0.004 0.000 0.996 0.000
#> SRR1177673 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177674 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1177675 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177676 1 0.1792 0.8765 0.932 0.000 0.068 0.000
#> SRR1177677 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177678 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177679 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1177680 4 0.4724 0.7277 0.136 0.076 0.000 0.788
#> SRR1177681 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177682 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177683 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177686 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1177687 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1177688 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177689 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177690 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177691 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1177692 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1177693 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1177694 4 0.5000 -0.0879 0.000 0.496 0.000 0.504
#> SRR1177695 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177697 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177696 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177698 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1177700 1 0.4500 0.5314 0.684 0.000 0.000 0.316
#> SRR1177701 4 0.4907 0.3109 0.420 0.000 0.000 0.580
#> SRR1177702 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177703 1 0.3486 0.7473 0.812 0.000 0.000 0.188
#> SRR1177704 4 0.3143 0.8109 0.024 0.000 0.100 0.876
#> SRR1177705 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177706 1 0.4769 0.5562 0.684 0.308 0.000 0.008
#> SRR1177707 4 0.4661 0.4642 0.348 0.000 0.000 0.652
#> SRR1177708 1 0.4661 0.4773 0.652 0.000 0.000 0.348
#> SRR1177709 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177710 1 0.3486 0.7422 0.812 0.000 0.188 0.000
#> SRR1177711 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177712 1 0.3311 0.7581 0.828 0.000 0.000 0.172
#> SRR1177714 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1177713 1 0.4989 0.1102 0.528 0.000 0.472 0.000
#> SRR1177715 1 0.1792 0.8754 0.932 0.068 0.000 0.000
#> SRR1177716 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177718 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177719 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177720 3 0.1557 0.9085 0.000 0.000 0.944 0.056
#> SRR1177721 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.9418 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177725 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177724 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177726 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177728 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177730 3 0.0188 0.9533 0.004 0.000 0.996 0.000
#> SRR1177731 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177732 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177733 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177734 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177735 4 0.3649 0.6968 0.204 0.000 0.000 0.796
#> SRR1177736 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177737 4 0.0469 0.8916 0.000 0.012 0.000 0.988
#> SRR1177738 4 0.3400 0.7387 0.000 0.000 0.180 0.820
#> SRR1177739 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177740 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177741 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177742 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177744 1 0.1792 0.8752 0.932 0.000 0.068 0.000
#> SRR1177745 4 0.0000 0.8982 0.000 0.000 0.000 1.000
#> SRR1177746 2 0.6929 0.0538 0.108 0.452 0.000 0.440
#> SRR1177747 4 0.4655 0.5519 0.312 0.000 0.004 0.684
#> SRR1177748 3 0.0000 0.9563 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177750 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177751 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177752 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177753 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177754 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177755 1 0.0000 0.9275 1.000 0.000 0.000 0.000
#> SRR1177756 1 0.0000 0.9275 1.000 0.000 0.000 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026871 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026872 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026873 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1026874 3 0.4237 0.41774 0.200 0.000 0.752 0.000 0.048
#> SRR1026875 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026876 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026877 5 0.0000 0.66251 0.000 0.000 0.000 0.000 1.000
#> SRR1026878 5 0.0000 0.66251 0.000 0.000 0.000 0.000 1.000
#> SRR1026879 1 0.3336 0.77892 0.772 0.000 0.228 0.000 0.000
#> SRR1026880 1 0.3636 0.75946 0.728 0.000 0.272 0.000 0.000
#> SRR1026881 4 0.2221 0.81635 0.000 0.036 0.052 0.912 0.000
#> SRR1026882 4 0.2300 0.81331 0.000 0.040 0.052 0.908 0.000
#> SRR1026883 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026884 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026885 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026886 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026887 5 0.4030 0.50472 0.000 0.000 0.000 0.352 0.648
#> SRR1026888 5 0.4030 0.50472 0.000 0.000 0.000 0.352 0.648
#> SRR1026889 2 0.0162 0.93395 0.000 0.996 0.000 0.004 0.000
#> SRR1026890 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026891 1 0.4101 0.41929 0.628 0.000 0.000 0.372 0.000
#> SRR1026892 1 0.4182 0.36123 0.600 0.000 0.000 0.400 0.000
#> SRR1026893 5 0.2891 0.63565 0.000 0.000 0.000 0.176 0.824
#> SRR1026894 5 0.2891 0.63565 0.000 0.000 0.000 0.176 0.824
#> SRR1026895 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026896 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026897 1 0.6673 -0.17300 0.432 0.000 0.252 0.000 0.316
#> SRR1026898 1 0.2377 0.80140 0.872 0.000 0.128 0.000 0.000
#> SRR1026899 3 0.3242 0.39333 0.216 0.000 0.784 0.000 0.000
#> SRR1026900 2 0.3133 0.83757 0.004 0.864 0.052 0.080 0.000
#> SRR1026901 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026902 4 0.0510 0.84307 0.016 0.000 0.000 0.984 0.000
#> SRR1026903 4 0.0404 0.84507 0.012 0.000 0.000 0.988 0.000
#> SRR1026904 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026905 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026906 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026907 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026908 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026909 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026910 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026911 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026912 5 0.4030 0.50472 0.000 0.000 0.000 0.352 0.648
#> SRR1026913 5 0.4030 0.50472 0.000 0.000 0.000 0.352 0.648
#> SRR1026914 2 0.4967 0.55270 0.000 0.660 0.060 0.280 0.000
#> SRR1026915 2 0.4878 0.57910 0.000 0.676 0.060 0.264 0.000
#> SRR1026916 2 0.3051 0.83705 0.000 0.864 0.060 0.076 0.000
#> SRR1026917 2 0.3051 0.83705 0.000 0.864 0.060 0.076 0.000
#> SRR1026918 4 0.0162 0.84826 0.000 0.004 0.000 0.996 0.000
#> SRR1026919 4 0.0162 0.84826 0.000 0.004 0.000 0.996 0.000
#> SRR1026920 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026921 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026922 2 0.1670 0.89521 0.000 0.936 0.052 0.012 0.000
#> SRR1026923 2 0.3255 0.81246 0.000 0.848 0.052 0.100 0.000
#> SRR1026924 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026925 5 0.2891 0.63565 0.000 0.000 0.000 0.176 0.824
#> SRR1026926 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026927 4 0.0609 0.84129 0.020 0.000 0.000 0.980 0.000
#> SRR1026928 4 0.1430 0.83400 0.000 0.004 0.052 0.944 0.000
#> SRR1026929 5 0.0000 0.66251 0.000 0.000 0.000 0.000 1.000
#> SRR1026930 4 0.5966 0.07716 0.020 0.436 0.060 0.484 0.000
#> SRR1026931 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026932 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026933 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026934 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026935 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026936 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026937 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026938 4 0.2813 0.70469 0.000 0.168 0.000 0.832 0.000
#> SRR1026939 4 0.3109 0.66384 0.000 0.200 0.000 0.800 0.000
#> SRR1026940 4 0.4620 0.38649 0.392 0.000 0.016 0.592 0.000
#> SRR1026941 5 0.3366 0.33447 0.000 0.000 0.232 0.000 0.768
#> SRR1026942 1 0.3109 0.78207 0.800 0.000 0.200 0.000 0.000
#> SRR1026943 1 0.0000 0.80807 1.000 0.000 0.000 0.000 0.000
#> SRR1026944 1 0.3707 0.75632 0.716 0.000 0.284 0.000 0.000
#> SRR1026945 3 0.3430 0.60478 0.004 0.000 0.776 0.000 0.220
#> SRR1026947 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026946 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026948 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026949 1 0.4135 0.37347 0.656 0.000 0.004 0.340 0.000
#> SRR1026950 1 0.3183 0.78033 0.828 0.000 0.156 0.016 0.000
#> SRR1026951 4 0.1341 0.83351 0.000 0.000 0.056 0.944 0.000
#> SRR1026952 1 0.2732 0.78315 0.840 0.000 0.160 0.000 0.000
#> SRR1026953 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1026954 4 0.1410 0.83175 0.000 0.000 0.060 0.940 0.000
#> SRR1026955 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026956 1 0.2462 0.80063 0.880 0.000 0.112 0.008 0.000
#> SRR1026957 2 0.2574 0.82355 0.000 0.876 0.012 0.112 0.000
#> SRR1026958 1 0.0510 0.80897 0.984 0.000 0.016 0.000 0.000
#> SRR1026959 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1026960 4 0.5141 0.66488 0.152 0.036 0.076 0.736 0.000
#> SRR1026961 4 0.1410 0.83175 0.000 0.000 0.060 0.940 0.000
#> SRR1026962 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1026963 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1026964 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026965 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026966 5 0.0000 0.66251 0.000 0.000 0.000 0.000 1.000
#> SRR1026967 5 0.0000 0.66251 0.000 0.000 0.000 0.000 1.000
#> SRR1026968 4 0.1410 0.83175 0.000 0.000 0.060 0.940 0.000
#> SRR1026969 4 0.1981 0.82548 0.016 0.000 0.064 0.920 0.000
#> SRR1026970 1 0.4201 0.27353 0.592 0.000 0.000 0.408 0.000
#> SRR1026971 1 0.3707 0.54223 0.716 0.000 0.000 0.284 0.000
#> SRR1026972 1 0.3766 0.55035 0.728 0.004 0.000 0.268 0.000
#> SRR1026973 1 0.3766 0.55035 0.728 0.004 0.000 0.268 0.000
#> SRR1026974 4 0.6040 0.34241 0.284 0.000 0.156 0.560 0.000
#> SRR1026975 4 0.6087 0.32947 0.288 0.000 0.160 0.552 0.000
#> SRR1026976 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026977 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026978 1 0.0162 0.80724 0.996 0.000 0.004 0.000 0.000
#> SRR1026979 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1026980 4 0.5509 0.07348 0.468 0.000 0.064 0.468 0.000
#> SRR1026981 4 0.4415 0.09505 0.000 0.000 0.004 0.552 0.444
#> SRR1026982 4 0.1410 0.83175 0.000 0.000 0.060 0.940 0.000
#> SRR1026983 4 0.1410 0.83175 0.000 0.000 0.060 0.940 0.000
#> SRR1026984 4 0.1410 0.83175 0.000 0.000 0.060 0.940 0.000
#> SRR1026985 4 0.1410 0.83175 0.000 0.000 0.060 0.940 0.000
#> SRR1026986 1 0.2632 0.75997 0.888 0.040 0.072 0.000 0.000
#> SRR1026987 1 0.0162 0.80724 0.996 0.000 0.004 0.000 0.000
#> SRR1026988 1 0.2424 0.80062 0.868 0.000 0.132 0.000 0.000
#> SRR1026989 5 0.4219 -0.21917 0.000 0.000 0.416 0.000 0.584
#> SRR1026990 4 0.1626 0.83512 0.016 0.000 0.044 0.940 0.000
#> SRR1026991 5 0.3684 0.19464 0.000 0.000 0.280 0.000 0.720
#> SRR1026992 1 0.1478 0.81494 0.936 0.000 0.064 0.000 0.000
#> SRR1026993 1 0.2280 0.81312 0.880 0.000 0.120 0.000 0.000
#> SRR1026994 1 0.3817 0.57245 0.740 0.004 0.004 0.252 0.000
#> SRR1026995 1 0.0609 0.80989 0.980 0.000 0.020 0.000 0.000
#> SRR1026996 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026997 4 0.0000 0.84951 0.000 0.000 0.000 1.000 0.000
#> SRR1026998 5 0.0000 0.66251 0.000 0.000 0.000 0.000 1.000
#> SRR1026999 5 0.0000 0.66251 0.000 0.000 0.000 0.000 1.000
#> SRR1027000 1 0.0880 0.81166 0.968 0.000 0.032 0.000 0.000
#> SRR1027001 1 0.4752 0.38986 0.568 0.000 0.412 0.000 0.020
#> SRR1027002 1 0.1399 0.79912 0.952 0.028 0.020 0.000 0.000
#> SRR1027003 1 0.0324 0.80782 0.992 0.000 0.004 0.004 0.000
#> SRR1027004 1 0.2389 0.79929 0.880 0.000 0.116 0.004 0.000
#> SRR1027005 3 0.4219 0.55526 0.000 0.000 0.584 0.000 0.416
#> SRR1027006 1 0.2377 0.80140 0.872 0.000 0.128 0.000 0.000
#> SRR1027007 1 0.0162 0.80724 0.996 0.000 0.004 0.000 0.000
#> SRR1027008 1 0.0162 0.80724 0.996 0.000 0.004 0.000 0.000
#> SRR1027009 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1027010 3 0.3661 0.31171 0.276 0.000 0.724 0.000 0.000
#> SRR1027011 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1177668 1 0.2424 0.80062 0.868 0.000 0.132 0.000 0.000
#> SRR1177667 1 0.2471 0.80114 0.864 0.000 0.136 0.000 0.000
#> SRR1177669 1 0.4235 0.41171 0.576 0.000 0.424 0.000 0.000
#> SRR1177670 3 0.3715 0.62634 0.004 0.000 0.736 0.000 0.260
#> SRR1177671 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1177672 3 0.3662 0.62273 0.004 0.000 0.744 0.000 0.252
#> SRR1177673 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177674 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1177675 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177676 3 0.3039 0.46374 0.192 0.000 0.808 0.000 0.000
#> SRR1177677 1 0.2377 0.80140 0.872 0.000 0.128 0.000 0.000
#> SRR1177678 1 0.3636 0.75946 0.728 0.000 0.272 0.000 0.000
#> SRR1177679 2 0.0162 0.93395 0.000 0.996 0.004 0.000 0.000
#> SRR1177680 4 0.4664 0.70079 0.100 0.052 0.064 0.784 0.000
#> SRR1177681 1 0.0162 0.80724 0.996 0.000 0.004 0.000 0.000
#> SRR1177682 1 0.0162 0.80724 0.996 0.000 0.004 0.000 0.000
#> SRR1177683 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1177684 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1177685 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177686 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1177687 4 0.0404 0.84771 0.000 0.000 0.012 0.988 0.000
#> SRR1177688 1 0.0609 0.80989 0.980 0.000 0.020 0.000 0.000
#> SRR1177689 1 0.0162 0.80724 0.996 0.000 0.004 0.000 0.000
#> SRR1177690 1 0.2471 0.80250 0.864 0.000 0.136 0.000 0.000
#> SRR1177691 2 0.0404 0.93050 0.000 0.988 0.012 0.000 0.000
#> SRR1177692 4 0.0162 0.84826 0.000 0.000 0.004 0.996 0.000
#> SRR1177693 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1177694 4 0.4307 -0.08440 0.000 0.496 0.000 0.504 0.000
#> SRR1177695 1 0.0609 0.80808 0.980 0.000 0.020 0.000 0.000
#> SRR1177697 1 0.1544 0.80986 0.932 0.000 0.068 0.000 0.000
#> SRR1177696 1 0.0324 0.80782 0.992 0.000 0.004 0.004 0.000
#> SRR1177698 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1177700 1 0.3424 0.60625 0.760 0.000 0.000 0.240 0.000
#> SRR1177701 4 0.4302 0.15741 0.480 0.000 0.000 0.520 0.000
#> SRR1177702 1 0.1768 0.80919 0.924 0.000 0.072 0.004 0.000
#> SRR1177703 1 0.3282 0.68997 0.804 0.000 0.008 0.188 0.000
#> SRR1177704 4 0.2708 0.76912 0.044 0.000 0.000 0.884 0.072
#> SRR1177705 1 0.0162 0.80726 0.996 0.000 0.000 0.004 0.000
#> SRR1177706 1 0.4466 0.53211 0.712 0.256 0.024 0.008 0.000
#> SRR1177707 4 0.5550 0.36645 0.376 0.000 0.076 0.548 0.000
#> SRR1177708 1 0.3913 0.50241 0.676 0.000 0.000 0.324 0.000
#> SRR1177709 1 0.0609 0.80989 0.980 0.000 0.020 0.000 0.000
#> SRR1177710 1 0.4822 0.50576 0.664 0.000 0.048 0.000 0.288
#> SRR1177711 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177712 1 0.2629 0.71662 0.860 0.000 0.004 0.136 0.000
#> SRR1177714 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1177713 3 0.5467 0.37360 0.276 0.000 0.624 0.000 0.100
#> SRR1177715 1 0.2661 0.74582 0.888 0.056 0.056 0.000 0.000
#> SRR1177716 5 0.4242 -0.25235 0.000 0.000 0.428 0.000 0.572
#> SRR1177717 1 0.3636 0.75928 0.728 0.000 0.272 0.000 0.000
#> SRR1177718 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177719 1 0.1121 0.81255 0.956 0.000 0.044 0.000 0.000
#> SRR1177720 5 0.0000 0.66251 0.000 0.000 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1177722 2 0.0000 0.93677 0.000 1.000 0.000 0.000 0.000
#> SRR1177723 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177725 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177724 1 0.2561 0.80116 0.856 0.000 0.144 0.000 0.000
#> SRR1177726 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1177727 1 0.3636 0.75946 0.728 0.000 0.272 0.000 0.000
#> SRR1177728 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1177729 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177730 3 0.3550 0.61521 0.004 0.000 0.760 0.000 0.236
#> SRR1177731 1 0.2377 0.80140 0.872 0.000 0.128 0.000 0.000
#> SRR1177732 1 0.3707 0.75236 0.716 0.000 0.284 0.000 0.000
#> SRR1177733 1 0.0162 0.80724 0.996 0.000 0.004 0.000 0.000
#> SRR1177734 1 0.0404 0.80906 0.988 0.000 0.012 0.000 0.000
#> SRR1177735 4 0.4540 0.50201 0.320 0.000 0.024 0.656 0.000
#> SRR1177736 1 0.0609 0.80979 0.980 0.000 0.020 0.000 0.000
#> SRR1177737 4 0.1697 0.82928 0.000 0.008 0.060 0.932 0.000
#> SRR1177738 4 0.4088 0.32057 0.000 0.000 0.000 0.632 0.368
#> SRR1177739 1 0.0000 0.80807 1.000 0.000 0.000 0.000 0.000
#> SRR1177740 1 0.0000 0.80807 1.000 0.000 0.000 0.000 0.000
#> SRR1177741 1 0.3636 0.75946 0.728 0.000 0.272 0.000 0.000
#> SRR1177742 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1177743 1 0.3999 0.69128 0.656 0.000 0.344 0.000 0.000
#> SRR1177744 3 0.4597 -0.22082 0.424 0.000 0.564 0.000 0.012
#> SRR1177745 4 0.0404 0.84771 0.000 0.000 0.012 0.988 0.000
#> SRR1177746 2 0.7359 -0.00194 0.140 0.404 0.064 0.392 0.000
#> SRR1177747 4 0.6641 0.12711 0.296 0.000 0.256 0.448 0.000
#> SRR1177748 3 0.4030 0.64993 0.000 0.000 0.648 0.000 0.352
#> SRR1177749 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177750 1 0.2377 0.80140 0.872 0.000 0.128 0.000 0.000
#> SRR1177751 1 0.0510 0.80816 0.984 0.000 0.016 0.000 0.000
#> SRR1177752 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177753 1 0.0609 0.81089 0.980 0.000 0.020 0.000 0.000
#> SRR1177754 1 0.2377 0.80140 0.872 0.000 0.128 0.000 0.000
#> SRR1177755 1 0.3730 0.75536 0.712 0.000 0.288 0.000 0.000
#> SRR1177756 1 0.0404 0.81049 0.988 0.000 0.012 0.000 0.000
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.1765 0.8307 0.096 0.904 0.000 0.000 0.000 0.000
#> SRR1026871 2 0.1765 0.8307 0.096 0.904 0.000 0.000 0.000 0.000
#> SRR1026872 2 0.1714 0.8316 0.092 0.908 0.000 0.000 0.000 0.000
#> SRR1026873 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1026874 3 0.3862 0.0491 0.000 0.000 0.524 0.000 0.476 0.000
#> SRR1026875 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1026876 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1026877 6 0.1957 0.9088 0.000 0.000 0.112 0.000 0.000 0.888
#> SRR1026878 6 0.1957 0.9088 0.000 0.000 0.112 0.000 0.000 0.888
#> SRR1026879 5 0.3765 -0.2878 0.404 0.000 0.000 0.000 0.596 0.000
#> SRR1026880 5 0.0632 0.8450 0.024 0.000 0.000 0.000 0.976 0.000
#> SRR1026881 4 0.5225 0.6299 0.284 0.080 0.000 0.616 0.000 0.020
#> SRR1026882 4 0.5225 0.6299 0.284 0.080 0.000 0.616 0.000 0.020
#> SRR1026883 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026884 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026885 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026886 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026887 6 0.2003 0.8360 0.000 0.000 0.000 0.116 0.000 0.884
#> SRR1026888 6 0.2003 0.8360 0.000 0.000 0.000 0.116 0.000 0.884
#> SRR1026889 2 0.1858 0.8305 0.092 0.904 0.000 0.004 0.000 0.000
#> SRR1026890 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026891 1 0.5173 0.4960 0.568 0.000 0.000 0.324 0.108 0.000
#> SRR1026892 1 0.5197 0.4875 0.560 0.000 0.000 0.332 0.108 0.000
#> SRR1026893 6 0.2309 0.9037 0.000 0.000 0.084 0.028 0.000 0.888
#> SRR1026894 6 0.2309 0.9037 0.000 0.000 0.084 0.028 0.000 0.888
#> SRR1026895 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026896 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026897 3 0.7529 0.1040 0.160 0.000 0.352 0.000 0.248 0.240
#> SRR1026898 1 0.3852 0.7123 0.612 0.000 0.000 0.000 0.384 0.004
#> SRR1026899 5 0.2260 0.7064 0.000 0.000 0.140 0.000 0.860 0.000
#> SRR1026900 2 0.4441 0.6967 0.288 0.668 0.000 0.024 0.000 0.020
#> SRR1026901 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026902 4 0.0865 0.8114 0.036 0.000 0.000 0.964 0.000 0.000
#> SRR1026903 4 0.0790 0.8135 0.032 0.000 0.000 0.968 0.000 0.000
#> SRR1026904 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026905 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026906 2 0.1714 0.8316 0.092 0.908 0.000 0.000 0.000 0.000
#> SRR1026907 2 0.1714 0.8316 0.092 0.908 0.000 0.000 0.000 0.000
#> SRR1026908 2 0.1714 0.8316 0.092 0.908 0.000 0.000 0.000 0.000
#> SRR1026909 2 0.1714 0.8316 0.092 0.908 0.000 0.000 0.000 0.000
#> SRR1026910 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026911 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026912 6 0.1957 0.8394 0.000 0.000 0.000 0.112 0.000 0.888
#> SRR1026913 6 0.1957 0.8394 0.000 0.000 0.000 0.112 0.000 0.888
#> SRR1026914 2 0.6115 0.5535 0.284 0.532 0.000 0.148 0.000 0.036
#> SRR1026915 2 0.5876 0.5957 0.288 0.560 0.000 0.116 0.000 0.036
#> SRR1026916 2 0.5741 0.6344 0.256 0.592 0.000 0.116 0.000 0.036
#> SRR1026917 2 0.5741 0.6344 0.256 0.592 0.000 0.116 0.000 0.036
#> SRR1026918 4 0.0146 0.8263 0.004 0.000 0.000 0.996 0.000 0.000
#> SRR1026919 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026920 4 0.2733 0.7571 0.080 0.056 0.000 0.864 0.000 0.000
#> SRR1026921 4 0.3068 0.7392 0.088 0.072 0.000 0.840 0.000 0.000
#> SRR1026922 2 0.3840 0.7126 0.284 0.696 0.000 0.000 0.000 0.020
#> SRR1026923 2 0.4583 0.6907 0.288 0.660 0.000 0.032 0.000 0.020
#> SRR1026924 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026925 6 0.2309 0.9037 0.000 0.000 0.084 0.028 0.000 0.888
#> SRR1026926 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026927 4 0.0865 0.8114 0.036 0.000 0.000 0.964 0.000 0.000
#> SRR1026928 4 0.3455 0.7456 0.200 0.004 0.000 0.776 0.000 0.020
#> SRR1026929 6 0.1957 0.9088 0.000 0.000 0.112 0.000 0.000 0.888
#> SRR1026930 2 0.6567 0.3297 0.348 0.412 0.000 0.204 0.000 0.036
#> SRR1026931 2 0.1549 0.8260 0.020 0.936 0.000 0.000 0.000 0.044
#> SRR1026932 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1026933 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1026934 2 0.1714 0.8316 0.092 0.908 0.000 0.000 0.000 0.000
#> SRR1026935 2 0.1714 0.8316 0.092 0.908 0.000 0.000 0.000 0.000
#> SRR1026936 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026937 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026938 4 0.4314 0.6071 0.096 0.184 0.000 0.720 0.000 0.000
#> SRR1026939 4 0.4431 0.5805 0.096 0.200 0.000 0.704 0.000 0.000
#> SRR1026940 4 0.5079 0.5069 0.100 0.000 0.000 0.656 0.228 0.016
#> SRR1026941 3 0.3867 -0.1716 0.000 0.000 0.512 0.000 0.000 0.488
#> SRR1026942 5 0.0937 0.8276 0.040 0.000 0.000 0.000 0.960 0.000
#> SRR1026943 1 0.3482 0.7421 0.684 0.000 0.000 0.000 0.316 0.000
#> SRR1026944 5 0.0146 0.8549 0.004 0.000 0.000 0.000 0.996 0.000
#> SRR1026945 3 0.0632 0.7736 0.000 0.000 0.976 0.000 0.024 0.000
#> SRR1026947 2 0.1714 0.8316 0.092 0.908 0.000 0.000 0.000 0.000
#> SRR1026946 2 0.1714 0.8316 0.092 0.908 0.000 0.000 0.000 0.000
#> SRR1026948 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1026949 4 0.6041 -0.3108 0.360 0.000 0.000 0.388 0.252 0.000
#> SRR1026950 5 0.1814 0.7617 0.100 0.000 0.000 0.000 0.900 0.000
#> SRR1026951 4 0.3189 0.7543 0.184 0.000 0.000 0.796 0.000 0.020
#> SRR1026952 5 0.1444 0.7950 0.072 0.000 0.000 0.000 0.928 0.000
#> SRR1026953 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026954 4 0.3671 0.7327 0.208 0.000 0.000 0.756 0.000 0.036
#> SRR1026955 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1026956 5 0.2593 0.7056 0.148 0.000 0.000 0.008 0.844 0.000
#> SRR1026957 2 0.4395 0.7437 0.164 0.740 0.000 0.080 0.000 0.016
#> SRR1026958 1 0.3607 0.7324 0.652 0.000 0.000 0.000 0.348 0.000
#> SRR1026959 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1026960 4 0.6075 0.5512 0.372 0.072 0.000 0.504 0.016 0.036
#> SRR1026961 4 0.3671 0.7327 0.208 0.000 0.000 0.756 0.000 0.036
#> SRR1026962 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1026963 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1026964 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026965 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026966 6 0.1957 0.9088 0.000 0.000 0.112 0.000 0.000 0.888
#> SRR1026967 6 0.1957 0.9088 0.000 0.000 0.112 0.000 0.000 0.888
#> SRR1026968 4 0.3671 0.7327 0.208 0.000 0.000 0.756 0.000 0.036
#> SRR1026969 4 0.4023 0.7202 0.240 0.000 0.000 0.720 0.004 0.036
#> SRR1026970 1 0.5120 0.4268 0.532 0.000 0.000 0.380 0.088 0.000
#> SRR1026971 1 0.4953 0.5460 0.624 0.000 0.000 0.268 0.108 0.000
#> SRR1026972 1 0.4740 0.5791 0.664 0.000 0.000 0.228 0.108 0.000
#> SRR1026973 1 0.4740 0.5791 0.664 0.000 0.000 0.228 0.108 0.000
#> SRR1026974 5 0.3304 0.6712 0.040 0.000 0.000 0.140 0.816 0.004
#> SRR1026975 5 0.3331 0.6728 0.044 0.000 0.000 0.136 0.816 0.004
#> SRR1026976 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026977 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026978 1 0.3482 0.7421 0.684 0.000 0.000 0.000 0.316 0.000
#> SRR1026979 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026980 1 0.5053 0.1441 0.612 0.000 0.000 0.308 0.064 0.016
#> SRR1026981 4 0.5112 0.1354 0.000 0.000 0.084 0.516 0.000 0.400
#> SRR1026982 4 0.3671 0.7327 0.208 0.000 0.000 0.756 0.000 0.036
#> SRR1026983 4 0.3671 0.7327 0.208 0.000 0.000 0.756 0.000 0.036
#> SRR1026984 4 0.5473 0.6169 0.300 0.072 0.000 0.592 0.000 0.036
#> SRR1026985 4 0.5473 0.6169 0.300 0.072 0.000 0.592 0.000 0.036
#> SRR1026986 1 0.3251 0.5451 0.828 0.008 0.000 0.000 0.124 0.040
#> SRR1026987 1 0.3619 0.7427 0.680 0.000 0.000 0.000 0.316 0.004
#> SRR1026988 1 0.3810 0.6712 0.572 0.000 0.000 0.000 0.428 0.000
#> SRR1026989 3 0.3756 0.1226 0.000 0.000 0.600 0.000 0.000 0.400
#> SRR1026990 4 0.2744 0.7848 0.144 0.000 0.000 0.840 0.000 0.016
#> SRR1026991 6 0.3833 0.3128 0.000 0.000 0.444 0.000 0.000 0.556
#> SRR1026992 5 0.3464 0.2218 0.312 0.000 0.000 0.000 0.688 0.000
#> SRR1026993 1 0.3843 0.6516 0.548 0.000 0.000 0.000 0.452 0.000
#> SRR1026994 1 0.4882 0.5994 0.668 0.000 0.000 0.204 0.124 0.004
#> SRR1026995 1 0.3620 0.7333 0.648 0.000 0.000 0.000 0.352 0.000
#> SRR1026996 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026997 4 0.0000 0.8267 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026998 6 0.1957 0.9088 0.000 0.000 0.112 0.000 0.000 0.888
#> SRR1026999 6 0.1957 0.9088 0.000 0.000 0.112 0.000 0.000 0.888
#> SRR1027000 1 0.3742 0.7345 0.648 0.000 0.000 0.000 0.348 0.004
#> SRR1027001 5 0.5124 0.3933 0.260 0.000 0.088 0.000 0.636 0.016
#> SRR1027002 1 0.4864 0.5700 0.680 0.076 0.000 0.000 0.224 0.020
#> SRR1027003 1 0.4404 0.6701 0.696 0.040 0.000 0.004 0.252 0.008
#> SRR1027004 5 0.4097 -0.4946 0.492 0.000 0.000 0.008 0.500 0.000
#> SRR1027005 3 0.2092 0.6730 0.000 0.000 0.876 0.000 0.000 0.124
#> SRR1027006 1 0.3810 0.6712 0.572 0.000 0.000 0.000 0.428 0.000
#> SRR1027007 1 0.3725 0.7429 0.676 0.000 0.000 0.000 0.316 0.008
#> SRR1027008 1 0.3619 0.7427 0.680 0.000 0.000 0.000 0.316 0.004
#> SRR1027009 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1027010 3 0.3975 0.2517 0.008 0.000 0.600 0.000 0.392 0.000
#> SRR1027011 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177668 1 0.3810 0.6712 0.572 0.000 0.000 0.000 0.428 0.000
#> SRR1177667 1 0.3828 0.6557 0.560 0.000 0.000 0.000 0.440 0.000
#> SRR1177669 3 0.5464 -0.0693 0.400 0.000 0.488 0.000 0.108 0.004
#> SRR1177670 3 0.0363 0.7803 0.000 0.000 0.988 0.000 0.012 0.000
#> SRR1177671 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1177672 3 0.0363 0.7803 0.000 0.000 0.988 0.000 0.012 0.000
#> SRR1177673 5 0.1863 0.7280 0.104 0.000 0.000 0.000 0.896 0.000
#> SRR1177674 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177675 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177676 3 0.2629 0.6964 0.068 0.000 0.872 0.000 0.060 0.000
#> SRR1177677 1 0.3727 0.7096 0.612 0.000 0.000 0.000 0.388 0.000
#> SRR1177678 5 0.0632 0.8450 0.024 0.000 0.000 0.000 0.976 0.000
#> SRR1177679 2 0.2201 0.8104 0.028 0.896 0.000 0.000 0.000 0.076
#> SRR1177680 4 0.3946 0.7339 0.208 0.012 0.000 0.748 0.000 0.032
#> SRR1177681 1 0.3619 0.7427 0.680 0.000 0.000 0.000 0.316 0.004
#> SRR1177682 1 0.3619 0.7427 0.680 0.000 0.000 0.000 0.316 0.004
#> SRR1177683 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1177684 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1177685 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177686 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177687 4 0.0777 0.8214 0.024 0.000 0.000 0.972 0.000 0.004
#> SRR1177688 1 0.3769 0.7310 0.640 0.000 0.000 0.000 0.356 0.004
#> SRR1177689 1 0.3619 0.7427 0.680 0.000 0.000 0.000 0.316 0.004
#> SRR1177690 1 0.3852 0.7123 0.612 0.000 0.000 0.000 0.384 0.004
#> SRR1177691 2 0.2799 0.8060 0.064 0.860 0.000 0.000 0.000 0.076
#> SRR1177692 4 0.0508 0.8215 0.012 0.000 0.000 0.984 0.000 0.004
#> SRR1177693 2 0.1714 0.8316 0.092 0.908 0.000 0.000 0.000 0.000
#> SRR1177694 2 0.5221 0.2308 0.092 0.476 0.000 0.432 0.000 0.000
#> SRR1177695 1 0.3699 0.7369 0.660 0.000 0.000 0.000 0.336 0.004
#> SRR1177697 1 0.3810 0.6440 0.572 0.000 0.000 0.000 0.428 0.000
#> SRR1177696 1 0.3955 0.7436 0.668 0.000 0.000 0.012 0.316 0.004
#> SRR1177698 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177700 1 0.5749 0.5146 0.512 0.000 0.000 0.228 0.260 0.000
#> SRR1177701 4 0.5485 0.3205 0.200 0.000 0.000 0.588 0.208 0.004
#> SRR1177702 1 0.3955 0.6184 0.560 0.000 0.000 0.000 0.436 0.004
#> SRR1177703 1 0.5794 0.5471 0.492 0.000 0.000 0.212 0.296 0.000
#> SRR1177704 4 0.3261 0.7636 0.044 0.000 0.056 0.860 0.024 0.016
#> SRR1177705 1 0.3819 0.7407 0.672 0.000 0.000 0.012 0.316 0.000
#> SRR1177706 1 0.3956 0.3943 0.704 0.264 0.000 0.000 0.000 0.032
#> SRR1177707 1 0.5628 -0.3045 0.488 0.000 0.000 0.412 0.068 0.032
#> SRR1177708 1 0.5778 0.4590 0.484 0.000 0.000 0.320 0.196 0.000
#> SRR1177709 1 0.3620 0.7333 0.648 0.000 0.000 0.000 0.352 0.000
#> SRR1177710 1 0.5617 0.3243 0.472 0.000 0.004 0.000 0.128 0.396
#> SRR1177711 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177712 1 0.5411 0.6113 0.560 0.000 0.000 0.152 0.288 0.000
#> SRR1177714 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1177713 5 0.3828 0.1617 0.000 0.000 0.440 0.000 0.560 0.000
#> SRR1177715 1 0.2612 0.5715 0.868 0.008 0.000 0.000 0.108 0.016
#> SRR1177716 3 0.3620 0.2600 0.000 0.000 0.648 0.000 0.000 0.352
#> SRR1177717 5 0.0865 0.8297 0.036 0.000 0.000 0.000 0.964 0.000
#> SRR1177718 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177719 1 0.3765 0.6708 0.596 0.000 0.000 0.000 0.404 0.000
#> SRR1177720 6 0.1957 0.9088 0.000 0.000 0.112 0.000 0.000 0.888
#> SRR1177721 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1177722 2 0.1895 0.8182 0.016 0.912 0.000 0.000 0.000 0.072
#> SRR1177723 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177725 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177724 1 0.3833 0.6613 0.556 0.000 0.000 0.000 0.444 0.000
#> SRR1177726 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177727 5 0.0547 0.8471 0.020 0.000 0.000 0.000 0.980 0.000
#> SRR1177728 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177729 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177730 3 0.0547 0.7759 0.000 0.000 0.980 0.000 0.020 0.000
#> SRR1177731 1 0.3810 0.6712 0.572 0.000 0.000 0.000 0.428 0.000
#> SRR1177732 5 0.0692 0.8475 0.020 0.000 0.004 0.000 0.976 0.000
#> SRR1177733 1 0.3482 0.7421 0.684 0.000 0.000 0.000 0.316 0.000
#> SRR1177734 1 0.3592 0.7345 0.656 0.000 0.000 0.000 0.344 0.000
#> SRR1177735 4 0.5065 0.5523 0.116 0.000 0.000 0.668 0.200 0.016
#> SRR1177736 1 0.3684 0.7167 0.628 0.000 0.000 0.000 0.372 0.000
#> SRR1177737 4 0.5473 0.6169 0.300 0.072 0.000 0.592 0.000 0.036
#> SRR1177738 4 0.4634 0.2377 0.000 0.000 0.044 0.556 0.000 0.400
#> SRR1177739 1 0.3531 0.7392 0.672 0.000 0.000 0.000 0.328 0.000
#> SRR1177740 1 0.3482 0.7421 0.684 0.000 0.000 0.000 0.316 0.000
#> SRR1177741 5 0.0547 0.8471 0.020 0.000 0.000 0.000 0.980 0.000
#> SRR1177742 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177743 5 0.1003 0.8430 0.020 0.000 0.016 0.000 0.964 0.000
#> SRR1177744 5 0.2006 0.7836 0.016 0.000 0.080 0.000 0.904 0.000
#> SRR1177745 4 0.1049 0.8196 0.032 0.000 0.000 0.960 0.000 0.008
#> SRR1177746 1 0.7009 -0.4003 0.360 0.292 0.000 0.300 0.008 0.040
#> SRR1177747 4 0.6810 0.0470 0.056 0.000 0.332 0.404 0.208 0.000
#> SRR1177748 3 0.0000 0.7842 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177749 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177750 1 0.3810 0.6712 0.572 0.000 0.000 0.000 0.428 0.000
#> SRR1177751 1 0.3684 0.7388 0.664 0.000 0.000 0.000 0.332 0.004
#> SRR1177752 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177753 1 0.3684 0.7233 0.628 0.000 0.000 0.000 0.372 0.000
#> SRR1177754 1 0.3804 0.6762 0.576 0.000 0.000 0.000 0.424 0.000
#> SRR1177755 5 0.0000 0.8563 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177756 1 0.3578 0.7400 0.660 0.000 0.000 0.000 0.340 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["SD", "mclust"]
# you can also extract it by
# res = res_list["SD:mclust"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'SD' method.
#> Subgroups are detected by 'mclust' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.471 0.855 0.859 0.4043 0.566 0.566
#> 3 3 0.550 0.786 0.878 0.5810 0.764 0.586
#> 4 4 0.664 0.767 0.876 0.1090 0.862 0.638
#> 5 5 0.652 0.767 0.852 0.0442 0.965 0.882
#> 6 6 0.624 0.587 0.702 0.0475 0.945 0.812
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.8081 0.9656 0.248 0.752
#> SRR1026871 2 0.8081 0.9656 0.248 0.752
#> SRR1026872 2 0.8081 0.9656 0.248 0.752
#> SRR1026873 1 0.0672 0.8833 0.992 0.008
#> SRR1026874 1 0.2603 0.8694 0.956 0.044
#> SRR1026875 2 0.9970 0.6115 0.468 0.532
#> SRR1026876 2 0.9970 0.6115 0.468 0.532
#> SRR1026877 1 0.8608 0.7374 0.716 0.284
#> SRR1026878 1 0.8608 0.7374 0.716 0.284
#> SRR1026879 1 0.1184 0.8805 0.984 0.016
#> SRR1026880 1 0.1633 0.8778 0.976 0.024
#> SRR1026881 2 0.8081 0.9656 0.248 0.752
#> SRR1026882 2 0.8081 0.9656 0.248 0.752
#> SRR1026883 2 0.8081 0.9656 0.248 0.752
#> SRR1026884 2 0.8081 0.9656 0.248 0.752
#> SRR1026885 2 0.8081 0.9656 0.248 0.752
#> SRR1026886 2 0.8081 0.9656 0.248 0.752
#> SRR1026887 1 0.8713 0.7319 0.708 0.292
#> SRR1026888 1 0.8713 0.7319 0.708 0.292
#> SRR1026889 2 0.8081 0.9656 0.248 0.752
#> SRR1026890 1 0.8144 0.4558 0.748 0.252
#> SRR1026891 2 0.8081 0.9656 0.248 0.752
#> SRR1026892 2 0.8081 0.9656 0.248 0.752
#> SRR1026893 1 0.8608 0.7374 0.716 0.284
#> SRR1026894 1 0.8608 0.7374 0.716 0.284
#> SRR1026895 2 0.8081 0.9656 0.248 0.752
#> SRR1026896 2 0.8081 0.9656 0.248 0.752
#> SRR1026897 1 0.2603 0.8694 0.956 0.044
#> SRR1026898 1 0.0000 0.8835 1.000 0.000
#> SRR1026899 1 0.2603 0.8694 0.956 0.044
#> SRR1026900 1 0.2423 0.8529 0.960 0.040
#> SRR1026901 1 0.2423 0.8529 0.960 0.040
#> SRR1026902 2 0.8081 0.9656 0.248 0.752
#> SRR1026903 2 0.8081 0.9656 0.248 0.752
#> SRR1026904 1 0.9427 0.0305 0.640 0.360
#> SRR1026905 1 0.8955 0.2458 0.688 0.312
#> SRR1026906 2 0.8081 0.9656 0.248 0.752
#> SRR1026907 2 0.8081 0.9656 0.248 0.752
#> SRR1026908 2 0.8081 0.9656 0.248 0.752
#> SRR1026909 2 0.8081 0.9656 0.248 0.752
#> SRR1026910 2 0.8081 0.9656 0.248 0.752
#> SRR1026911 2 0.8081 0.9656 0.248 0.752
#> SRR1026912 1 0.8608 0.7374 0.716 0.284
#> SRR1026913 1 0.8608 0.7374 0.716 0.284
#> SRR1026914 2 0.8081 0.9656 0.248 0.752
#> SRR1026915 2 0.8081 0.9656 0.248 0.752
#> SRR1026916 2 0.8081 0.9656 0.248 0.752
#> SRR1026917 2 0.8081 0.9656 0.248 0.752
#> SRR1026918 2 0.8081 0.9656 0.248 0.752
#> SRR1026919 2 0.8081 0.9656 0.248 0.752
#> SRR1026920 2 0.8081 0.9656 0.248 0.752
#> SRR1026921 2 0.8081 0.9656 0.248 0.752
#> SRR1026922 1 0.2603 0.8489 0.956 0.044
#> SRR1026923 1 0.2423 0.8529 0.960 0.040
#> SRR1026924 2 0.8081 0.9656 0.248 0.752
#> SRR1026925 1 0.8608 0.7374 0.716 0.284
#> SRR1026926 2 0.8081 0.9656 0.248 0.752
#> SRR1026927 2 0.8081 0.9656 0.248 0.752
#> SRR1026928 2 0.8081 0.9656 0.248 0.752
#> SRR1026929 1 0.8608 0.7374 0.716 0.284
#> SRR1026930 1 0.1633 0.8678 0.976 0.024
#> SRR1026931 1 0.1414 0.8706 0.980 0.020
#> SRR1026932 2 0.9970 0.6115 0.468 0.532
#> SRR1026933 2 0.9970 0.6115 0.468 0.532
#> SRR1026934 2 0.8081 0.9656 0.248 0.752
#> SRR1026935 2 0.8081 0.9656 0.248 0.752
#> SRR1026936 2 0.8081 0.9656 0.248 0.752
#> SRR1026937 2 0.8081 0.9656 0.248 0.752
#> SRR1026938 2 0.8081 0.9656 0.248 0.752
#> SRR1026939 2 0.8081 0.9656 0.248 0.752
#> SRR1026940 1 0.0376 0.8824 0.996 0.004
#> SRR1026941 1 0.8081 0.7486 0.752 0.248
#> SRR1026942 1 0.0376 0.8824 0.996 0.004
#> SRR1026943 1 0.0376 0.8824 0.996 0.004
#> SRR1026944 1 0.0376 0.8824 0.996 0.004
#> SRR1026945 1 0.8081 0.7486 0.752 0.248
#> SRR1026947 2 0.8081 0.9656 0.248 0.752
#> SRR1026946 2 0.8081 0.9656 0.248 0.752
#> SRR1026948 1 0.2236 0.8558 0.964 0.036
#> SRR1026949 1 0.0376 0.8824 0.996 0.004
#> SRR1026950 1 0.0376 0.8824 0.996 0.004
#> SRR1026951 1 0.1633 0.8678 0.976 0.024
#> SRR1026952 1 0.0376 0.8824 0.996 0.004
#> SRR1026953 1 0.8081 0.7486 0.752 0.248
#> SRR1026954 2 0.8081 0.9656 0.248 0.752
#> SRR1026955 2 0.9970 0.6115 0.468 0.532
#> SRR1026956 2 0.8081 0.9656 0.248 0.752
#> SRR1026957 2 0.9993 0.5696 0.484 0.516
#> SRR1026958 1 0.0376 0.8824 0.996 0.004
#> SRR1026959 1 0.0000 0.8835 1.000 0.000
#> SRR1026960 2 0.8443 0.9397 0.272 0.728
#> SRR1026961 2 0.8081 0.9656 0.248 0.752
#> SRR1026962 1 0.0376 0.8824 0.996 0.004
#> SRR1026963 1 0.0376 0.8824 0.996 0.004
#> SRR1026964 2 0.8081 0.9656 0.248 0.752
#> SRR1026965 2 0.8081 0.9656 0.248 0.752
#> SRR1026966 1 0.8608 0.7374 0.716 0.284
#> SRR1026967 1 0.8608 0.7374 0.716 0.284
#> SRR1026968 2 0.9393 0.8287 0.356 0.644
#> SRR1026969 2 0.9393 0.8287 0.356 0.644
#> SRR1026970 2 0.8081 0.9656 0.248 0.752
#> SRR1026971 2 0.8081 0.9656 0.248 0.752
#> SRR1026972 1 0.6801 0.6333 0.820 0.180
#> SRR1026973 1 0.6887 0.6246 0.816 0.184
#> SRR1026974 2 0.9427 0.8222 0.360 0.640
#> SRR1026975 2 0.9248 0.8526 0.340 0.660
#> SRR1026976 2 0.8081 0.9656 0.248 0.752
#> SRR1026977 2 0.8081 0.9656 0.248 0.752
#> SRR1026978 1 0.0376 0.8824 0.996 0.004
#> SRR1026979 1 0.8081 0.7486 0.752 0.248
#> SRR1026980 1 0.0000 0.8835 1.000 0.000
#> SRR1026981 1 0.8081 0.7486 0.752 0.248
#> SRR1026982 2 0.8081 0.9656 0.248 0.752
#> SRR1026983 2 0.8081 0.9656 0.248 0.752
#> SRR1026984 2 0.8081 0.9656 0.248 0.752
#> SRR1026985 2 0.8081 0.9656 0.248 0.752
#> SRR1026986 1 0.0376 0.8824 0.996 0.004
#> SRR1026987 1 0.0376 0.8824 0.996 0.004
#> SRR1026988 1 0.1184 0.8805 0.984 0.016
#> SRR1026989 1 0.8081 0.7486 0.752 0.248
#> SRR1026990 2 0.8081 0.9656 0.248 0.752
#> SRR1026991 1 0.8608 0.7374 0.716 0.284
#> SRR1026992 1 0.0376 0.8824 0.996 0.004
#> SRR1026993 1 0.0376 0.8824 0.996 0.004
#> SRR1026994 1 0.0000 0.8835 1.000 0.000
#> SRR1026995 1 0.0000 0.8835 1.000 0.000
#> SRR1026996 2 0.8081 0.9656 0.248 0.752
#> SRR1026997 2 0.8081 0.9656 0.248 0.752
#> SRR1026998 1 0.8608 0.7374 0.716 0.284
#> SRR1026999 1 0.8608 0.7374 0.716 0.284
#> SRR1027000 1 0.0000 0.8835 1.000 0.000
#> SRR1027001 1 0.7815 0.7594 0.768 0.232
#> SRR1027002 1 0.0000 0.8835 1.000 0.000
#> SRR1027003 1 0.0000 0.8835 1.000 0.000
#> SRR1027004 1 0.0376 0.8824 0.996 0.004
#> SRR1027005 1 0.8081 0.7486 0.752 0.248
#> SRR1027006 1 0.3879 0.8528 0.924 0.076
#> SRR1027007 1 0.0376 0.8824 0.996 0.004
#> SRR1027008 1 0.0376 0.8824 0.996 0.004
#> SRR1027009 1 0.8081 0.7486 0.752 0.248
#> SRR1027010 1 0.2603 0.8694 0.956 0.044
#> SRR1027011 1 0.8081 0.7486 0.752 0.248
#> SRR1177668 1 0.1184 0.8805 0.984 0.016
#> SRR1177667 1 0.0376 0.8824 0.996 0.004
#> SRR1177669 1 0.6247 0.8064 0.844 0.156
#> SRR1177670 1 0.8081 0.7486 0.752 0.248
#> SRR1177671 1 0.0000 0.8835 1.000 0.000
#> SRR1177672 1 0.8081 0.7486 0.752 0.248
#> SRR1177673 1 0.1184 0.8805 0.984 0.016
#> SRR1177674 1 0.8081 0.7486 0.752 0.248
#> SRR1177675 1 0.0672 0.8833 0.992 0.008
#> SRR1177676 1 0.4690 0.8392 0.900 0.100
#> SRR1177677 1 0.0000 0.8835 1.000 0.000
#> SRR1177678 1 0.0672 0.8833 0.992 0.008
#> SRR1177679 1 0.0000 0.8835 1.000 0.000
#> SRR1177680 1 0.0000 0.8835 1.000 0.000
#> SRR1177681 1 0.0000 0.8835 1.000 0.000
#> SRR1177682 1 0.0000 0.8835 1.000 0.000
#> SRR1177683 1 0.0000 0.8835 1.000 0.000
#> SRR1177684 1 0.0000 0.8835 1.000 0.000
#> SRR1177685 1 0.0672 0.8833 0.992 0.008
#> SRR1177686 1 0.8081 0.7486 0.752 0.248
#> SRR1177687 1 0.0000 0.8835 1.000 0.000
#> SRR1177688 1 0.0000 0.8835 1.000 0.000
#> SRR1177689 1 0.0000 0.8835 1.000 0.000
#> SRR1177690 1 0.0376 0.8824 0.996 0.004
#> SRR1177691 1 0.0000 0.8835 1.000 0.000
#> SRR1177692 1 0.0000 0.8835 1.000 0.000
#> SRR1177693 2 0.8144 0.9615 0.252 0.748
#> SRR1177694 2 0.8081 0.9656 0.248 0.752
#> SRR1177695 1 0.0000 0.8835 1.000 0.000
#> SRR1177697 1 0.0376 0.8824 0.996 0.004
#> SRR1177696 1 0.1633 0.8778 0.976 0.024
#> SRR1177698 1 0.8081 0.7486 0.752 0.248
#> SRR1177700 1 0.1633 0.8678 0.976 0.024
#> SRR1177701 2 0.8081 0.9656 0.248 0.752
#> SRR1177702 1 0.0376 0.8831 0.996 0.004
#> SRR1177703 1 0.2423 0.8529 0.960 0.040
#> SRR1177704 1 0.0672 0.8824 0.992 0.008
#> SRR1177705 1 0.0376 0.8824 0.996 0.004
#> SRR1177706 1 0.0000 0.8835 1.000 0.000
#> SRR1177707 1 0.9944 -0.3858 0.544 0.456
#> SRR1177708 1 0.1843 0.8643 0.972 0.028
#> SRR1177709 1 0.1184 0.8805 0.984 0.016
#> SRR1177710 1 0.8081 0.7486 0.752 0.248
#> SRR1177711 1 0.0672 0.8833 0.992 0.008
#> SRR1177712 1 0.0376 0.8831 0.996 0.004
#> SRR1177714 1 0.0000 0.8835 1.000 0.000
#> SRR1177713 1 0.2603 0.8694 0.956 0.044
#> SRR1177715 1 0.0000 0.8835 1.000 0.000
#> SRR1177716 1 0.8081 0.7486 0.752 0.248
#> SRR1177717 1 0.0376 0.8824 0.996 0.004
#> SRR1177718 1 0.1184 0.8822 0.984 0.016
#> SRR1177719 1 0.2423 0.8529 0.960 0.040
#> SRR1177720 1 0.8081 0.7486 0.752 0.248
#> SRR1177721 1 0.2236 0.8558 0.964 0.036
#> SRR1177722 1 0.2236 0.8558 0.964 0.036
#> SRR1177723 1 0.0376 0.8824 0.996 0.004
#> SRR1177725 1 0.0376 0.8824 0.996 0.004
#> SRR1177724 1 0.0376 0.8824 0.996 0.004
#> SRR1177726 1 0.8081 0.7486 0.752 0.248
#> SRR1177727 1 0.0376 0.8824 0.996 0.004
#> SRR1177728 1 0.8081 0.7486 0.752 0.248
#> SRR1177729 1 0.0672 0.8833 0.992 0.008
#> SRR1177730 1 0.8081 0.7486 0.752 0.248
#> SRR1177731 1 0.1184 0.8805 0.984 0.016
#> SRR1177732 1 0.1184 0.8805 0.984 0.016
#> SRR1177733 1 0.0376 0.8824 0.996 0.004
#> SRR1177734 1 0.0376 0.8824 0.996 0.004
#> SRR1177735 1 0.0376 0.8824 0.996 0.004
#> SRR1177736 1 0.1184 0.8805 0.984 0.016
#> SRR1177737 2 0.8081 0.9656 0.248 0.752
#> SRR1177738 1 0.8713 0.7319 0.708 0.292
#> SRR1177739 1 0.0376 0.8824 0.996 0.004
#> SRR1177740 1 0.0376 0.8824 0.996 0.004
#> SRR1177741 1 0.0672 0.8834 0.992 0.008
#> SRR1177742 1 0.8081 0.7486 0.752 0.248
#> SRR1177743 1 0.2603 0.8694 0.956 0.044
#> SRR1177744 1 0.5946 0.8136 0.856 0.144
#> SRR1177745 1 0.0000 0.8835 1.000 0.000
#> SRR1177746 1 0.0000 0.8835 1.000 0.000
#> SRR1177747 1 0.5946 0.8227 0.856 0.144
#> SRR1177748 1 0.8081 0.7486 0.752 0.248
#> SRR1177749 1 0.0376 0.8824 0.996 0.004
#> SRR1177750 1 0.0376 0.8824 0.996 0.004
#> SRR1177751 1 0.0000 0.8835 1.000 0.000
#> SRR1177752 1 0.0376 0.8824 0.996 0.004
#> SRR1177753 1 0.0376 0.8824 0.996 0.004
#> SRR1177754 1 0.2236 0.8729 0.964 0.036
#> SRR1177755 1 0.0376 0.8824 0.996 0.004
#> SRR1177756 1 0.0376 0.8824 0.996 0.004
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026874 3 0.5431 0.6104 0.284 0.000 0.716
#> SRR1026875 2 0.6008 0.1445 0.000 0.628 0.372
#> SRR1026876 2 0.6008 0.1445 0.000 0.628 0.372
#> SRR1026877 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026879 1 0.1860 0.8942 0.948 0.000 0.052
#> SRR1026880 1 0.1964 0.8918 0.944 0.000 0.056
#> SRR1026881 2 0.3412 0.8432 0.124 0.876 0.000
#> SRR1026882 2 0.1860 0.8071 0.052 0.948 0.000
#> SRR1026883 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026884 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026885 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026886 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026887 3 0.1753 0.8265 0.000 0.048 0.952
#> SRR1026888 3 0.1753 0.8265 0.000 0.048 0.952
#> SRR1026889 2 0.3038 0.8345 0.104 0.896 0.000
#> SRR1026890 2 0.9173 0.5329 0.200 0.536 0.264
#> SRR1026891 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026892 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026893 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026895 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026896 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026897 3 0.4702 0.7024 0.212 0.000 0.788
#> SRR1026898 1 0.1031 0.9057 0.976 0.000 0.024
#> SRR1026899 1 0.1964 0.8918 0.944 0.000 0.056
#> SRR1026900 1 0.2998 0.8660 0.916 0.016 0.068
#> SRR1026901 1 0.5171 0.7241 0.784 0.012 0.204
#> SRR1026902 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026903 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026904 3 0.9627 -0.1624 0.204 0.396 0.400
#> SRR1026905 3 0.9587 -0.0240 0.204 0.356 0.440
#> SRR1026906 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026910 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026911 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026912 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026914 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026918 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026919 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026920 2 0.3482 0.8449 0.128 0.872 0.000
#> SRR1026921 2 0.3482 0.8449 0.128 0.872 0.000
#> SRR1026922 1 0.8765 0.3309 0.504 0.380 0.116
#> SRR1026923 1 0.6025 0.7213 0.784 0.140 0.076
#> SRR1026924 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026925 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026926 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026927 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026928 2 0.4346 0.8572 0.184 0.816 0.000
#> SRR1026929 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026930 1 0.7457 0.5811 0.688 0.208 0.104
#> SRR1026931 3 0.6034 0.7726 0.036 0.212 0.752
#> SRR1026932 2 0.6008 0.1445 0.000 0.628 0.372
#> SRR1026933 2 0.6008 0.1445 0.000 0.628 0.372
#> SRR1026934 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026936 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026937 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026938 2 0.0747 0.7849 0.016 0.984 0.000
#> SRR1026939 2 0.0747 0.7849 0.016 0.984 0.000
#> SRR1026940 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026941 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026942 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026943 1 0.0237 0.9117 0.996 0.004 0.000
#> SRR1026944 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026945 3 0.4452 0.7059 0.192 0.000 0.808
#> SRR1026947 2 0.1753 0.7392 0.000 0.952 0.048
#> SRR1026946 2 0.0000 0.7736 0.000 1.000 0.000
#> SRR1026948 3 0.6034 0.7726 0.036 0.212 0.752
#> SRR1026949 1 0.0237 0.9119 0.996 0.004 0.000
#> SRR1026950 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026951 1 0.4861 0.7577 0.808 0.012 0.180
#> SRR1026952 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026954 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026955 2 0.6008 0.1445 0.000 0.628 0.372
#> SRR1026956 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026957 2 0.9375 0.4047 0.308 0.496 0.196
#> SRR1026958 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026959 3 0.6034 0.7726 0.036 0.212 0.752
#> SRR1026960 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026961 2 0.4504 0.8582 0.196 0.804 0.000
#> SRR1026962 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026964 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026965 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026966 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026968 2 0.4796 0.8371 0.220 0.780 0.000
#> SRR1026969 2 0.5650 0.7137 0.312 0.688 0.000
#> SRR1026970 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026971 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026972 1 0.4605 0.6686 0.796 0.204 0.000
#> SRR1026973 1 0.4605 0.6686 0.796 0.204 0.000
#> SRR1026974 2 0.5138 0.8010 0.252 0.748 0.000
#> SRR1026975 2 0.4931 0.8254 0.232 0.768 0.000
#> SRR1026976 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026977 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026978 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026979 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026980 3 0.6209 0.4688 0.368 0.004 0.628
#> SRR1026981 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026982 2 0.4504 0.8582 0.196 0.804 0.000
#> SRR1026983 2 0.4504 0.8582 0.196 0.804 0.000
#> SRR1026984 2 0.4399 0.8577 0.188 0.812 0.000
#> SRR1026985 2 0.4399 0.8577 0.188 0.812 0.000
#> SRR1026986 1 0.4452 0.6977 0.808 0.192 0.000
#> SRR1026987 1 0.0424 0.9099 0.992 0.008 0.000
#> SRR1026988 1 0.0424 0.9111 0.992 0.000 0.008
#> SRR1026989 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026990 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026991 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1026994 1 0.6683 -0.1223 0.496 0.008 0.496
#> SRR1026995 1 0.1031 0.9057 0.976 0.000 0.024
#> SRR1026996 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026997 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1026998 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1027000 3 0.5988 0.4854 0.368 0.000 0.632
#> SRR1027001 1 0.6168 0.3480 0.588 0.000 0.412
#> SRR1027002 1 0.1529 0.8984 0.960 0.000 0.040
#> SRR1027003 1 0.5158 0.6740 0.764 0.004 0.232
#> SRR1027004 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1027006 1 0.1643 0.8963 0.956 0.000 0.044
#> SRR1027007 1 0.0424 0.9099 0.992 0.008 0.000
#> SRR1027008 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1027010 1 0.4399 0.7631 0.812 0.000 0.188
#> SRR1027011 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1177668 1 0.1964 0.8918 0.944 0.000 0.056
#> SRR1177667 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177669 3 0.6244 0.2402 0.440 0.000 0.560
#> SRR1177670 3 0.0424 0.8510 0.008 0.000 0.992
#> SRR1177671 3 0.6096 0.7745 0.040 0.208 0.752
#> SRR1177672 3 0.4346 0.7139 0.184 0.000 0.816
#> SRR1177673 1 0.4178 0.7821 0.828 0.000 0.172
#> SRR1177674 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177676 1 0.5058 0.6797 0.756 0.000 0.244
#> SRR1177677 1 0.1031 0.9057 0.976 0.000 0.024
#> SRR1177678 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177679 3 0.6096 0.7745 0.040 0.208 0.752
#> SRR1177680 3 0.8138 0.7109 0.152 0.204 0.644
#> SRR1177681 1 0.0892 0.9075 0.980 0.000 0.020
#> SRR1177682 1 0.4842 0.6905 0.776 0.000 0.224
#> SRR1177683 3 0.6096 0.7745 0.040 0.208 0.752
#> SRR1177684 3 0.6096 0.7745 0.040 0.208 0.752
#> SRR1177685 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1177687 3 0.6621 0.7752 0.100 0.148 0.752
#> SRR1177688 1 0.1529 0.8983 0.960 0.000 0.040
#> SRR1177689 1 0.3573 0.8279 0.876 0.004 0.120
#> SRR1177690 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177691 3 0.6096 0.7745 0.040 0.208 0.752
#> SRR1177692 3 0.5536 0.6849 0.236 0.012 0.752
#> SRR1177693 2 0.1411 0.7492 0.000 0.964 0.036
#> SRR1177694 2 0.3038 0.8346 0.104 0.896 0.000
#> SRR1177695 1 0.2959 0.8486 0.900 0.000 0.100
#> SRR1177697 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177696 1 0.6305 0.0126 0.516 0.000 0.484
#> SRR1177698 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1177700 1 0.0661 0.9103 0.988 0.008 0.004
#> SRR1177701 2 0.4555 0.8581 0.200 0.800 0.000
#> SRR1177702 3 0.5591 0.5821 0.304 0.000 0.696
#> SRR1177703 1 0.0592 0.9074 0.988 0.012 0.000
#> SRR1177704 3 0.4931 0.6996 0.212 0.004 0.784
#> SRR1177705 1 0.0424 0.9099 0.992 0.008 0.000
#> SRR1177706 3 0.5536 0.6808 0.236 0.012 0.752
#> SRR1177707 1 0.6252 -0.0848 0.556 0.444 0.000
#> SRR1177708 1 0.1585 0.9005 0.964 0.008 0.028
#> SRR1177709 1 0.1031 0.9075 0.976 0.000 0.024
#> SRR1177710 3 0.2878 0.8062 0.096 0.000 0.904
#> SRR1177711 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177712 1 0.6451 0.2918 0.608 0.008 0.384
#> SRR1177714 3 0.6096 0.7745 0.040 0.208 0.752
#> SRR1177713 3 0.5058 0.6668 0.244 0.000 0.756
#> SRR1177715 3 0.6154 0.7756 0.044 0.204 0.752
#> SRR1177716 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177719 1 0.0424 0.9098 0.992 0.008 0.000
#> SRR1177720 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1177721 3 0.6034 0.7726 0.036 0.212 0.752
#> SRR1177722 3 0.6034 0.7726 0.036 0.212 0.752
#> SRR1177723 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1177727 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177728 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177730 3 0.5760 0.4564 0.328 0.000 0.672
#> SRR1177731 1 0.0424 0.9111 0.992 0.000 0.008
#> SRR1177732 1 0.1860 0.8942 0.948 0.000 0.052
#> SRR1177733 1 0.0424 0.9099 0.992 0.008 0.000
#> SRR1177734 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177735 1 0.0424 0.9099 0.992 0.008 0.000
#> SRR1177736 1 0.1031 0.9033 0.976 0.000 0.024
#> SRR1177737 2 0.1643 0.8025 0.044 0.956 0.000
#> SRR1177738 3 0.1753 0.8265 0.000 0.048 0.952
#> SRR1177739 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177740 1 0.0424 0.9099 0.992 0.008 0.000
#> SRR1177741 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177742 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1177743 1 0.1964 0.8918 0.944 0.000 0.056
#> SRR1177744 1 0.5529 0.5835 0.704 0.000 0.296
#> SRR1177745 3 0.6208 0.7765 0.048 0.200 0.752
#> SRR1177746 3 0.6154 0.7756 0.044 0.204 0.752
#> SRR1177747 3 0.4399 0.7299 0.188 0.000 0.812
#> SRR1177748 3 0.0000 0.8527 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177751 1 0.1163 0.9042 0.972 0.000 0.028
#> SRR1177752 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177754 1 0.1964 0.8918 0.944 0.000 0.056
#> SRR1177755 1 0.0000 0.9134 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.9134 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 4 0.3837 0.6515 0.000 0.224 0.000 0.776
#> SRR1026871 4 0.3837 0.6515 0.000 0.224 0.000 0.776
#> SRR1026872 4 0.3837 0.6515 0.000 0.224 0.000 0.776
#> SRR1026873 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1026874 3 0.5867 0.5851 0.268 0.060 0.668 0.004
#> SRR1026875 2 0.2921 0.7150 0.000 0.860 0.000 0.140
#> SRR1026876 2 0.2921 0.7150 0.000 0.860 0.000 0.140
#> SRR1026877 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026878 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026879 1 0.1398 0.8493 0.956 0.040 0.000 0.004
#> SRR1026880 1 0.2553 0.8359 0.916 0.060 0.008 0.016
#> SRR1026881 4 0.1635 0.8718 0.008 0.044 0.000 0.948
#> SRR1026882 4 0.1576 0.8680 0.004 0.048 0.000 0.948
#> SRR1026883 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026884 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026885 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026886 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026887 3 0.1059 0.9089 0.000 0.016 0.972 0.012
#> SRR1026888 3 0.1059 0.9089 0.000 0.016 0.972 0.012
#> SRR1026889 4 0.5055 0.3317 0.008 0.368 0.000 0.624
#> SRR1026890 4 0.1624 0.8788 0.028 0.000 0.020 0.952
#> SRR1026891 4 0.1211 0.8845 0.040 0.000 0.000 0.960
#> SRR1026892 4 0.1118 0.8867 0.036 0.000 0.000 0.964
#> SRR1026893 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026894 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026895 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026896 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026897 3 0.3801 0.7082 0.220 0.000 0.780 0.000
#> SRR1026898 1 0.1902 0.8405 0.932 0.064 0.000 0.004
#> SRR1026899 1 0.4464 0.7613 0.824 0.064 0.100 0.012
#> SRR1026900 1 0.6608 0.6077 0.628 0.168 0.000 0.204
#> SRR1026901 1 0.6098 0.6938 0.676 0.124 0.000 0.200
#> SRR1026902 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026903 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026904 4 0.3675 0.7757 0.104 0.016 0.020 0.860
#> SRR1026905 4 0.4125 0.7323 0.128 0.016 0.024 0.832
#> SRR1026906 4 0.4998 -0.0946 0.000 0.488 0.000 0.512
#> SRR1026907 2 0.5000 0.0966 0.000 0.500 0.000 0.500
#> SRR1026908 2 0.4981 0.2238 0.000 0.536 0.000 0.464
#> SRR1026909 2 0.4898 0.3459 0.000 0.584 0.000 0.416
#> SRR1026910 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026911 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026912 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026913 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026914 4 0.3764 0.6597 0.000 0.216 0.000 0.784
#> SRR1026915 4 0.3764 0.6597 0.000 0.216 0.000 0.784
#> SRR1026916 4 0.3764 0.6597 0.000 0.216 0.000 0.784
#> SRR1026917 4 0.3764 0.6597 0.000 0.216 0.000 0.784
#> SRR1026918 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026919 4 0.1109 0.8897 0.028 0.004 0.000 0.968
#> SRR1026920 4 0.1182 0.8871 0.016 0.016 0.000 0.968
#> SRR1026921 4 0.1182 0.8871 0.016 0.016 0.000 0.968
#> SRR1026922 2 0.6681 0.5446 0.120 0.588 0.000 0.292
#> SRR1026923 2 0.6916 0.5196 0.148 0.572 0.000 0.280
#> SRR1026924 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026925 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026926 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026927 4 0.1022 0.8880 0.032 0.000 0.000 0.968
#> SRR1026928 4 0.1284 0.8888 0.024 0.012 0.000 0.964
#> SRR1026929 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026930 2 0.7179 0.3897 0.276 0.544 0.000 0.180
#> SRR1026931 2 0.1707 0.7315 0.024 0.952 0.020 0.004
#> SRR1026932 2 0.2868 0.7166 0.000 0.864 0.000 0.136
#> SRR1026933 2 0.2868 0.7166 0.000 0.864 0.000 0.136
#> SRR1026934 4 0.4999 -0.1071 0.000 0.492 0.000 0.508
#> SRR1026935 2 0.4998 0.1377 0.000 0.512 0.000 0.488
#> SRR1026936 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026937 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026938 4 0.2868 0.7797 0.000 0.136 0.000 0.864
#> SRR1026939 4 0.2589 0.8056 0.000 0.116 0.000 0.884
#> SRR1026940 1 0.4100 0.8075 0.824 0.048 0.000 0.128
#> SRR1026941 3 0.0000 0.9114 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1026943 1 0.3448 0.7843 0.828 0.004 0.000 0.168
#> SRR1026944 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1026945 3 0.2329 0.8540 0.072 0.000 0.916 0.012
#> SRR1026947 2 0.3123 0.7041 0.000 0.844 0.000 0.156
#> SRR1026946 2 0.4992 0.1826 0.000 0.524 0.000 0.476
#> SRR1026948 2 0.1484 0.7382 0.004 0.960 0.020 0.016
#> SRR1026949 1 0.4864 0.7564 0.768 0.060 0.000 0.172
#> SRR1026950 1 0.0376 0.8564 0.992 0.004 0.000 0.004
#> SRR1026951 1 0.5883 0.7276 0.700 0.128 0.000 0.172
#> SRR1026952 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1026953 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1026954 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026955 2 0.2921 0.7150 0.000 0.860 0.000 0.140
#> SRR1026956 4 0.1867 0.8543 0.072 0.000 0.000 0.928
#> SRR1026957 2 0.6396 0.4539 0.072 0.548 0.000 0.380
#> SRR1026958 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1026959 2 0.1411 0.7323 0.020 0.960 0.020 0.000
#> SRR1026960 4 0.1820 0.8776 0.020 0.036 0.000 0.944
#> SRR1026961 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026962 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1026963 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1026964 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026965 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026966 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026967 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026968 4 0.1637 0.8619 0.060 0.000 0.000 0.940
#> SRR1026969 4 0.2530 0.8093 0.100 0.004 0.000 0.896
#> SRR1026970 4 0.1209 0.8886 0.032 0.004 0.000 0.964
#> SRR1026971 4 0.1209 0.8886 0.032 0.004 0.000 0.964
#> SRR1026972 1 0.6583 0.3731 0.528 0.084 0.000 0.388
#> SRR1026973 1 0.6583 0.3731 0.528 0.084 0.000 0.388
#> SRR1026974 4 0.3801 0.6406 0.220 0.000 0.000 0.780
#> SRR1026975 4 0.3726 0.6498 0.212 0.000 0.000 0.788
#> SRR1026976 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026977 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026978 1 0.3448 0.7843 0.828 0.004 0.000 0.168
#> SRR1026979 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1026980 1 0.6116 0.7394 0.712 0.096 0.020 0.172
#> SRR1026981 3 0.0000 0.9114 0.000 0.000 1.000 0.000
#> SRR1026982 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026983 4 0.0921 0.8898 0.028 0.000 0.000 0.972
#> SRR1026984 4 0.1629 0.8848 0.024 0.024 0.000 0.952
#> SRR1026985 4 0.1624 0.8858 0.028 0.020 0.000 0.952
#> SRR1026986 1 0.3836 0.7830 0.816 0.016 0.000 0.168
#> SRR1026987 1 0.3311 0.7842 0.828 0.000 0.000 0.172
#> SRR1026988 1 0.1174 0.8494 0.968 0.020 0.000 0.012
#> SRR1026989 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1026990 4 0.1022 0.8880 0.032 0.000 0.000 0.968
#> SRR1026991 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026992 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1026993 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1026994 1 0.5936 0.7362 0.724 0.084 0.020 0.172
#> SRR1026995 1 0.4194 0.7817 0.800 0.028 0.000 0.172
#> SRR1026996 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026997 4 0.0469 0.8869 0.012 0.000 0.000 0.988
#> SRR1026998 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1026999 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1027000 1 0.6408 0.7200 0.692 0.164 0.020 0.124
#> SRR1027001 3 0.5363 0.6812 0.200 0.048 0.740 0.012
#> SRR1027002 1 0.3836 0.7830 0.816 0.016 0.000 0.168
#> SRR1027003 1 0.6828 0.6759 0.648 0.164 0.016 0.172
#> SRR1027004 1 0.1109 0.8526 0.968 0.028 0.000 0.004
#> SRR1027005 3 0.0000 0.9114 0.000 0.000 1.000 0.000
#> SRR1027006 1 0.2563 0.8319 0.916 0.060 0.012 0.012
#> SRR1027007 1 0.4289 0.7688 0.796 0.032 0.000 0.172
#> SRR1027008 1 0.0376 0.8566 0.992 0.004 0.000 0.004
#> SRR1027009 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1027010 1 0.6716 0.0338 0.504 0.060 0.424 0.012
#> SRR1027011 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1177668 1 0.6078 0.4326 0.640 0.040 0.304 0.016
#> SRR1177667 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177669 3 0.4770 0.6113 0.288 0.000 0.700 0.012
#> SRR1177670 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1177671 2 0.1411 0.7323 0.020 0.960 0.020 0.000
#> SRR1177672 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1177673 1 0.2773 0.8262 0.900 0.072 0.028 0.000
#> SRR1177674 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1177675 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1177676 1 0.6536 0.0159 0.504 0.048 0.436 0.012
#> SRR1177677 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177678 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177679 2 0.1411 0.7323 0.020 0.960 0.020 0.000
#> SRR1177680 1 0.7220 0.6315 0.612 0.196 0.020 0.172
#> SRR1177681 1 0.1902 0.8405 0.932 0.064 0.000 0.004
#> SRR1177682 1 0.5531 0.7747 0.756 0.088 0.016 0.140
#> SRR1177683 2 0.1411 0.7323 0.020 0.960 0.020 0.000
#> SRR1177684 2 0.1877 0.7341 0.020 0.948 0.020 0.012
#> SRR1177685 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1177686 3 0.0000 0.9114 0.000 0.000 1.000 0.000
#> SRR1177687 1 0.7404 0.5966 0.588 0.220 0.020 0.172
#> SRR1177688 1 0.1978 0.8393 0.928 0.068 0.000 0.004
#> SRR1177689 1 0.6292 0.7048 0.676 0.148 0.004 0.172
#> SRR1177690 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1177691 2 0.3787 0.7020 0.020 0.856 0.020 0.104
#> SRR1177692 1 0.6229 0.7338 0.704 0.104 0.020 0.172
#> SRR1177693 2 0.4989 0.1960 0.000 0.528 0.000 0.472
#> SRR1177694 4 0.2542 0.8341 0.012 0.084 0.000 0.904
#> SRR1177695 1 0.1902 0.8405 0.932 0.064 0.000 0.004
#> SRR1177697 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1177696 1 0.3181 0.8216 0.888 0.064 0.044 0.004
#> SRR1177698 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1177700 1 0.3760 0.8035 0.836 0.028 0.000 0.136
#> SRR1177701 4 0.1022 0.8880 0.032 0.000 0.000 0.968
#> SRR1177702 1 0.6272 0.4102 0.612 0.068 0.316 0.004
#> SRR1177703 1 0.5185 0.7358 0.748 0.076 0.000 0.176
#> SRR1177704 3 0.8839 -0.0590 0.348 0.072 0.408 0.172
#> SRR1177705 1 0.3311 0.7842 0.828 0.000 0.000 0.172
#> SRR1177706 2 0.6348 0.5851 0.116 0.696 0.020 0.168
#> SRR1177707 4 0.5152 0.4549 0.316 0.020 0.000 0.664
#> SRR1177708 1 0.4332 0.7750 0.792 0.032 0.000 0.176
#> SRR1177709 1 0.1706 0.8468 0.948 0.036 0.000 0.016
#> SRR1177710 3 0.3196 0.7913 0.136 0.000 0.856 0.008
#> SRR1177711 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1177712 1 0.3764 0.7823 0.816 0.012 0.000 0.172
#> SRR1177714 2 0.1411 0.7323 0.020 0.960 0.020 0.000
#> SRR1177713 3 0.5767 0.5705 0.280 0.060 0.660 0.000
#> SRR1177715 2 0.6970 0.5292 0.168 0.640 0.020 0.172
#> SRR1177716 3 0.0000 0.9114 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1177718 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177719 1 0.2282 0.8313 0.924 0.052 0.000 0.024
#> SRR1177720 3 0.0000 0.9114 0.000 0.000 1.000 0.000
#> SRR1177721 2 0.1484 0.7382 0.004 0.960 0.020 0.016
#> SRR1177722 2 0.1598 0.7393 0.004 0.956 0.020 0.020
#> SRR1177723 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1177725 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177724 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177726 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1177727 1 0.0336 0.8557 0.992 0.000 0.000 0.008
#> SRR1177728 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1177729 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1177730 3 0.1022 0.8942 0.032 0.000 0.968 0.000
#> SRR1177731 1 0.1209 0.8516 0.964 0.032 0.000 0.004
#> SRR1177732 1 0.2352 0.8407 0.928 0.044 0.012 0.016
#> SRR1177733 1 0.3311 0.7842 0.828 0.000 0.000 0.172
#> SRR1177734 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177735 1 0.4633 0.7623 0.780 0.048 0.000 0.172
#> SRR1177736 1 0.1716 0.8396 0.936 0.064 0.000 0.000
#> SRR1177737 4 0.1767 0.8731 0.012 0.044 0.000 0.944
#> SRR1177738 3 0.0927 0.9097 0.000 0.016 0.976 0.008
#> SRR1177739 1 0.0376 0.8566 0.992 0.004 0.000 0.004
#> SRR1177740 1 0.3311 0.7842 0.828 0.000 0.000 0.172
#> SRR1177741 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177742 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1177743 1 0.5063 0.7109 0.780 0.064 0.144 0.012
#> SRR1177744 3 0.6677 0.3067 0.400 0.060 0.528 0.012
#> SRR1177745 1 0.6389 0.7245 0.692 0.116 0.020 0.172
#> SRR1177746 1 0.7511 0.5705 0.572 0.236 0.020 0.172
#> SRR1177747 3 0.3712 0.7811 0.152 0.004 0.832 0.012
#> SRR1177748 3 0.0188 0.9115 0.004 0.000 0.996 0.000
#> SRR1177749 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177750 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177751 1 0.0188 0.8557 0.996 0.004 0.000 0.000
#> SRR1177752 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177753 1 0.0188 0.8567 0.996 0.000 0.000 0.004
#> SRR1177754 1 0.2684 0.8290 0.912 0.060 0.016 0.012
#> SRR1177755 1 0.0000 0.8558 1.000 0.000 0.000 0.000
#> SRR1177756 1 0.0188 0.8557 0.996 0.004 0.000 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 5 0.5532 0.92016 0.000 0.196 0.000 0.156 0.648
#> SRR1026871 5 0.5532 0.92016 0.000 0.196 0.000 0.156 0.648
#> SRR1026872 5 0.5567 0.91799 0.000 0.196 0.000 0.160 0.644
#> SRR1026873 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1026874 3 0.5016 0.64642 0.184 0.076 0.724 0.000 0.016
#> SRR1026875 2 0.3562 0.53643 0.000 0.788 0.000 0.196 0.016
#> SRR1026876 2 0.3562 0.53643 0.000 0.788 0.000 0.196 0.016
#> SRR1026877 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026878 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026879 1 0.0955 0.87596 0.968 0.028 0.004 0.000 0.000
#> SRR1026880 1 0.3870 0.82904 0.832 0.088 0.032 0.000 0.048
#> SRR1026881 4 0.4035 0.67807 0.000 0.060 0.000 0.784 0.156
#> SRR1026882 4 0.4430 0.63345 0.000 0.076 0.000 0.752 0.172
#> SRR1026883 4 0.1121 0.79540 0.000 0.000 0.000 0.956 0.044
#> SRR1026884 4 0.1121 0.79540 0.000 0.000 0.000 0.956 0.044
#> SRR1026885 4 0.1012 0.79843 0.012 0.000 0.000 0.968 0.020
#> SRR1026886 4 0.1012 0.79843 0.012 0.000 0.000 0.968 0.020
#> SRR1026887 3 0.2648 0.86479 0.000 0.000 0.848 0.000 0.152
#> SRR1026888 3 0.2648 0.86479 0.000 0.000 0.848 0.000 0.152
#> SRR1026889 5 0.6056 0.77941 0.000 0.156 0.000 0.288 0.556
#> SRR1026890 4 0.3800 0.74225 0.028 0.000 0.052 0.836 0.084
#> SRR1026891 4 0.2660 0.72648 0.128 0.000 0.000 0.864 0.008
#> SRR1026892 4 0.2411 0.74848 0.108 0.000 0.000 0.884 0.008
#> SRR1026893 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026894 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026895 4 0.1043 0.79476 0.000 0.000 0.000 0.960 0.040
#> SRR1026896 4 0.1043 0.79476 0.000 0.000 0.000 0.960 0.040
#> SRR1026897 3 0.3978 0.72527 0.148 0.004 0.796 0.052 0.000
#> SRR1026898 1 0.1908 0.85662 0.908 0.092 0.000 0.000 0.000
#> SRR1026899 1 0.6546 0.45005 0.560 0.088 0.300 0.000 0.052
#> SRR1026900 1 0.6066 0.70051 0.652 0.120 0.000 0.188 0.040
#> SRR1026901 1 0.5732 0.75106 0.696 0.100 0.000 0.152 0.052
#> SRR1026902 4 0.1041 0.79926 0.032 0.000 0.000 0.964 0.004
#> SRR1026903 4 0.1041 0.79926 0.032 0.000 0.000 0.964 0.004
#> SRR1026904 4 0.6060 0.49283 0.144 0.024 0.004 0.652 0.176
#> SRR1026905 4 0.6171 0.46934 0.160 0.024 0.004 0.640 0.172
#> SRR1026906 5 0.6076 0.86165 0.000 0.196 0.000 0.232 0.572
#> SRR1026907 5 0.6076 0.86165 0.000 0.196 0.000 0.232 0.572
#> SRR1026908 5 0.5526 0.92001 0.000 0.200 0.000 0.152 0.648
#> SRR1026909 5 0.5526 0.92001 0.000 0.200 0.000 0.152 0.648
#> SRR1026910 4 0.0898 0.79805 0.008 0.000 0.000 0.972 0.020
#> SRR1026911 4 0.0898 0.79805 0.008 0.000 0.000 0.972 0.020
#> SRR1026912 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026913 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026914 4 0.6348 -0.00245 0.000 0.196 0.000 0.512 0.292
#> SRR1026915 4 0.6348 -0.00245 0.000 0.196 0.000 0.512 0.292
#> SRR1026916 4 0.6348 -0.00245 0.000 0.196 0.000 0.512 0.292
#> SRR1026917 4 0.6348 -0.00245 0.000 0.196 0.000 0.512 0.292
#> SRR1026918 4 0.3163 0.73680 0.012 0.000 0.000 0.824 0.164
#> SRR1026919 4 0.3163 0.73680 0.012 0.000 0.000 0.824 0.164
#> SRR1026920 4 0.4119 0.64649 0.000 0.036 0.000 0.752 0.212
#> SRR1026921 4 0.4193 0.64124 0.000 0.040 0.000 0.748 0.212
#> SRR1026922 2 0.6139 0.36892 0.108 0.572 0.000 0.304 0.016
#> SRR1026923 2 0.5489 0.38329 0.064 0.576 0.000 0.356 0.004
#> SRR1026924 4 0.1121 0.79581 0.000 0.000 0.000 0.956 0.044
#> SRR1026925 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026926 4 0.1043 0.79733 0.000 0.000 0.000 0.960 0.040
#> SRR1026927 4 0.1082 0.79955 0.028 0.000 0.000 0.964 0.008
#> SRR1026928 4 0.3387 0.73839 0.008 0.020 0.000 0.832 0.140
#> SRR1026929 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026930 1 0.6137 0.31303 0.476 0.392 0.000 0.132 0.000
#> SRR1026931 2 0.0404 0.74303 0.012 0.988 0.000 0.000 0.000
#> SRR1026932 2 0.4149 0.56531 0.000 0.784 0.000 0.128 0.088
#> SRR1026933 2 0.4149 0.56531 0.000 0.784 0.000 0.128 0.088
#> SRR1026934 5 0.5526 0.92001 0.000 0.200 0.000 0.152 0.648
#> SRR1026935 5 0.5526 0.92001 0.000 0.200 0.000 0.152 0.648
#> SRR1026936 4 0.1043 0.79476 0.000 0.000 0.000 0.960 0.040
#> SRR1026937 4 0.1043 0.79476 0.000 0.000 0.000 0.960 0.040
#> SRR1026938 4 0.5074 0.54958 0.000 0.132 0.000 0.700 0.168
#> SRR1026939 4 0.4946 0.57066 0.000 0.120 0.000 0.712 0.168
#> SRR1026940 1 0.4167 0.83343 0.812 0.044 0.000 0.104 0.040
#> SRR1026941 3 0.0162 0.87867 0.000 0.000 0.996 0.000 0.004
#> SRR1026942 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1026943 1 0.2722 0.83337 0.868 0.004 0.000 0.120 0.008
#> SRR1026944 1 0.0290 0.87778 0.992 0.000 0.000 0.000 0.008
#> SRR1026945 3 0.1557 0.85800 0.008 0.000 0.940 0.000 0.052
#> SRR1026947 5 0.6127 0.82471 0.000 0.276 0.000 0.172 0.552
#> SRR1026946 5 0.6083 0.86838 0.000 0.204 0.000 0.224 0.572
#> SRR1026948 2 0.0000 0.74834 0.000 1.000 0.000 0.000 0.000
#> SRR1026949 1 0.4472 0.81020 0.788 0.024 0.000 0.108 0.080
#> SRR1026950 1 0.0290 0.87778 0.992 0.000 0.000 0.000 0.008
#> SRR1026951 1 0.5887 0.75389 0.696 0.104 0.000 0.108 0.092
#> SRR1026952 1 0.0290 0.87778 0.992 0.000 0.000 0.000 0.008
#> SRR1026953 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1026954 4 0.1952 0.77431 0.004 0.000 0.000 0.912 0.084
#> SRR1026955 2 0.4096 0.56208 0.000 0.784 0.000 0.144 0.072
#> SRR1026956 4 0.3574 0.67861 0.168 0.000 0.000 0.804 0.028
#> SRR1026957 2 0.6652 0.07728 0.012 0.496 0.000 0.316 0.176
#> SRR1026958 1 0.0960 0.87839 0.972 0.004 0.000 0.016 0.008
#> SRR1026959 2 0.0000 0.74834 0.000 1.000 0.000 0.000 0.000
#> SRR1026960 4 0.4343 0.70779 0.096 0.000 0.000 0.768 0.136
#> SRR1026961 4 0.2389 0.78133 0.004 0.000 0.000 0.880 0.116
#> SRR1026962 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1026963 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1026964 4 0.1043 0.79476 0.000 0.000 0.000 0.960 0.040
#> SRR1026965 4 0.1043 0.79476 0.000 0.000 0.000 0.960 0.040
#> SRR1026966 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026967 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026968 4 0.3293 0.74948 0.008 0.008 0.000 0.824 0.160
#> SRR1026969 4 0.2629 0.77472 0.012 0.004 0.000 0.880 0.104
#> SRR1026970 4 0.2514 0.78090 0.060 0.000 0.000 0.896 0.044
#> SRR1026971 4 0.2514 0.78090 0.060 0.000 0.000 0.896 0.044
#> SRR1026972 1 0.5267 0.46730 0.604 0.008 0.000 0.344 0.044
#> SRR1026973 1 0.5267 0.46730 0.604 0.008 0.000 0.344 0.044
#> SRR1026974 4 0.3544 0.64053 0.200 0.004 0.000 0.788 0.008
#> SRR1026975 4 0.3544 0.64053 0.200 0.004 0.000 0.788 0.008
#> SRR1026976 4 0.1557 0.79595 0.008 0.000 0.000 0.940 0.052
#> SRR1026977 4 0.1251 0.79876 0.008 0.000 0.000 0.956 0.036
#> SRR1026978 1 0.1430 0.87146 0.944 0.000 0.000 0.052 0.004
#> SRR1026979 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1026980 1 0.5836 0.75537 0.700 0.104 0.000 0.108 0.088
#> SRR1026981 3 0.0963 0.87952 0.000 0.000 0.964 0.000 0.036
#> SRR1026982 4 0.2286 0.77496 0.004 0.000 0.000 0.888 0.108
#> SRR1026983 4 0.2286 0.77496 0.004 0.000 0.000 0.888 0.108
#> SRR1026984 4 0.2911 0.75097 0.008 0.004 0.000 0.852 0.136
#> SRR1026985 4 0.2911 0.75097 0.008 0.004 0.000 0.852 0.136
#> SRR1026986 1 0.2221 0.86383 0.912 0.052 0.000 0.036 0.000
#> SRR1026987 1 0.2621 0.85099 0.876 0.004 0.000 0.112 0.008
#> SRR1026988 1 0.1830 0.86649 0.932 0.012 0.004 0.000 0.052
#> SRR1026989 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1026990 4 0.1893 0.79237 0.048 0.000 0.000 0.928 0.024
#> SRR1026991 3 0.2471 0.86709 0.000 0.000 0.864 0.000 0.136
#> SRR1026992 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1026993 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1026994 1 0.4630 0.77239 0.736 0.088 0.000 0.176 0.000
#> SRR1026995 1 0.3688 0.82368 0.812 0.036 0.000 0.148 0.004
#> SRR1026996 4 0.0963 0.79586 0.000 0.000 0.000 0.964 0.036
#> SRR1026997 4 0.0794 0.79685 0.000 0.000 0.000 0.972 0.028
#> SRR1026998 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1026999 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1027000 1 0.4069 0.82023 0.792 0.112 0.000 0.096 0.000
#> SRR1027001 3 0.3507 0.79313 0.120 0.000 0.828 0.000 0.052
#> SRR1027002 1 0.0865 0.87734 0.972 0.000 0.000 0.024 0.004
#> SRR1027003 1 0.5815 0.75592 0.700 0.112 0.000 0.112 0.076
#> SRR1027004 1 0.2075 0.87314 0.924 0.032 0.000 0.040 0.004
#> SRR1027005 3 0.0880 0.87935 0.000 0.000 0.968 0.000 0.032
#> SRR1027006 1 0.4056 0.83052 0.824 0.080 0.044 0.000 0.052
#> SRR1027007 1 0.1605 0.87517 0.944 0.004 0.000 0.040 0.012
#> SRR1027008 1 0.0609 0.87940 0.980 0.000 0.000 0.020 0.000
#> SRR1027009 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1027010 3 0.6245 0.48854 0.256 0.080 0.612 0.000 0.052
#> SRR1027011 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1177668 1 0.6108 0.20957 0.540 0.040 0.368 0.000 0.052
#> SRR1177667 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177669 3 0.2300 0.84082 0.040 0.000 0.908 0.000 0.052
#> SRR1177670 3 0.1197 0.86245 0.000 0.000 0.952 0.000 0.048
#> SRR1177671 2 0.0000 0.74834 0.000 1.000 0.000 0.000 0.000
#> SRR1177672 3 0.0290 0.87673 0.000 0.000 0.992 0.000 0.008
#> SRR1177673 1 0.4111 0.77699 0.788 0.092 0.120 0.000 0.000
#> SRR1177674 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1177675 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177676 3 0.6530 0.38743 0.308 0.084 0.556 0.000 0.052
#> SRR1177677 1 0.0451 0.87863 0.988 0.000 0.000 0.008 0.004
#> SRR1177678 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177679 2 0.0510 0.74928 0.000 0.984 0.000 0.016 0.000
#> SRR1177680 1 0.5927 0.74792 0.692 0.116 0.000 0.104 0.088
#> SRR1177681 1 0.3248 0.85116 0.856 0.088 0.000 0.052 0.004
#> SRR1177682 1 0.3413 0.84754 0.844 0.100 0.000 0.052 0.004
#> SRR1177683 2 0.0000 0.74834 0.000 1.000 0.000 0.000 0.000
#> SRR1177684 2 0.0510 0.74928 0.000 0.984 0.000 0.016 0.000
#> SRR1177685 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177686 3 0.0880 0.87935 0.000 0.000 0.968 0.000 0.032
#> SRR1177687 1 0.5929 0.74816 0.692 0.112 0.000 0.108 0.088
#> SRR1177688 1 0.2597 0.85537 0.884 0.092 0.000 0.024 0.000
#> SRR1177689 1 0.4962 0.76401 0.720 0.108 0.000 0.168 0.004
#> SRR1177690 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177691 2 0.0703 0.74577 0.000 0.976 0.000 0.024 0.000
#> SRR1177692 1 0.5882 0.75193 0.696 0.112 0.000 0.104 0.088
#> SRR1177693 5 0.5611 0.91354 0.000 0.212 0.000 0.152 0.636
#> SRR1177694 4 0.4548 0.63378 0.000 0.124 0.000 0.752 0.124
#> SRR1177695 1 0.2448 0.85912 0.892 0.088 0.000 0.020 0.000
#> SRR1177697 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177696 1 0.4146 0.82900 0.804 0.088 0.012 0.096 0.000
#> SRR1177698 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1177700 1 0.3371 0.84860 0.848 0.040 0.000 0.104 0.008
#> SRR1177701 4 0.3339 0.74195 0.112 0.000 0.000 0.840 0.048
#> SRR1177702 1 0.6036 0.41190 0.580 0.088 0.312 0.020 0.000
#> SRR1177703 1 0.3815 0.69682 0.764 0.004 0.000 0.220 0.012
#> SRR1177704 3 0.8423 0.29710 0.260 0.076 0.468 0.108 0.088
#> SRR1177705 1 0.2575 0.84908 0.884 0.004 0.000 0.100 0.012
#> SRR1177706 2 0.4395 0.56512 0.064 0.748 0.000 0.188 0.000
#> SRR1177707 4 0.5259 0.46086 0.288 0.012 0.000 0.648 0.052
#> SRR1177708 1 0.3482 0.84716 0.844 0.040 0.000 0.104 0.012
#> SRR1177709 1 0.3316 0.86249 0.868 0.036 0.000 0.052 0.044
#> SRR1177710 3 0.2790 0.83517 0.068 0.000 0.880 0.000 0.052
#> SRR1177711 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177712 1 0.3966 0.79666 0.784 0.036 0.004 0.176 0.000
#> SRR1177714 2 0.0000 0.74834 0.000 1.000 0.000 0.000 0.000
#> SRR1177713 3 0.4613 0.64178 0.200 0.072 0.728 0.000 0.000
#> SRR1177715 2 0.3516 0.61425 0.108 0.836 0.000 0.052 0.004
#> SRR1177716 3 0.1043 0.87927 0.000 0.000 0.960 0.000 0.040
#> SRR1177717 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177718 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177719 1 0.2237 0.84387 0.904 0.004 0.000 0.084 0.008
#> SRR1177720 3 0.1341 0.87832 0.000 0.000 0.944 0.000 0.056
#> SRR1177721 2 0.0000 0.74834 0.000 1.000 0.000 0.000 0.000
#> SRR1177722 2 0.2179 0.68620 0.000 0.896 0.000 0.100 0.004
#> SRR1177723 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177725 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177724 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177726 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1177727 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177728 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1177729 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177730 3 0.1041 0.86821 0.004 0.000 0.964 0.000 0.032
#> SRR1177731 1 0.0771 0.87716 0.976 0.020 0.004 0.000 0.000
#> SRR1177732 1 0.4380 0.76491 0.796 0.036 0.116 0.000 0.052
#> SRR1177733 1 0.1682 0.87349 0.940 0.004 0.000 0.044 0.012
#> SRR1177734 1 0.0579 0.87873 0.984 0.000 0.000 0.008 0.008
#> SRR1177735 1 0.2352 0.86034 0.896 0.004 0.000 0.092 0.008
#> SRR1177736 1 0.3142 0.85252 0.864 0.076 0.000 0.056 0.004
#> SRR1177737 4 0.3911 0.69078 0.000 0.060 0.000 0.796 0.144
#> SRR1177738 3 0.2690 0.86433 0.000 0.000 0.844 0.000 0.156
#> SRR1177739 1 0.1331 0.87699 0.952 0.000 0.000 0.040 0.008
#> SRR1177740 1 0.1243 0.87653 0.960 0.004 0.000 0.028 0.008
#> SRR1177741 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177742 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1177743 1 0.6074 0.60600 0.648 0.088 0.212 0.000 0.052
#> SRR1177744 3 0.4267 0.75151 0.144 0.016 0.788 0.000 0.052
#> SRR1177745 1 0.5882 0.75193 0.696 0.112 0.000 0.104 0.088
#> SRR1177746 1 0.6086 0.73197 0.676 0.136 0.000 0.104 0.084
#> SRR1177747 3 0.3427 0.80481 0.108 0.000 0.836 0.000 0.056
#> SRR1177748 3 0.0000 0.87857 0.000 0.000 1.000 0.000 0.000
#> SRR1177749 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177750 1 0.0162 0.87850 0.996 0.000 0.000 0.004 0.000
#> SRR1177751 1 0.0771 0.87772 0.976 0.000 0.000 0.020 0.004
#> SRR1177752 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177753 1 0.0404 0.87955 0.988 0.000 0.000 0.012 0.000
#> SRR1177754 1 0.3138 0.84953 0.876 0.048 0.024 0.000 0.052
#> SRR1177755 1 0.0000 0.87819 1.000 0.000 0.000 0.000 0.000
#> SRR1177756 1 0.0771 0.87772 0.976 0.000 0.000 0.020 0.004
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.5976 0.3406 0.000 0.420 0.000 0.192 0.004 0.384
#> SRR1026871 2 0.5991 0.3380 0.000 0.420 0.000 0.196 0.004 0.380
#> SRR1026872 2 0.5934 0.3298 0.000 0.420 0.000 0.216 0.000 0.364
#> SRR1026873 1 0.3437 0.6873 0.832 0.000 0.092 0.000 0.052 0.024
#> SRR1026874 3 0.6217 0.4862 0.216 0.000 0.576 0.000 0.128 0.080
#> SRR1026875 2 0.1933 0.4994 0.000 0.920 0.000 0.044 0.004 0.032
#> SRR1026876 2 0.1933 0.4994 0.000 0.920 0.000 0.044 0.004 0.032
#> SRR1026877 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1026878 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1026879 1 0.5287 0.5507 0.636 0.000 0.252 0.000 0.032 0.080
#> SRR1026880 1 0.6023 0.4905 0.576 0.004 0.268 0.000 0.056 0.096
#> SRR1026881 4 0.5208 0.5605 0.000 0.080 0.000 0.620 0.020 0.280
#> SRR1026882 4 0.5461 0.5204 0.000 0.104 0.000 0.596 0.020 0.280
#> SRR1026883 4 0.1501 0.7557 0.000 0.000 0.000 0.924 0.076 0.000
#> SRR1026884 4 0.1757 0.7585 0.000 0.000 0.000 0.916 0.076 0.008
#> SRR1026885 4 0.1341 0.7581 0.028 0.000 0.000 0.948 0.024 0.000
#> SRR1026886 4 0.1418 0.7569 0.032 0.000 0.000 0.944 0.024 0.000
#> SRR1026887 5 0.3659 0.9856 0.000 0.000 0.364 0.000 0.636 0.000
#> SRR1026888 5 0.3659 0.9856 0.000 0.000 0.364 0.000 0.636 0.000
#> SRR1026889 6 0.6442 -0.4965 0.000 0.236 0.000 0.360 0.020 0.384
#> SRR1026890 4 0.4415 0.7345 0.016 0.016 0.036 0.784 0.024 0.124
#> SRR1026891 4 0.4461 0.7010 0.084 0.000 0.000 0.760 0.112 0.044
#> SRR1026892 4 0.4134 0.7225 0.064 0.000 0.000 0.784 0.112 0.040
#> SRR1026893 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1026894 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1026895 4 0.1700 0.7544 0.000 0.000 0.000 0.916 0.080 0.004
#> SRR1026896 4 0.1700 0.7544 0.000 0.000 0.000 0.916 0.080 0.004
#> SRR1026897 3 0.5775 0.5048 0.184 0.000 0.648 0.012 0.104 0.052
#> SRR1026898 1 0.3987 0.6718 0.796 0.004 0.064 0.000 0.024 0.112
#> SRR1026899 1 0.6133 0.3112 0.504 0.000 0.344 0.000 0.056 0.096
#> SRR1026900 1 0.6098 0.3387 0.588 0.028 0.004 0.220 0.008 0.152
#> SRR1026901 1 0.5759 0.3921 0.612 0.012 0.004 0.204 0.008 0.160
#> SRR1026902 4 0.1577 0.7588 0.036 0.000 0.000 0.940 0.016 0.008
#> SRR1026903 4 0.1577 0.7588 0.036 0.000 0.000 0.940 0.016 0.008
#> SRR1026904 4 0.4995 0.6604 0.056 0.024 0.000 0.676 0.008 0.236
#> SRR1026905 4 0.5018 0.6563 0.056 0.024 0.000 0.672 0.008 0.240
#> SRR1026906 2 0.6374 0.2876 0.000 0.388 0.000 0.236 0.016 0.360
#> SRR1026907 2 0.6372 0.2911 0.000 0.392 0.000 0.236 0.016 0.356
#> SRR1026908 2 0.5942 0.3459 0.000 0.424 0.000 0.184 0.004 0.388
#> SRR1026909 2 0.5942 0.3459 0.000 0.424 0.000 0.184 0.004 0.388
#> SRR1026910 4 0.0692 0.7609 0.004 0.000 0.000 0.976 0.020 0.000
#> SRR1026911 4 0.0692 0.7609 0.004 0.000 0.000 0.976 0.020 0.000
#> SRR1026912 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1026913 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1026914 2 0.6090 0.2165 0.000 0.384 0.000 0.332 0.000 0.284
#> SRR1026915 2 0.6086 0.2221 0.000 0.388 0.000 0.328 0.000 0.284
#> SRR1026916 2 0.6094 0.1924 0.000 0.368 0.000 0.352 0.000 0.280
#> SRR1026917 2 0.6094 0.1829 0.000 0.364 0.000 0.356 0.000 0.280
#> SRR1026918 4 0.3861 0.7001 0.028 0.000 0.000 0.744 0.008 0.220
#> SRR1026919 4 0.3780 0.6985 0.028 0.000 0.000 0.744 0.004 0.224
#> SRR1026920 4 0.4428 0.6436 0.000 0.084 0.000 0.696 0.000 0.220
#> SRR1026921 4 0.4382 0.6435 0.000 0.076 0.000 0.696 0.000 0.228
#> SRR1026922 2 0.6787 0.2334 0.204 0.544 0.004 0.180 0.036 0.032
#> SRR1026923 2 0.7329 0.0812 0.224 0.408 0.004 0.296 0.036 0.032
#> SRR1026924 4 0.1644 0.7557 0.000 0.000 0.000 0.920 0.076 0.004
#> SRR1026925 5 0.3807 0.9869 0.000 0.000 0.368 0.000 0.628 0.004
#> SRR1026926 4 0.1841 0.7621 0.000 0.008 0.000 0.920 0.064 0.008
#> SRR1026927 4 0.2920 0.7456 0.040 0.000 0.000 0.864 0.080 0.016
#> SRR1026928 4 0.4227 0.6830 0.000 0.020 0.000 0.724 0.032 0.224
#> SRR1026929 5 0.3807 0.9869 0.000 0.000 0.368 0.000 0.628 0.004
#> SRR1026930 1 0.6407 0.2213 0.532 0.296 0.004 0.068 0.004 0.096
#> SRR1026931 2 0.4665 0.4156 0.040 0.740 0.064 0.000 0.004 0.152
#> SRR1026932 2 0.1549 0.4996 0.000 0.936 0.000 0.044 0.000 0.020
#> SRR1026933 2 0.1549 0.4996 0.000 0.936 0.000 0.044 0.000 0.020
#> SRR1026934 2 0.5942 0.3459 0.000 0.424 0.000 0.184 0.004 0.388
#> SRR1026935 2 0.5942 0.3459 0.000 0.424 0.000 0.184 0.004 0.388
#> SRR1026936 4 0.1700 0.7544 0.000 0.000 0.000 0.916 0.080 0.004
#> SRR1026937 4 0.1700 0.7544 0.000 0.000 0.000 0.916 0.080 0.004
#> SRR1026938 4 0.6050 0.4349 0.000 0.156 0.000 0.544 0.032 0.268
#> SRR1026939 4 0.5993 0.4485 0.000 0.148 0.000 0.552 0.032 0.268
#> SRR1026940 1 0.3941 0.6503 0.780 0.000 0.004 0.060 0.008 0.148
#> SRR1026941 3 0.1610 0.5858 0.000 0.000 0.916 0.000 0.084 0.000
#> SRR1026942 1 0.1572 0.7273 0.936 0.000 0.000 0.000 0.036 0.028
#> SRR1026943 1 0.4191 0.6491 0.780 0.000 0.000 0.116 0.048 0.056
#> SRR1026944 1 0.1148 0.7308 0.960 0.000 0.004 0.000 0.016 0.020
#> SRR1026945 3 0.3414 0.6307 0.040 0.000 0.840 0.000 0.052 0.068
#> SRR1026947 2 0.5583 0.3976 0.000 0.540 0.000 0.148 0.004 0.308
#> SRR1026946 2 0.6153 0.3378 0.000 0.416 0.000 0.192 0.012 0.380
#> SRR1026948 2 0.1814 0.4808 0.000 0.900 0.000 0.000 0.000 0.100
#> SRR1026949 1 0.4043 0.6382 0.780 0.004 0.004 0.060 0.008 0.144
#> SRR1026950 1 0.1341 0.7271 0.948 0.000 0.000 0.000 0.028 0.024
#> SRR1026951 1 0.4453 0.6113 0.740 0.004 0.004 0.072 0.008 0.172
#> SRR1026952 1 0.0692 0.7308 0.976 0.000 0.000 0.000 0.020 0.004
#> SRR1026953 3 0.1152 0.6488 0.000 0.000 0.952 0.000 0.004 0.044
#> SRR1026954 4 0.2581 0.7410 0.000 0.000 0.000 0.860 0.020 0.120
#> SRR1026955 2 0.1549 0.4996 0.000 0.936 0.000 0.044 0.000 0.020
#> SRR1026956 4 0.5169 0.6642 0.108 0.000 0.000 0.700 0.132 0.060
#> SRR1026957 2 0.7436 0.1655 0.164 0.412 0.000 0.304 0.020 0.100
#> SRR1026958 1 0.1245 0.7269 0.952 0.000 0.000 0.000 0.016 0.032
#> SRR1026959 2 0.3964 0.4305 0.000 0.724 0.044 0.000 0.000 0.232
#> SRR1026960 4 0.5557 0.6509 0.076 0.000 0.000 0.624 0.056 0.244
#> SRR1026961 4 0.3686 0.7298 0.000 0.000 0.000 0.748 0.032 0.220
#> SRR1026962 1 0.2486 0.7322 0.896 0.000 0.040 0.000 0.040 0.024
#> SRR1026963 1 0.2342 0.7222 0.904 0.000 0.032 0.000 0.040 0.024
#> SRR1026964 4 0.1444 0.7573 0.000 0.000 0.000 0.928 0.072 0.000
#> SRR1026965 4 0.1444 0.7573 0.000 0.000 0.000 0.928 0.072 0.000
#> SRR1026966 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1026967 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1026968 4 0.4105 0.7086 0.012 0.008 0.000 0.712 0.012 0.256
#> SRR1026969 4 0.4403 0.7151 0.000 0.000 0.000 0.708 0.096 0.196
#> SRR1026970 4 0.4923 0.7010 0.044 0.000 0.000 0.716 0.140 0.100
#> SRR1026971 4 0.4923 0.7010 0.044 0.000 0.000 0.716 0.140 0.100
#> SRR1026972 1 0.6251 0.0427 0.488 0.008 0.000 0.368 0.080 0.056
#> SRR1026973 1 0.6251 0.0427 0.488 0.008 0.000 0.368 0.080 0.056
#> SRR1026974 4 0.5146 0.5851 0.196 0.000 0.000 0.672 0.104 0.028
#> SRR1026975 4 0.5118 0.5907 0.192 0.000 0.000 0.676 0.104 0.028
#> SRR1026976 4 0.2476 0.7444 0.004 0.000 0.000 0.880 0.024 0.092
#> SRR1026977 4 0.2265 0.7510 0.004 0.000 0.000 0.896 0.024 0.076
#> SRR1026978 1 0.4470 0.6830 0.780 0.004 0.008 0.092 0.044 0.072
#> SRR1026979 3 0.0865 0.6289 0.000 0.000 0.964 0.000 0.036 0.000
#> SRR1026980 1 0.6307 0.5001 0.588 0.004 0.064 0.076 0.020 0.248
#> SRR1026981 3 0.4345 0.5456 0.012 0.000 0.748 0.000 0.112 0.128
#> SRR1026982 4 0.3864 0.7301 0.000 0.000 0.000 0.744 0.048 0.208
#> SRR1026983 4 0.3806 0.7328 0.000 0.000 0.000 0.752 0.048 0.200
#> SRR1026984 4 0.4550 0.6762 0.012 0.008 0.000 0.704 0.044 0.232
#> SRR1026985 4 0.4550 0.6762 0.012 0.008 0.000 0.704 0.044 0.232
#> SRR1026986 1 0.3969 0.7111 0.824 0.040 0.008 0.020 0.032 0.076
#> SRR1026987 1 0.3400 0.6806 0.832 0.000 0.004 0.092 0.008 0.064
#> SRR1026988 1 0.3325 0.7014 0.840 0.000 0.092 0.000 0.032 0.036
#> SRR1026989 3 0.3271 0.6151 0.020 0.000 0.844 0.000 0.076 0.060
#> SRR1026990 4 0.4145 0.7315 0.040 0.000 0.000 0.776 0.136 0.048
#> SRR1026991 5 0.3823 0.8727 0.000 0.000 0.436 0.000 0.564 0.000
#> SRR1026992 1 0.0405 0.7303 0.988 0.000 0.000 0.000 0.008 0.004
#> SRR1026993 1 0.1049 0.7266 0.960 0.000 0.000 0.000 0.032 0.008
#> SRR1026994 1 0.6664 0.5128 0.592 0.008 0.064 0.152 0.024 0.160
#> SRR1026995 1 0.6094 0.5827 0.648 0.004 0.064 0.128 0.020 0.136
#> SRR1026996 4 0.1556 0.7540 0.000 0.000 0.000 0.920 0.080 0.000
#> SRR1026997 4 0.1444 0.7579 0.000 0.000 0.000 0.928 0.072 0.000
#> SRR1026998 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1026999 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1027000 1 0.6027 0.5799 0.644 0.012 0.064 0.052 0.024 0.204
#> SRR1027001 3 0.5469 0.3028 0.360 0.000 0.548 0.000 0.052 0.040
#> SRR1027002 1 0.5706 0.6673 0.700 0.024 0.064 0.020 0.052 0.140
#> SRR1027003 1 0.6262 0.5406 0.620 0.012 0.064 0.072 0.020 0.212
#> SRR1027004 1 0.0951 0.7316 0.968 0.000 0.004 0.008 0.000 0.020
#> SRR1027005 3 0.3241 0.5335 0.000 0.000 0.824 0.000 0.112 0.064
#> SRR1027006 1 0.3598 0.7001 0.816 0.000 0.116 0.000 0.028 0.040
#> SRR1027007 1 0.2488 0.7128 0.888 0.000 0.000 0.020 0.016 0.076
#> SRR1027008 1 0.1148 0.7330 0.960 0.000 0.016 0.000 0.004 0.020
#> SRR1027009 3 0.0000 0.6491 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1027010 1 0.6215 0.1385 0.456 0.000 0.392 0.000 0.060 0.092
#> SRR1027011 3 0.2821 0.5810 0.004 0.000 0.860 0.000 0.096 0.040
#> SRR1177668 1 0.5944 0.3638 0.540 0.000 0.320 0.000 0.052 0.088
#> SRR1177667 1 0.2216 0.7228 0.908 0.000 0.016 0.000 0.052 0.024
#> SRR1177669 3 0.4358 0.5890 0.100 0.000 0.772 0.000 0.056 0.072
#> SRR1177670 3 0.2910 0.6392 0.020 0.000 0.868 0.000 0.044 0.068
#> SRR1177671 2 0.2996 0.4457 0.000 0.772 0.000 0.000 0.000 0.228
#> SRR1177672 3 0.2950 0.6412 0.032 0.000 0.868 0.000 0.036 0.064
#> SRR1177673 1 0.5703 0.5687 0.644 0.004 0.184 0.004 0.036 0.128
#> SRR1177674 3 0.0363 0.6521 0.000 0.000 0.988 0.000 0.000 0.012
#> SRR1177675 1 0.3005 0.7060 0.864 0.000 0.060 0.000 0.052 0.024
#> SRR1177676 3 0.5905 0.4489 0.260 0.000 0.584 0.000 0.060 0.096
#> SRR1177677 1 0.3851 0.6848 0.808 0.000 0.064 0.004 0.024 0.100
#> SRR1177678 1 0.3437 0.6873 0.832 0.000 0.092 0.000 0.052 0.024
#> SRR1177679 2 0.4405 0.4219 0.032 0.704 0.000 0.024 0.000 0.240
#> SRR1177680 1 0.6945 0.2832 0.488 0.020 0.064 0.076 0.020 0.332
#> SRR1177681 1 0.4334 0.6722 0.776 0.000 0.084 0.012 0.020 0.108
#> SRR1177682 1 0.5193 0.6452 0.720 0.008 0.064 0.028 0.024 0.156
#> SRR1177683 2 0.3354 0.4423 0.000 0.752 0.000 0.004 0.004 0.240
#> SRR1177684 2 0.4861 0.4075 0.036 0.684 0.000 0.040 0.004 0.236
#> SRR1177685 1 0.2216 0.7229 0.908 0.000 0.016 0.000 0.052 0.024
#> SRR1177686 3 0.3241 0.5335 0.000 0.000 0.824 0.000 0.112 0.064
#> SRR1177687 1 0.7213 0.0349 0.412 0.032 0.064 0.076 0.020 0.396
#> SRR1177688 1 0.4444 0.6658 0.768 0.004 0.064 0.008 0.024 0.132
#> SRR1177689 1 0.6362 0.5682 0.636 0.012 0.064 0.120 0.024 0.144
#> SRR1177690 1 0.2819 0.7275 0.876 0.000 0.060 0.000 0.032 0.032
#> SRR1177691 2 0.4818 0.4099 0.032 0.684 0.000 0.040 0.004 0.240
#> SRR1177692 1 0.6903 0.1705 0.448 0.012 0.064 0.080 0.020 0.376
#> SRR1177693 2 0.5937 0.3465 0.000 0.432 0.000 0.184 0.004 0.380
#> SRR1177694 4 0.5238 0.5395 0.000 0.128 0.000 0.624 0.008 0.240
#> SRR1177695 1 0.4055 0.6726 0.780 0.000 0.064 0.000 0.024 0.132
#> SRR1177697 1 0.1390 0.7279 0.948 0.000 0.004 0.000 0.032 0.016
#> SRR1177696 1 0.6074 0.5690 0.632 0.000 0.100 0.052 0.028 0.188
#> SRR1177698 3 0.2821 0.5810 0.004 0.000 0.860 0.000 0.096 0.040
#> SRR1177700 1 0.4156 0.6256 0.768 0.000 0.004 0.132 0.008 0.088
#> SRR1177701 4 0.5569 0.6553 0.092 0.000 0.000 0.668 0.124 0.116
#> SRR1177702 1 0.6527 0.4640 0.560 0.000 0.152 0.004 0.092 0.192
#> SRR1177703 1 0.6646 0.0392 0.480 0.004 0.016 0.352 0.088 0.060
#> SRR1177704 1 0.8225 0.1094 0.344 0.000 0.204 0.080 0.096 0.276
#> SRR1177705 1 0.3549 0.6778 0.828 0.000 0.000 0.084 0.032 0.056
#> SRR1177706 2 0.7898 0.1983 0.076 0.456 0.064 0.160 0.012 0.232
#> SRR1177707 4 0.6781 0.3499 0.276 0.004 0.000 0.496 0.120 0.104
#> SRR1177708 1 0.4431 0.5980 0.744 0.000 0.004 0.124 0.008 0.120
#> SRR1177709 1 0.4070 0.6840 0.792 0.000 0.096 0.004 0.024 0.084
#> SRR1177710 3 0.5957 0.4409 0.240 0.000 0.592 0.000 0.096 0.072
#> SRR1177711 1 0.2944 0.7081 0.868 0.000 0.056 0.000 0.052 0.024
#> SRR1177712 1 0.6469 0.5307 0.608 0.004 0.064 0.152 0.024 0.148
#> SRR1177714 2 0.2996 0.4457 0.000 0.772 0.000 0.000 0.000 0.228
#> SRR1177713 3 0.6007 0.4889 0.212 0.000 0.600 0.000 0.112 0.076
#> SRR1177715 2 0.7836 0.0567 0.144 0.380 0.064 0.064 0.008 0.340
#> SRR1177716 3 0.2762 0.5822 0.000 0.000 0.860 0.000 0.092 0.048
#> SRR1177717 1 0.0935 0.7268 0.964 0.000 0.000 0.000 0.032 0.004
#> SRR1177718 1 0.2486 0.7201 0.896 0.000 0.040 0.000 0.040 0.024
#> SRR1177719 1 0.5828 0.2573 0.596 0.000 0.020 0.272 0.088 0.024
#> SRR1177720 3 0.4304 0.3740 0.004 0.000 0.724 0.000 0.196 0.076
#> SRR1177721 2 0.2300 0.4702 0.000 0.856 0.000 0.000 0.000 0.144
#> SRR1177722 2 0.2333 0.4878 0.000 0.884 0.000 0.024 0.000 0.092
#> SRR1177723 1 0.1908 0.7259 0.924 0.000 0.012 0.000 0.044 0.020
#> SRR1177725 1 0.1297 0.7271 0.948 0.000 0.000 0.000 0.040 0.012
#> SRR1177724 1 0.0935 0.7268 0.964 0.000 0.000 0.000 0.032 0.004
#> SRR1177726 3 0.0000 0.6491 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177727 1 0.2554 0.7189 0.892 0.000 0.044 0.000 0.040 0.024
#> SRR1177728 3 0.0000 0.6491 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177729 1 0.2394 0.7238 0.900 0.000 0.048 0.000 0.032 0.020
#> SRR1177730 3 0.3136 0.6383 0.036 0.000 0.856 0.000 0.036 0.072
#> SRR1177731 1 0.4538 0.6274 0.708 0.000 0.200 0.000 0.008 0.084
#> SRR1177732 1 0.5054 0.5652 0.664 0.000 0.240 0.000 0.052 0.044
#> SRR1177733 1 0.2770 0.7116 0.880 0.000 0.004 0.036 0.016 0.064
#> SRR1177734 1 0.1218 0.7276 0.956 0.000 0.004 0.000 0.012 0.028
#> SRR1177735 1 0.2917 0.7047 0.868 0.000 0.004 0.040 0.012 0.076
#> SRR1177736 1 0.1138 0.7315 0.960 0.000 0.004 0.012 0.000 0.024
#> SRR1177737 4 0.5054 0.6117 0.000 0.036 0.000 0.632 0.044 0.288
#> SRR1177738 5 0.3672 0.9905 0.000 0.000 0.368 0.000 0.632 0.000
#> SRR1177739 1 0.1261 0.7289 0.956 0.000 0.004 0.004 0.008 0.028
#> SRR1177740 1 0.2663 0.7086 0.880 0.000 0.000 0.040 0.012 0.068
#> SRR1177741 1 0.3437 0.6873 0.832 0.000 0.092 0.000 0.052 0.024
#> SRR1177742 3 0.0146 0.6480 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1177743 1 0.5960 0.4242 0.552 0.000 0.300 0.000 0.052 0.096
#> SRR1177744 3 0.5618 0.1800 0.380 0.000 0.520 0.000 0.056 0.044
#> SRR1177745 1 0.6872 0.2994 0.492 0.016 0.064 0.076 0.020 0.332
#> SRR1177746 6 0.7316 -0.4093 0.364 0.044 0.064 0.072 0.020 0.436
#> SRR1177747 3 0.6267 0.1566 0.264 0.000 0.480 0.000 0.236 0.020
#> SRR1177748 3 0.1204 0.6141 0.000 0.000 0.944 0.000 0.056 0.000
#> SRR1177749 1 0.2486 0.7200 0.896 0.000 0.040 0.000 0.040 0.024
#> SRR1177750 1 0.4107 0.6913 0.792 0.000 0.072 0.000 0.052 0.084
#> SRR1177751 1 0.4833 0.6817 0.756 0.024 0.064 0.000 0.052 0.104
#> SRR1177752 1 0.1549 0.7263 0.936 0.000 0.000 0.000 0.044 0.020
#> SRR1177753 1 0.0748 0.7300 0.976 0.000 0.004 0.000 0.004 0.016
#> SRR1177754 1 0.5941 0.4756 0.576 0.000 0.268 0.000 0.060 0.096
#> SRR1177755 1 0.1755 0.7301 0.932 0.000 0.028 0.000 0.032 0.008
#> SRR1177756 1 0.2741 0.7325 0.892 0.004 0.024 0.008 0.032 0.040
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["SD", "NMF"]
# you can also extract it by
# res = res_list["SD:NMF"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'SD' method.
#> Subgroups are detected by 'NMF' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.754 0.859 0.942 0.4755 0.517 0.517
#> 3 3 0.918 0.914 0.966 0.3467 0.692 0.480
#> 4 4 0.609 0.607 0.798 0.1377 0.819 0.544
#> 5 5 0.607 0.602 0.808 0.0406 0.955 0.835
#> 6 6 0.588 0.504 0.736 0.0400 0.958 0.838
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.9524 0.000 1.000
#> SRR1026871 2 0.0000 0.9524 0.000 1.000
#> SRR1026872 2 0.0000 0.9524 0.000 1.000
#> SRR1026873 1 0.0000 0.9097 1.000 0.000
#> SRR1026874 1 0.0000 0.9097 1.000 0.000
#> SRR1026875 2 0.0000 0.9524 0.000 1.000
#> SRR1026876 2 0.0000 0.9524 0.000 1.000
#> SRR1026877 1 0.0000 0.9097 1.000 0.000
#> SRR1026878 1 0.0000 0.9097 1.000 0.000
#> SRR1026879 1 0.0000 0.9097 1.000 0.000
#> SRR1026880 1 0.0000 0.9097 1.000 0.000
#> SRR1026881 2 0.0000 0.9524 0.000 1.000
#> SRR1026882 2 0.0000 0.9524 0.000 1.000
#> SRR1026883 2 0.0000 0.9524 0.000 1.000
#> SRR1026884 2 0.0000 0.9524 0.000 1.000
#> SRR1026885 2 0.0376 0.9498 0.004 0.996
#> SRR1026886 2 0.0672 0.9470 0.008 0.992
#> SRR1026887 1 0.0000 0.9097 1.000 0.000
#> SRR1026888 1 0.0000 0.9097 1.000 0.000
#> SRR1026889 2 0.0000 0.9524 0.000 1.000
#> SRR1026890 2 0.0000 0.9524 0.000 1.000
#> SRR1026891 1 0.9775 0.3511 0.588 0.412
#> SRR1026892 1 0.9881 0.2819 0.564 0.436
#> SRR1026893 1 0.0000 0.9097 1.000 0.000
#> SRR1026894 1 0.0000 0.9097 1.000 0.000
#> SRR1026895 2 0.0000 0.9524 0.000 1.000
#> SRR1026896 2 0.0000 0.9524 0.000 1.000
#> SRR1026897 2 0.8081 0.6282 0.248 0.752
#> SRR1026898 1 0.0000 0.9097 1.000 0.000
#> SRR1026899 1 0.0000 0.9097 1.000 0.000
#> SRR1026900 2 0.0000 0.9524 0.000 1.000
#> SRR1026901 2 0.0672 0.9464 0.008 0.992
#> SRR1026902 2 0.6438 0.7825 0.164 0.836
#> SRR1026903 2 0.6531 0.7771 0.168 0.832
#> SRR1026904 2 0.0000 0.9524 0.000 1.000
#> SRR1026905 2 0.0000 0.9524 0.000 1.000
#> SRR1026906 2 0.0000 0.9524 0.000 1.000
#> SRR1026907 2 0.0000 0.9524 0.000 1.000
#> SRR1026908 2 0.0000 0.9524 0.000 1.000
#> SRR1026909 2 0.0000 0.9524 0.000 1.000
#> SRR1026910 2 0.0000 0.9524 0.000 1.000
#> SRR1026911 2 0.0000 0.9524 0.000 1.000
#> SRR1026912 1 0.9209 0.5032 0.664 0.336
#> SRR1026913 1 0.8144 0.6490 0.748 0.252
#> SRR1026914 2 0.0000 0.9524 0.000 1.000
#> SRR1026915 2 0.0000 0.9524 0.000 1.000
#> SRR1026916 2 0.0000 0.9524 0.000 1.000
#> SRR1026917 2 0.0000 0.9524 0.000 1.000
#> SRR1026918 2 0.0000 0.9524 0.000 1.000
#> SRR1026919 2 0.0000 0.9524 0.000 1.000
#> SRR1026920 2 0.0000 0.9524 0.000 1.000
#> SRR1026921 2 0.0000 0.9524 0.000 1.000
#> SRR1026922 2 0.0000 0.9524 0.000 1.000
#> SRR1026923 2 0.0000 0.9524 0.000 1.000
#> SRR1026924 2 0.0000 0.9524 0.000 1.000
#> SRR1026925 1 0.0000 0.9097 1.000 0.000
#> SRR1026926 2 0.0000 0.9524 0.000 1.000
#> SRR1026927 1 0.8713 0.6039 0.708 0.292
#> SRR1026928 2 0.0000 0.9524 0.000 1.000
#> SRR1026929 1 0.0000 0.9097 1.000 0.000
#> SRR1026930 2 0.0000 0.9524 0.000 1.000
#> SRR1026931 2 0.0000 0.9524 0.000 1.000
#> SRR1026932 2 0.0000 0.9524 0.000 1.000
#> SRR1026933 2 0.0000 0.9524 0.000 1.000
#> SRR1026934 2 0.0000 0.9524 0.000 1.000
#> SRR1026935 2 0.0000 0.9524 0.000 1.000
#> SRR1026936 2 0.0000 0.9524 0.000 1.000
#> SRR1026937 2 0.0000 0.9524 0.000 1.000
#> SRR1026938 2 0.0000 0.9524 0.000 1.000
#> SRR1026939 2 0.0000 0.9524 0.000 1.000
#> SRR1026940 2 0.9248 0.4605 0.340 0.660
#> SRR1026941 1 0.0000 0.9097 1.000 0.000
#> SRR1026942 2 0.9977 0.0449 0.472 0.528
#> SRR1026943 2 0.0000 0.9524 0.000 1.000
#> SRR1026944 1 0.0000 0.9097 1.000 0.000
#> SRR1026945 1 0.0000 0.9097 1.000 0.000
#> SRR1026947 2 0.0000 0.9524 0.000 1.000
#> SRR1026946 2 0.0000 0.9524 0.000 1.000
#> SRR1026948 2 0.0000 0.9524 0.000 1.000
#> SRR1026949 2 0.0000 0.9524 0.000 1.000
#> SRR1026950 2 0.9248 0.4598 0.340 0.660
#> SRR1026951 2 0.0000 0.9524 0.000 1.000
#> SRR1026952 1 0.4690 0.8382 0.900 0.100
#> SRR1026953 1 0.0000 0.9097 1.000 0.000
#> SRR1026954 2 0.0000 0.9524 0.000 1.000
#> SRR1026955 2 0.0000 0.9524 0.000 1.000
#> SRR1026956 2 0.9795 0.2482 0.416 0.584
#> SRR1026957 2 0.0000 0.9524 0.000 1.000
#> SRR1026958 2 0.6148 0.7987 0.152 0.848
#> SRR1026959 2 0.0000 0.9524 0.000 1.000
#> SRR1026960 2 0.0000 0.9524 0.000 1.000
#> SRR1026961 2 0.0000 0.9524 0.000 1.000
#> SRR1026962 1 0.9286 0.5088 0.656 0.344
#> SRR1026963 1 0.0000 0.9097 1.000 0.000
#> SRR1026964 2 0.0000 0.9524 0.000 1.000
#> SRR1026965 2 0.0000 0.9524 0.000 1.000
#> SRR1026966 1 0.0000 0.9097 1.000 0.000
#> SRR1026967 1 0.0000 0.9097 1.000 0.000
#> SRR1026968 2 0.0000 0.9524 0.000 1.000
#> SRR1026969 2 0.0000 0.9524 0.000 1.000
#> SRR1026970 2 0.0376 0.9498 0.004 0.996
#> SRR1026971 2 0.0376 0.9498 0.004 0.996
#> SRR1026972 2 0.0000 0.9524 0.000 1.000
#> SRR1026973 2 0.0000 0.9524 0.000 1.000
#> SRR1026974 1 0.9608 0.4220 0.616 0.384
#> SRR1026975 1 0.9580 0.4315 0.620 0.380
#> SRR1026976 2 0.4939 0.8525 0.108 0.892
#> SRR1026977 2 0.4161 0.8785 0.084 0.916
#> SRR1026978 2 0.0000 0.9524 0.000 1.000
#> SRR1026979 1 0.0000 0.9097 1.000 0.000
#> SRR1026980 2 0.0000 0.9524 0.000 1.000
#> SRR1026981 1 0.1184 0.8990 0.984 0.016
#> SRR1026982 2 0.0000 0.9524 0.000 1.000
#> SRR1026983 2 0.0000 0.9524 0.000 1.000
#> SRR1026984 2 0.0000 0.9524 0.000 1.000
#> SRR1026985 2 0.0000 0.9524 0.000 1.000
#> SRR1026986 2 0.0000 0.9524 0.000 1.000
#> SRR1026987 2 0.0376 0.9498 0.004 0.996
#> SRR1026988 1 0.0000 0.9097 1.000 0.000
#> SRR1026989 1 0.0000 0.9097 1.000 0.000
#> SRR1026990 2 0.0672 0.9471 0.008 0.992
#> SRR1026991 1 0.0000 0.9097 1.000 0.000
#> SRR1026992 1 0.6048 0.7919 0.852 0.148
#> SRR1026993 2 0.9129 0.4885 0.328 0.672
#> SRR1026994 2 0.0000 0.9524 0.000 1.000
#> SRR1026995 2 0.4815 0.8595 0.104 0.896
#> SRR1026996 2 0.0672 0.9470 0.008 0.992
#> SRR1026997 2 0.0938 0.9440 0.012 0.988
#> SRR1026998 1 0.0000 0.9097 1.000 0.000
#> SRR1026999 1 0.0000 0.9097 1.000 0.000
#> SRR1027000 2 0.4022 0.8851 0.080 0.920
#> SRR1027001 1 0.0000 0.9097 1.000 0.000
#> SRR1027002 2 0.0000 0.9524 0.000 1.000
#> SRR1027003 2 0.0000 0.9524 0.000 1.000
#> SRR1027004 1 0.0000 0.9097 1.000 0.000
#> SRR1027005 1 0.0000 0.9097 1.000 0.000
#> SRR1027006 1 0.0000 0.9097 1.000 0.000
#> SRR1027007 2 0.0000 0.9524 0.000 1.000
#> SRR1027008 2 0.6973 0.7485 0.188 0.812
#> SRR1027009 1 0.0000 0.9097 1.000 0.000
#> SRR1027010 1 0.0000 0.9097 1.000 0.000
#> SRR1027011 1 0.0000 0.9097 1.000 0.000
#> SRR1177668 1 0.0000 0.9097 1.000 0.000
#> SRR1177667 1 0.4815 0.8347 0.896 0.104
#> SRR1177669 1 0.0000 0.9097 1.000 0.000
#> SRR1177670 1 0.0000 0.9097 1.000 0.000
#> SRR1177671 2 0.0000 0.9524 0.000 1.000
#> SRR1177672 1 0.0000 0.9097 1.000 0.000
#> SRR1177673 1 0.0000 0.9097 1.000 0.000
#> SRR1177674 1 0.0000 0.9097 1.000 0.000
#> SRR1177675 1 0.0376 0.9073 0.996 0.004
#> SRR1177676 1 0.0000 0.9097 1.000 0.000
#> SRR1177677 2 0.8608 0.5836 0.284 0.716
#> SRR1177678 1 0.0000 0.9097 1.000 0.000
#> SRR1177679 2 0.0000 0.9524 0.000 1.000
#> SRR1177680 2 0.0000 0.9524 0.000 1.000
#> SRR1177681 1 0.8909 0.5757 0.692 0.308
#> SRR1177682 2 0.0000 0.9524 0.000 1.000
#> SRR1177683 2 0.0000 0.9524 0.000 1.000
#> SRR1177684 2 0.0000 0.9524 0.000 1.000
#> SRR1177685 1 0.0000 0.9097 1.000 0.000
#> SRR1177686 1 0.0000 0.9097 1.000 0.000
#> SRR1177687 2 0.0000 0.9524 0.000 1.000
#> SRR1177688 1 0.9775 0.3490 0.588 0.412
#> SRR1177689 2 0.0000 0.9524 0.000 1.000
#> SRR1177690 2 0.3584 0.8947 0.068 0.932
#> SRR1177691 2 0.0000 0.9524 0.000 1.000
#> SRR1177692 2 0.0000 0.9524 0.000 1.000
#> SRR1177693 2 0.0000 0.9524 0.000 1.000
#> SRR1177694 2 0.0000 0.9524 0.000 1.000
#> SRR1177695 2 0.0000 0.9524 0.000 1.000
#> SRR1177697 2 0.4161 0.8786 0.084 0.916
#> SRR1177696 1 0.0000 0.9097 1.000 0.000
#> SRR1177698 1 0.0000 0.9097 1.000 0.000
#> SRR1177700 1 0.9552 0.4345 0.624 0.376
#> SRR1177701 2 0.5059 0.8479 0.112 0.888
#> SRR1177702 2 0.0000 0.9524 0.000 1.000
#> SRR1177703 2 0.8267 0.6296 0.260 0.740
#> SRR1177704 2 0.0000 0.9524 0.000 1.000
#> SRR1177705 2 0.2603 0.9172 0.044 0.956
#> SRR1177706 2 0.0000 0.9524 0.000 1.000
#> SRR1177707 2 0.7950 0.6654 0.240 0.760
#> SRR1177708 1 0.7528 0.7126 0.784 0.216
#> SRR1177709 1 0.0000 0.9097 1.000 0.000
#> SRR1177710 1 0.0000 0.9097 1.000 0.000
#> SRR1177711 1 0.0000 0.9097 1.000 0.000
#> SRR1177712 2 0.0000 0.9524 0.000 1.000
#> SRR1177714 2 0.0000 0.9524 0.000 1.000
#> SRR1177713 2 0.0000 0.9524 0.000 1.000
#> SRR1177715 2 0.0000 0.9524 0.000 1.000
#> SRR1177716 1 0.0000 0.9097 1.000 0.000
#> SRR1177717 1 0.9580 0.4312 0.620 0.380
#> SRR1177718 1 0.0000 0.9097 1.000 0.000
#> SRR1177719 1 0.9988 0.1337 0.520 0.480
#> SRR1177720 1 0.9710 0.3615 0.600 0.400
#> SRR1177721 2 0.0000 0.9524 0.000 1.000
#> SRR1177722 2 0.0000 0.9524 0.000 1.000
#> SRR1177723 2 0.9963 0.0771 0.464 0.536
#> SRR1177725 1 0.4562 0.8415 0.904 0.096
#> SRR1177724 1 0.9944 0.2166 0.544 0.456
#> SRR1177726 1 0.0000 0.9097 1.000 0.000
#> SRR1177727 1 0.0000 0.9097 1.000 0.000
#> SRR1177728 1 0.0000 0.9097 1.000 0.000
#> SRR1177729 2 0.9815 0.2352 0.420 0.580
#> SRR1177730 1 0.0000 0.9097 1.000 0.000
#> SRR1177731 1 0.0000 0.9097 1.000 0.000
#> SRR1177732 1 0.0000 0.9097 1.000 0.000
#> SRR1177733 2 0.1184 0.9408 0.016 0.984
#> SRR1177734 1 0.9795 0.3401 0.584 0.416
#> SRR1177735 2 0.0000 0.9524 0.000 1.000
#> SRR1177736 1 0.0000 0.9097 1.000 0.000
#> SRR1177737 2 0.0000 0.9524 0.000 1.000
#> SRR1177738 1 0.9522 0.4268 0.628 0.372
#> SRR1177739 1 0.4431 0.8449 0.908 0.092
#> SRR1177740 2 0.0938 0.9440 0.012 0.988
#> SRR1177741 1 0.0000 0.9097 1.000 0.000
#> SRR1177742 1 0.0000 0.9097 1.000 0.000
#> SRR1177743 1 0.0000 0.9097 1.000 0.000
#> SRR1177744 1 0.0000 0.9097 1.000 0.000
#> SRR1177745 2 0.0000 0.9524 0.000 1.000
#> SRR1177746 2 0.0000 0.9524 0.000 1.000
#> SRR1177747 1 0.0000 0.9097 1.000 0.000
#> SRR1177748 1 0.0000 0.9097 1.000 0.000
#> SRR1177749 1 0.0000 0.9097 1.000 0.000
#> SRR1177750 2 0.9815 0.2350 0.420 0.580
#> SRR1177751 2 0.0000 0.9524 0.000 1.000
#> SRR1177752 1 0.8861 0.5836 0.696 0.304
#> SRR1177753 1 0.3114 0.8724 0.944 0.056
#> SRR1177754 1 0.0000 0.9097 1.000 0.000
#> SRR1177755 2 0.2948 0.9098 0.052 0.948
#> SRR1177756 2 0.0000 0.9524 0.000 1.000
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026874 1 0.3686 0.8103 0.860 0.000 0.140
#> SRR1026875 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026879 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026880 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026881 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026883 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026884 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026885 2 0.3551 0.8325 0.132 0.868 0.000
#> SRR1026886 2 0.3686 0.8219 0.140 0.860 0.000
#> SRR1026887 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026889 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026890 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026891 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026892 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026893 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026895 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026896 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026897 3 0.5678 0.5452 0.000 0.316 0.684
#> SRR1026898 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026899 1 0.0424 0.9299 0.992 0.000 0.008
#> SRR1026900 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026901 2 0.0424 0.9668 0.000 0.992 0.008
#> SRR1026902 1 0.6307 0.0871 0.512 0.488 0.000
#> SRR1026903 1 0.6225 0.2739 0.568 0.432 0.000
#> SRR1026904 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026905 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026906 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026910 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026911 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026912 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026914 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026918 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026919 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026920 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026924 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026925 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026926 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026927 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026928 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026929 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026930 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026931 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026936 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026937 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026938 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026940 1 0.6244 0.2557 0.560 0.440 0.000
#> SRR1026941 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026942 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026945 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026947 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026949 2 0.0424 0.9666 0.008 0.992 0.000
#> SRR1026950 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026951 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026952 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026954 2 0.3551 0.8325 0.132 0.868 0.000
#> SRR1026955 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026957 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026958 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026960 1 0.4931 0.6986 0.768 0.232 0.000
#> SRR1026961 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026962 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026964 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026965 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026966 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026968 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026969 1 0.6302 0.1234 0.520 0.480 0.000
#> SRR1026970 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026971 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026972 1 0.5431 0.6155 0.716 0.284 0.000
#> SRR1026973 1 0.5968 0.4558 0.636 0.364 0.000
#> SRR1026974 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026976 2 0.5810 0.4689 0.336 0.664 0.000
#> SRR1026977 2 0.5948 0.4091 0.360 0.640 0.000
#> SRR1026978 1 0.0592 0.9258 0.988 0.012 0.000
#> SRR1026979 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026980 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026981 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026982 2 0.1163 0.9470 0.028 0.972 0.000
#> SRR1026983 2 0.1031 0.9510 0.024 0.976 0.000
#> SRR1026984 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026985 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026986 1 0.4452 0.7482 0.808 0.192 0.000
#> SRR1026987 1 0.2448 0.8696 0.924 0.076 0.000
#> SRR1026988 1 0.2261 0.8820 0.932 0.000 0.068
#> SRR1026989 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026990 1 0.0237 0.9324 0.996 0.004 0.000
#> SRR1026991 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1026994 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026995 1 0.0237 0.9323 0.996 0.004 0.000
#> SRR1026996 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026997 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1026998 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1027000 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1027001 3 0.2625 0.8958 0.084 0.000 0.916
#> SRR1027002 2 0.6026 0.3852 0.376 0.624 0.000
#> SRR1027003 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1027004 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1027006 1 0.6280 0.2000 0.540 0.000 0.460
#> SRR1027007 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1027008 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1027010 3 0.1163 0.9590 0.028 0.000 0.972
#> SRR1027011 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177668 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177667 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177669 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177670 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177671 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177672 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177673 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177674 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177676 1 0.6225 0.2828 0.568 0.000 0.432
#> SRR1177677 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177679 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177680 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177681 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177682 1 0.3551 0.8104 0.868 0.132 0.000
#> SRR1177683 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177687 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177688 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177689 2 0.4399 0.7596 0.188 0.812 0.000
#> SRR1177690 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177692 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177693 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177695 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177697 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177696 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177698 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177700 1 0.4261 0.8039 0.848 0.012 0.140
#> SRR1177701 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177702 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177703 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177704 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177705 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177706 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177707 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177708 1 0.8645 0.4120 0.568 0.132 0.300
#> SRR1177709 1 0.2066 0.8893 0.940 0.000 0.060
#> SRR1177710 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177711 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177712 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177714 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177713 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177715 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177716 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177720 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177727 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177728 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177730 3 0.0237 0.9820 0.004 0.000 0.996
#> SRR1177731 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177732 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177733 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177735 2 0.6286 0.1154 0.464 0.536 0.000
#> SRR1177736 1 0.1031 0.9184 0.976 0.000 0.024
#> SRR1177737 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177738 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177739 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177741 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177742 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177743 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177744 3 0.3941 0.7986 0.156 0.000 0.844
#> SRR1177745 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177746 2 0.0000 0.9740 0.000 1.000 0.000
#> SRR1177747 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177748 3 0.0000 0.9855 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177754 1 0.4452 0.7471 0.808 0.000 0.192
#> SRR1177755 1 0.0000 0.9353 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.9353 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.4500 0.46806 0.000 0.684 0.000 0.316
#> SRR1026871 2 0.4522 0.46079 0.000 0.680 0.000 0.320
#> SRR1026872 2 0.4477 0.47572 0.000 0.688 0.000 0.312
#> SRR1026873 1 0.3024 0.76828 0.852 0.000 0.000 0.148
#> SRR1026874 1 0.3074 0.69332 0.848 0.000 0.152 0.000
#> SRR1026875 2 0.2216 0.72824 0.000 0.908 0.000 0.092
#> SRR1026876 2 0.2216 0.72824 0.000 0.908 0.000 0.092
#> SRR1026877 3 0.0336 0.95307 0.000 0.000 0.992 0.008
#> SRR1026878 3 0.0336 0.95307 0.000 0.000 0.992 0.008
#> SRR1026879 1 0.0376 0.76364 0.992 0.000 0.004 0.004
#> SRR1026880 1 0.0376 0.76513 0.992 0.000 0.004 0.004
#> SRR1026881 4 0.4999 0.12543 0.000 0.492 0.000 0.508
#> SRR1026882 2 0.4996 -0.05487 0.000 0.516 0.000 0.484
#> SRR1026883 4 0.4985 0.19772 0.000 0.468 0.000 0.532
#> SRR1026884 4 0.4989 0.18438 0.000 0.472 0.000 0.528
#> SRR1026885 4 0.3539 0.59925 0.004 0.176 0.000 0.820
#> SRR1026886 4 0.3539 0.59925 0.004 0.176 0.000 0.820
#> SRR1026887 3 0.1022 0.93957 0.000 0.000 0.968 0.032
#> SRR1026888 3 0.1022 0.93957 0.000 0.000 0.968 0.032
#> SRR1026889 2 0.4624 0.42348 0.000 0.660 0.000 0.340
#> SRR1026890 4 0.5168 0.02818 0.000 0.496 0.004 0.500
#> SRR1026891 4 0.3610 0.42039 0.200 0.000 0.000 0.800
#> SRR1026892 4 0.3569 0.42764 0.196 0.000 0.000 0.804
#> SRR1026893 3 0.0469 0.95139 0.000 0.000 0.988 0.012
#> SRR1026894 3 0.0592 0.94934 0.000 0.000 0.984 0.016
#> SRR1026895 4 0.4989 0.19177 0.000 0.472 0.000 0.528
#> SRR1026896 4 0.4985 0.20455 0.000 0.468 0.000 0.532
#> SRR1026897 2 0.4781 0.31360 0.000 0.660 0.336 0.004
#> SRR1026898 1 0.1082 0.75785 0.972 0.020 0.004 0.004
#> SRR1026899 1 0.2840 0.76458 0.900 0.000 0.056 0.044
#> SRR1026900 2 0.0592 0.74545 0.000 0.984 0.000 0.016
#> SRR1026901 2 0.2466 0.72219 0.000 0.916 0.056 0.028
#> SRR1026902 4 0.2924 0.59422 0.016 0.100 0.000 0.884
#> SRR1026903 4 0.2593 0.58903 0.016 0.080 0.000 0.904
#> SRR1026904 4 0.4981 0.22039 0.000 0.464 0.000 0.536
#> SRR1026905 4 0.4981 0.22039 0.000 0.464 0.000 0.536
#> SRR1026906 2 0.3569 0.64108 0.000 0.804 0.000 0.196
#> SRR1026907 2 0.3486 0.65031 0.000 0.812 0.000 0.188
#> SRR1026908 2 0.2469 0.71642 0.000 0.892 0.000 0.108
#> SRR1026909 2 0.2216 0.72592 0.000 0.908 0.000 0.092
#> SRR1026910 4 0.4564 0.49283 0.000 0.328 0.000 0.672
#> SRR1026911 4 0.4522 0.50372 0.000 0.320 0.000 0.680
#> SRR1026912 3 0.2647 0.85106 0.000 0.000 0.880 0.120
#> SRR1026913 3 0.2647 0.85137 0.000 0.000 0.880 0.120
#> SRR1026914 2 0.4761 0.34829 0.000 0.628 0.000 0.372
#> SRR1026915 2 0.4746 0.35834 0.000 0.632 0.000 0.368
#> SRR1026916 2 0.4746 0.35681 0.000 0.632 0.000 0.368
#> SRR1026917 2 0.4761 0.34729 0.000 0.628 0.000 0.372
#> SRR1026918 4 0.4992 0.17822 0.000 0.476 0.000 0.524
#> SRR1026919 4 0.4996 0.15323 0.000 0.484 0.000 0.516
#> SRR1026920 2 0.4961 0.10384 0.000 0.552 0.000 0.448
#> SRR1026921 2 0.4967 0.08806 0.000 0.548 0.000 0.452
#> SRR1026922 2 0.0921 0.74512 0.000 0.972 0.000 0.028
#> SRR1026923 2 0.1022 0.74501 0.000 0.968 0.000 0.032
#> SRR1026924 4 0.4989 0.19328 0.000 0.472 0.000 0.528
#> SRR1026925 3 0.0592 0.94934 0.000 0.000 0.984 0.016
#> SRR1026926 4 0.4994 0.16824 0.000 0.480 0.000 0.520
#> SRR1026927 4 0.3266 0.45355 0.168 0.000 0.000 0.832
#> SRR1026928 4 0.4941 0.28934 0.000 0.436 0.000 0.564
#> SRR1026929 3 0.0336 0.95307 0.000 0.000 0.992 0.008
#> SRR1026930 2 0.0188 0.74450 0.000 0.996 0.000 0.004
#> SRR1026931 2 0.0000 0.74376 0.000 1.000 0.000 0.000
#> SRR1026932 2 0.1118 0.74456 0.000 0.964 0.000 0.036
#> SRR1026933 2 0.1118 0.74456 0.000 0.964 0.000 0.036
#> SRR1026934 2 0.3311 0.66596 0.000 0.828 0.000 0.172
#> SRR1026935 2 0.3219 0.67329 0.000 0.836 0.000 0.164
#> SRR1026936 4 0.4454 0.51639 0.000 0.308 0.000 0.692
#> SRR1026937 4 0.4477 0.51181 0.000 0.312 0.000 0.688
#> SRR1026938 2 0.4977 0.04708 0.000 0.540 0.000 0.460
#> SRR1026939 2 0.4967 0.07710 0.000 0.548 0.000 0.452
#> SRR1026940 1 0.8152 -0.02012 0.384 0.308 0.008 0.300
#> SRR1026941 3 0.0188 0.95392 0.000 0.000 0.996 0.004
#> SRR1026942 1 0.4222 0.70851 0.728 0.000 0.000 0.272
#> SRR1026943 1 0.4277 0.70486 0.720 0.000 0.000 0.280
#> SRR1026944 1 0.4888 0.55140 0.588 0.000 0.000 0.412
#> SRR1026945 3 0.0336 0.95202 0.008 0.000 0.992 0.000
#> SRR1026947 2 0.2973 0.69096 0.000 0.856 0.000 0.144
#> SRR1026946 2 0.4331 0.51534 0.000 0.712 0.000 0.288
#> SRR1026948 2 0.0188 0.74462 0.000 0.996 0.000 0.004
#> SRR1026949 2 0.4844 0.57384 0.108 0.784 0.000 0.108
#> SRR1026950 1 0.4925 0.52220 0.572 0.000 0.000 0.428
#> SRR1026951 2 0.1022 0.74351 0.000 0.968 0.000 0.032
#> SRR1026952 1 0.4804 0.60005 0.616 0.000 0.000 0.384
#> SRR1026953 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.3751 0.59453 0.000 0.196 0.004 0.800
#> SRR1026955 2 0.1716 0.73816 0.000 0.936 0.000 0.064
#> SRR1026956 4 0.4967 -0.25926 0.452 0.000 0.000 0.548
#> SRR1026957 2 0.4522 0.46450 0.000 0.680 0.000 0.320
#> SRR1026958 1 0.4643 0.65528 0.656 0.000 0.000 0.344
#> SRR1026959 2 0.0000 0.74376 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.4153 0.59371 0.048 0.132 0.000 0.820
#> SRR1026961 4 0.4843 0.38035 0.000 0.396 0.000 0.604
#> SRR1026962 1 0.4679 0.64555 0.648 0.000 0.000 0.352
#> SRR1026963 1 0.4564 0.67365 0.672 0.000 0.000 0.328
#> SRR1026964 4 0.4564 0.49482 0.000 0.328 0.000 0.672
#> SRR1026965 4 0.4624 0.47665 0.000 0.340 0.000 0.660
#> SRR1026966 3 0.0188 0.95392 0.000 0.000 0.996 0.004
#> SRR1026967 3 0.0188 0.95392 0.000 0.000 0.996 0.004
#> SRR1026968 4 0.4406 0.52879 0.000 0.300 0.000 0.700
#> SRR1026969 4 0.3577 0.59778 0.012 0.156 0.000 0.832
#> SRR1026970 4 0.2281 0.50997 0.096 0.000 0.000 0.904
#> SRR1026971 4 0.2281 0.50997 0.096 0.000 0.000 0.904
#> SRR1026972 4 0.2660 0.55163 0.056 0.036 0.000 0.908
#> SRR1026973 4 0.2670 0.55242 0.052 0.040 0.000 0.908
#> SRR1026974 4 0.4941 -0.21376 0.436 0.000 0.000 0.564
#> SRR1026975 4 0.4941 -0.21566 0.436 0.000 0.000 0.564
#> SRR1026976 4 0.3172 0.59998 0.000 0.160 0.000 0.840
#> SRR1026977 4 0.3172 0.59998 0.000 0.160 0.000 0.840
#> SRR1026978 1 0.5428 0.41523 0.600 0.380 0.000 0.020
#> SRR1026979 3 0.0188 0.95392 0.000 0.000 0.996 0.004
#> SRR1026980 2 0.0000 0.74376 0.000 1.000 0.000 0.000
#> SRR1026981 3 0.0188 0.95324 0.004 0.000 0.996 0.000
#> SRR1026982 4 0.3649 0.59160 0.000 0.204 0.000 0.796
#> SRR1026983 4 0.3649 0.59160 0.000 0.204 0.000 0.796
#> SRR1026984 4 0.4193 0.55797 0.000 0.268 0.000 0.732
#> SRR1026985 4 0.4193 0.55797 0.000 0.268 0.000 0.732
#> SRR1026986 2 0.5969 0.14938 0.392 0.564 0.000 0.044
#> SRR1026987 1 0.5598 0.60143 0.704 0.220 0.000 0.076
#> SRR1026988 1 0.5593 0.72034 0.708 0.000 0.080 0.212
#> SRR1026989 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1026990 4 0.3402 0.48258 0.164 0.004 0.000 0.832
#> SRR1026991 3 0.0188 0.95392 0.000 0.000 0.996 0.004
#> SRR1026992 1 0.3975 0.73369 0.760 0.000 0.000 0.240
#> SRR1026993 1 0.2216 0.77598 0.908 0.000 0.000 0.092
#> SRR1026994 2 0.4940 0.57180 0.096 0.776 0.000 0.128
#> SRR1026995 1 0.6403 0.50649 0.640 0.232 0.000 0.128
#> SRR1026996 4 0.4088 0.57701 0.000 0.232 0.004 0.764
#> SRR1026997 4 0.4088 0.57701 0.000 0.232 0.004 0.764
#> SRR1026998 3 0.0188 0.95392 0.000 0.000 0.996 0.004
#> SRR1026999 3 0.0188 0.95392 0.000 0.000 0.996 0.004
#> SRR1027000 1 0.4917 0.48029 0.664 0.328 0.004 0.004
#> SRR1027001 3 0.1488 0.92705 0.032 0.000 0.956 0.012
#> SRR1027002 2 0.4155 0.51246 0.240 0.756 0.000 0.004
#> SRR1027003 2 0.2469 0.66374 0.108 0.892 0.000 0.000
#> SRR1027004 1 0.3289 0.76898 0.852 0.004 0.004 0.140
#> SRR1027005 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1027006 3 0.6499 0.36290 0.276 0.000 0.612 0.112
#> SRR1027007 1 0.4585 0.65427 0.668 0.000 0.000 0.332
#> SRR1027008 1 0.1396 0.75632 0.960 0.032 0.004 0.004
#> SRR1027009 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1027010 3 0.4372 0.62764 0.268 0.000 0.728 0.004
#> SRR1027011 3 0.0592 0.94878 0.016 0.000 0.984 0.000
#> SRR1177668 1 0.3356 0.70401 0.824 0.000 0.000 0.176
#> SRR1177667 1 0.1557 0.77525 0.944 0.000 0.000 0.056
#> SRR1177669 3 0.0592 0.94878 0.016 0.000 0.984 0.000
#> SRR1177670 3 0.0592 0.94878 0.016 0.000 0.984 0.000
#> SRR1177671 2 0.0000 0.74376 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.0707 0.94655 0.020 0.000 0.980 0.000
#> SRR1177673 1 0.1394 0.76599 0.964 0.012 0.008 0.016
#> SRR1177674 3 0.0592 0.94878 0.016 0.000 0.984 0.000
#> SRR1177675 1 0.3123 0.76661 0.844 0.000 0.000 0.156
#> SRR1177676 1 0.4981 -0.00187 0.536 0.000 0.464 0.000
#> SRR1177677 1 0.0657 0.76162 0.984 0.012 0.000 0.004
#> SRR1177678 1 0.0921 0.77134 0.972 0.000 0.000 0.028
#> SRR1177679 2 0.1022 0.72824 0.032 0.968 0.000 0.000
#> SRR1177680 2 0.0469 0.73930 0.012 0.988 0.000 0.000
#> SRR1177681 1 0.4126 0.62284 0.776 0.216 0.004 0.004
#> SRR1177682 1 0.5080 0.41340 0.628 0.364 0.004 0.004
#> SRR1177683 2 0.0469 0.73930 0.012 0.988 0.000 0.000
#> SRR1177684 2 0.0921 0.73098 0.028 0.972 0.000 0.000
#> SRR1177685 1 0.2149 0.77210 0.912 0.000 0.000 0.088
#> SRR1177686 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1177687 2 0.0000 0.74376 0.000 1.000 0.000 0.000
#> SRR1177688 1 0.4372 0.56922 0.728 0.268 0.004 0.000
#> SRR1177689 2 0.5151 0.03671 0.464 0.532 0.000 0.004
#> SRR1177690 1 0.0779 0.76290 0.980 0.016 0.000 0.004
#> SRR1177691 2 0.1557 0.71066 0.056 0.944 0.000 0.000
#> SRR1177692 2 0.1118 0.72558 0.036 0.964 0.000 0.000
#> SRR1177693 2 0.4164 0.55453 0.000 0.736 0.000 0.264
#> SRR1177694 2 0.4804 0.31769 0.000 0.616 0.000 0.384
#> SRR1177695 1 0.4720 0.48928 0.672 0.324 0.004 0.000
#> SRR1177697 1 0.4331 0.70733 0.712 0.000 0.000 0.288
#> SRR1177696 1 0.7907 -0.01774 0.364 0.308 0.328 0.000
#> SRR1177698 3 0.3024 0.83239 0.148 0.000 0.852 0.000
#> SRR1177700 4 0.7306 -0.04182 0.328 0.008 0.136 0.528
#> SRR1177701 4 0.4746 -0.00382 0.368 0.000 0.000 0.632
#> SRR1177702 2 0.2011 0.73191 0.000 0.920 0.000 0.080
#> SRR1177703 4 0.4992 -0.31890 0.476 0.000 0.000 0.524
#> SRR1177704 2 0.2281 0.72665 0.000 0.904 0.000 0.096
#> SRR1177705 1 0.4222 0.71189 0.728 0.000 0.000 0.272
#> SRR1177706 2 0.2342 0.68653 0.080 0.912 0.000 0.008
#> SRR1177707 4 0.4989 -0.30571 0.472 0.000 0.000 0.528
#> SRR1177708 4 0.8663 0.28947 0.140 0.096 0.268 0.496
#> SRR1177709 1 0.2593 0.71610 0.892 0.000 0.104 0.004
#> SRR1177710 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1177711 1 0.3486 0.75751 0.812 0.000 0.000 0.188
#> SRR1177712 2 0.4978 0.53558 0.012 0.664 0.000 0.324
#> SRR1177714 2 0.0000 0.74376 0.000 1.000 0.000 0.000
#> SRR1177713 2 0.1489 0.72273 0.044 0.952 0.000 0.004
#> SRR1177715 2 0.4193 0.47598 0.268 0.732 0.000 0.000
#> SRR1177716 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.4356 0.70651 0.708 0.000 0.000 0.292
#> SRR1177718 1 0.1637 0.77539 0.940 0.000 0.000 0.060
#> SRR1177719 4 0.4999 -0.36090 0.492 0.000 0.000 0.508
#> SRR1177720 3 0.0336 0.95180 0.000 0.008 0.992 0.000
#> SRR1177721 2 0.0188 0.74462 0.000 0.996 0.000 0.004
#> SRR1177722 2 0.0592 0.74541 0.000 0.984 0.000 0.016
#> SRR1177723 1 0.1637 0.77633 0.940 0.000 0.000 0.060
#> SRR1177725 1 0.4543 0.67763 0.676 0.000 0.000 0.324
#> SRR1177724 1 0.0707 0.77024 0.980 0.000 0.000 0.020
#> SRR1177726 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.4356 0.70600 0.708 0.000 0.000 0.292
#> SRR1177728 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.4134 0.72024 0.740 0.000 0.000 0.260
#> SRR1177730 3 0.4222 0.64537 0.272 0.000 0.728 0.000
#> SRR1177731 1 0.0188 0.76436 0.996 0.000 0.004 0.000
#> SRR1177732 1 0.1940 0.77712 0.924 0.000 0.000 0.076
#> SRR1177733 1 0.4103 0.72482 0.744 0.000 0.000 0.256
#> SRR1177734 1 0.4193 0.71994 0.732 0.000 0.000 0.268
#> SRR1177735 1 0.6558 0.14871 0.472 0.452 0.000 0.076
#> SRR1177736 1 0.5681 0.71710 0.704 0.000 0.088 0.208
#> SRR1177737 4 0.4972 0.23655 0.000 0.456 0.000 0.544
#> SRR1177738 3 0.2760 0.84046 0.000 0.000 0.872 0.128
#> SRR1177739 1 0.4222 0.72084 0.728 0.000 0.000 0.272
#> SRR1177740 1 0.3356 0.75574 0.824 0.000 0.000 0.176
#> SRR1177741 1 0.2149 0.77601 0.912 0.000 0.000 0.088
#> SRR1177742 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.1211 0.76104 0.960 0.000 0.040 0.000
#> SRR1177744 3 0.2469 0.85206 0.108 0.000 0.892 0.000
#> SRR1177745 2 0.0000 0.74376 0.000 1.000 0.000 0.000
#> SRR1177746 2 0.1211 0.72343 0.040 0.960 0.000 0.000
#> SRR1177747 3 0.0188 0.95392 0.000 0.000 0.996 0.004
#> SRR1177748 3 0.0000 0.95420 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.4072 0.73208 0.748 0.000 0.000 0.252
#> SRR1177750 1 0.0657 0.76593 0.984 0.004 0.000 0.012
#> SRR1177751 1 0.3529 0.68256 0.836 0.152 0.000 0.012
#> SRR1177752 1 0.0707 0.76996 0.980 0.000 0.000 0.020
#> SRR1177753 1 0.0921 0.77084 0.972 0.000 0.000 0.028
#> SRR1177754 1 0.4387 0.57936 0.752 0.000 0.236 0.012
#> SRR1177755 1 0.4543 0.67761 0.676 0.000 0.000 0.324
#> SRR1177756 1 0.1940 0.77612 0.924 0.000 0.000 0.076
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.3906 0.59831 0.000 0.704 0.000 0.292 0.004
#> SRR1026871 2 0.4009 0.57722 0.000 0.684 0.000 0.312 0.004
#> SRR1026872 2 0.4046 0.59199 0.000 0.696 0.000 0.296 0.008
#> SRR1026873 1 0.2798 0.68159 0.852 0.000 0.000 0.140 0.008
#> SRR1026874 1 0.2727 0.61203 0.868 0.000 0.116 0.000 0.016
#> SRR1026875 2 0.2482 0.72955 0.000 0.892 0.000 0.084 0.024
#> SRR1026876 2 0.2390 0.73010 0.000 0.896 0.000 0.084 0.020
#> SRR1026877 3 0.2612 0.85278 0.000 0.000 0.868 0.008 0.124
#> SRR1026878 3 0.2563 0.85423 0.000 0.000 0.872 0.008 0.120
#> SRR1026879 1 0.1267 0.67404 0.960 0.000 0.004 0.012 0.024
#> SRR1026880 1 0.1095 0.67468 0.968 0.000 0.012 0.008 0.012
#> SRR1026881 2 0.4659 0.28086 0.000 0.496 0.000 0.492 0.012
#> SRR1026882 2 0.4627 0.38604 0.000 0.544 0.000 0.444 0.012
#> SRR1026883 4 0.5792 0.26435 0.000 0.164 0.000 0.612 0.224
#> SRR1026884 4 0.5957 0.20618 0.000 0.176 0.000 0.588 0.236
#> SRR1026885 4 0.1768 0.65908 0.000 0.004 0.000 0.924 0.072
#> SRR1026886 4 0.1704 0.66039 0.000 0.004 0.000 0.928 0.068
#> SRR1026887 3 0.3875 0.77384 0.000 0.000 0.792 0.048 0.160
#> SRR1026888 3 0.3970 0.76743 0.000 0.000 0.788 0.056 0.156
#> SRR1026889 2 0.6043 0.42774 0.000 0.568 0.000 0.264 0.168
#> SRR1026890 5 0.6561 0.21367 0.000 0.184 0.004 0.344 0.468
#> SRR1026891 4 0.1478 0.65031 0.064 0.000 0.000 0.936 0.000
#> SRR1026892 4 0.1341 0.65430 0.056 0.000 0.000 0.944 0.000
#> SRR1026893 3 0.0912 0.90801 0.000 0.000 0.972 0.012 0.016
#> SRR1026894 3 0.1012 0.90756 0.000 0.000 0.968 0.012 0.020
#> SRR1026895 4 0.6161 0.12963 0.000 0.196 0.000 0.556 0.248
#> SRR1026896 4 0.6120 0.15378 0.000 0.196 0.000 0.564 0.240
#> SRR1026897 2 0.4585 0.42491 0.004 0.728 0.216 0.000 0.052
#> SRR1026898 1 0.2032 0.64247 0.924 0.052 0.004 0.000 0.020
#> SRR1026899 1 0.2694 0.66638 0.892 0.000 0.068 0.032 0.008
#> SRR1026900 2 0.0771 0.72855 0.000 0.976 0.000 0.020 0.004
#> SRR1026901 2 0.3752 0.66113 0.004 0.824 0.120 0.048 0.004
#> SRR1026902 4 0.3461 0.51786 0.004 0.000 0.000 0.772 0.224
#> SRR1026903 4 0.3430 0.52399 0.004 0.000 0.000 0.776 0.220
#> SRR1026904 4 0.3675 0.53106 0.000 0.188 0.000 0.788 0.024
#> SRR1026905 4 0.3757 0.50329 0.000 0.208 0.000 0.772 0.020
#> SRR1026906 2 0.3074 0.68927 0.000 0.804 0.000 0.196 0.000
#> SRR1026907 2 0.3003 0.69496 0.000 0.812 0.000 0.188 0.000
#> SRR1026908 2 0.2179 0.72710 0.000 0.888 0.000 0.112 0.000
#> SRR1026909 2 0.2127 0.72809 0.000 0.892 0.000 0.108 0.000
#> SRR1026910 4 0.2124 0.66127 0.000 0.056 0.000 0.916 0.028
#> SRR1026911 4 0.2054 0.66298 0.000 0.052 0.000 0.920 0.028
#> SRR1026912 3 0.3866 0.77145 0.000 0.000 0.808 0.096 0.096
#> SRR1026913 3 0.3916 0.77100 0.000 0.000 0.804 0.092 0.104
#> SRR1026914 2 0.4489 0.43666 0.000 0.572 0.000 0.420 0.008
#> SRR1026915 2 0.4489 0.43666 0.000 0.572 0.000 0.420 0.008
#> SRR1026916 2 0.4390 0.42489 0.000 0.568 0.000 0.428 0.004
#> SRR1026917 2 0.4390 0.42489 0.000 0.568 0.000 0.428 0.004
#> SRR1026918 4 0.4793 0.43463 0.000 0.216 0.000 0.708 0.076
#> SRR1026919 4 0.5060 0.39634 0.000 0.224 0.000 0.684 0.092
#> SRR1026920 2 0.4565 0.44750 0.000 0.580 0.000 0.408 0.012
#> SRR1026921 2 0.4658 0.44221 0.000 0.576 0.000 0.408 0.016
#> SRR1026922 2 0.1502 0.73369 0.000 0.940 0.000 0.056 0.004
#> SRR1026923 2 0.1365 0.73272 0.004 0.952 0.000 0.040 0.004
#> SRR1026924 4 0.5631 0.30914 0.000 0.164 0.000 0.636 0.200
#> SRR1026925 3 0.0898 0.90683 0.000 0.000 0.972 0.020 0.008
#> SRR1026926 4 0.5635 0.33226 0.000 0.168 0.000 0.636 0.196
#> SRR1026927 4 0.1914 0.65342 0.060 0.000 0.000 0.924 0.016
#> SRR1026928 4 0.2583 0.61588 0.000 0.132 0.000 0.864 0.004
#> SRR1026929 3 0.0451 0.91141 0.000 0.000 0.988 0.004 0.008
#> SRR1026930 2 0.0693 0.72576 0.000 0.980 0.000 0.012 0.008
#> SRR1026931 2 0.0162 0.72426 0.000 0.996 0.000 0.004 0.000
#> SRR1026932 2 0.1704 0.73329 0.000 0.928 0.000 0.068 0.004
#> SRR1026933 2 0.1704 0.73329 0.000 0.928 0.000 0.068 0.004
#> SRR1026934 2 0.2929 0.69691 0.000 0.820 0.000 0.180 0.000
#> SRR1026935 2 0.2929 0.69691 0.000 0.820 0.000 0.180 0.000
#> SRR1026936 4 0.2782 0.63974 0.000 0.048 0.000 0.880 0.072
#> SRR1026937 4 0.2853 0.63720 0.000 0.052 0.000 0.876 0.072
#> SRR1026938 2 0.4610 0.40592 0.000 0.556 0.000 0.432 0.012
#> SRR1026939 2 0.4597 0.42023 0.000 0.564 0.000 0.424 0.012
#> SRR1026940 4 0.6242 0.52175 0.180 0.124 0.000 0.644 0.052
#> SRR1026941 3 0.0404 0.91106 0.000 0.000 0.988 0.000 0.012
#> SRR1026942 1 0.4637 0.39494 0.536 0.000 0.000 0.452 0.012
#> SRR1026943 1 0.5681 0.50696 0.576 0.004 0.000 0.336 0.084
#> SRR1026944 4 0.4434 -0.19680 0.460 0.000 0.000 0.536 0.004
#> SRR1026945 3 0.0000 0.91127 0.000 0.000 1.000 0.000 0.000
#> SRR1026947 2 0.2732 0.70838 0.000 0.840 0.000 0.160 0.000
#> SRR1026946 2 0.3796 0.59698 0.000 0.700 0.000 0.300 0.000
#> SRR1026948 2 0.0451 0.72516 0.000 0.988 0.000 0.008 0.004
#> SRR1026949 2 0.5578 0.37680 0.112 0.616 0.000 0.272 0.000
#> SRR1026950 4 0.3949 0.24301 0.332 0.000 0.000 0.668 0.000
#> SRR1026951 2 0.3682 0.70593 0.004 0.812 0.004 0.156 0.024
#> SRR1026952 4 0.4252 0.20339 0.340 0.000 0.000 0.652 0.008
#> SRR1026953 3 0.0000 0.91127 0.000 0.000 1.000 0.000 0.000
#> SRR1026954 4 0.1124 0.67327 0.000 0.036 0.004 0.960 0.000
#> SRR1026955 2 0.2017 0.73221 0.000 0.912 0.000 0.080 0.008
#> SRR1026956 4 0.3491 0.49091 0.228 0.000 0.000 0.768 0.004
#> SRR1026957 2 0.4693 0.61100 0.000 0.700 0.000 0.244 0.056
#> SRR1026958 4 0.4560 -0.28443 0.484 0.000 0.000 0.508 0.008
#> SRR1026959 2 0.0324 0.72091 0.004 0.992 0.000 0.000 0.004
#> SRR1026960 4 0.1399 0.67135 0.028 0.020 0.000 0.952 0.000
#> SRR1026961 4 0.2561 0.60629 0.000 0.144 0.000 0.856 0.000
#> SRR1026962 4 0.4291 -0.21074 0.464 0.000 0.000 0.536 0.000
#> SRR1026963 1 0.4549 0.37110 0.528 0.000 0.000 0.464 0.008
#> SRR1026964 4 0.4466 0.52172 0.000 0.076 0.000 0.748 0.176
#> SRR1026965 4 0.4537 0.50829 0.000 0.076 0.000 0.740 0.184
#> SRR1026966 3 0.0963 0.90682 0.000 0.000 0.964 0.000 0.036
#> SRR1026967 3 0.0963 0.90682 0.000 0.000 0.964 0.000 0.036
#> SRR1026968 4 0.2304 0.64157 0.000 0.100 0.000 0.892 0.008
#> SRR1026969 4 0.0566 0.66956 0.012 0.000 0.000 0.984 0.004
#> SRR1026970 4 0.3181 0.63911 0.072 0.000 0.000 0.856 0.072
#> SRR1026971 4 0.3116 0.64030 0.076 0.000 0.000 0.860 0.064
#> SRR1026972 5 0.2833 0.70634 0.024 0.020 0.000 0.068 0.888
#> SRR1026973 5 0.2833 0.70828 0.020 0.024 0.000 0.068 0.888
#> SRR1026974 4 0.3196 0.55187 0.192 0.000 0.000 0.804 0.004
#> SRR1026975 4 0.3160 0.55829 0.188 0.000 0.000 0.808 0.004
#> SRR1026976 4 0.0451 0.67245 0.004 0.008 0.000 0.988 0.000
#> SRR1026977 4 0.0324 0.67171 0.004 0.004 0.000 0.992 0.000
#> SRR1026978 1 0.5455 0.27233 0.528 0.416 0.000 0.052 0.004
#> SRR1026979 3 0.0609 0.91066 0.000 0.000 0.980 0.000 0.020
#> SRR1026980 2 0.0854 0.72267 0.000 0.976 0.012 0.004 0.008
#> SRR1026981 3 0.0798 0.90645 0.000 0.016 0.976 0.000 0.008
#> SRR1026982 4 0.0865 0.67395 0.000 0.024 0.000 0.972 0.004
#> SRR1026983 4 0.0865 0.67395 0.000 0.024 0.000 0.972 0.004
#> SRR1026984 4 0.1544 0.66398 0.000 0.068 0.000 0.932 0.000
#> SRR1026985 4 0.1608 0.66194 0.000 0.072 0.000 0.928 0.000
#> SRR1026986 2 0.6295 0.15788 0.256 0.564 0.000 0.172 0.008
#> SRR1026987 1 0.5635 0.51036 0.620 0.252 0.000 0.128 0.000
#> SRR1026988 1 0.6030 0.48696 0.544 0.000 0.140 0.316 0.000
#> SRR1026989 3 0.0000 0.91127 0.000 0.000 1.000 0.000 0.000
#> SRR1026990 4 0.0609 0.66894 0.020 0.000 0.000 0.980 0.000
#> SRR1026991 3 0.0880 0.90846 0.000 0.000 0.968 0.000 0.032
#> SRR1026992 1 0.4211 0.54357 0.636 0.000 0.000 0.360 0.004
#> SRR1026993 1 0.3684 0.61719 0.720 0.000 0.000 0.280 0.000
#> SRR1026994 2 0.4633 0.36731 0.264 0.696 0.000 0.004 0.036
#> SRR1026995 1 0.5680 0.38841 0.668 0.204 0.012 0.004 0.112
#> SRR1026996 4 0.3183 0.58996 0.000 0.016 0.000 0.828 0.156
#> SRR1026997 4 0.3141 0.59466 0.000 0.016 0.000 0.832 0.152
#> SRR1026998 3 0.1571 0.90000 0.000 0.000 0.936 0.004 0.060
#> SRR1026999 3 0.1697 0.89820 0.000 0.000 0.932 0.008 0.060
#> SRR1027000 1 0.4193 0.36996 0.684 0.304 0.000 0.000 0.012
#> SRR1027001 3 0.3010 0.80032 0.116 0.000 0.860 0.008 0.016
#> SRR1027002 2 0.3461 0.49191 0.224 0.772 0.000 0.000 0.004
#> SRR1027003 2 0.2011 0.65803 0.088 0.908 0.000 0.000 0.004
#> SRR1027004 1 0.5281 0.43360 0.544 0.004 0.016 0.420 0.016
#> SRR1027005 3 0.0000 0.91127 0.000 0.000 1.000 0.000 0.000
#> SRR1027006 3 0.4662 0.58882 0.096 0.000 0.736 0.168 0.000
#> SRR1027007 1 0.4562 0.26518 0.496 0.008 0.000 0.496 0.000
#> SRR1027008 1 0.2770 0.64106 0.888 0.076 0.000 0.020 0.016
#> SRR1027009 3 0.0162 0.91125 0.000 0.000 0.996 0.000 0.004
#> SRR1027010 3 0.5079 0.59365 0.236 0.000 0.692 0.012 0.060
#> SRR1027011 3 0.0162 0.91125 0.000 0.000 0.996 0.000 0.004
#> SRR1177668 1 0.5088 0.23781 0.572 0.000 0.032 0.004 0.392
#> SRR1177667 1 0.1281 0.68050 0.956 0.000 0.000 0.032 0.012
#> SRR1177669 3 0.1195 0.90121 0.028 0.000 0.960 0.000 0.012
#> SRR1177670 3 0.0324 0.91101 0.004 0.000 0.992 0.000 0.004
#> SRR1177671 2 0.0566 0.71936 0.004 0.984 0.000 0.000 0.012
#> SRR1177672 3 0.1043 0.89561 0.040 0.000 0.960 0.000 0.000
#> SRR1177673 1 0.2121 0.66838 0.932 0.012 0.020 0.016 0.020
#> SRR1177674 3 0.0324 0.91101 0.004 0.000 0.992 0.000 0.004
#> SRR1177675 1 0.4088 0.53117 0.632 0.000 0.000 0.368 0.000
#> SRR1177676 1 0.3774 0.40276 0.704 0.000 0.296 0.000 0.000
#> SRR1177677 1 0.1628 0.64581 0.936 0.056 0.000 0.000 0.008
#> SRR1177678 1 0.0609 0.67853 0.980 0.000 0.000 0.020 0.000
#> SRR1177679 2 0.1106 0.70899 0.024 0.964 0.000 0.000 0.012
#> SRR1177680 2 0.1195 0.71038 0.028 0.960 0.000 0.000 0.012
#> SRR1177681 1 0.3584 0.56426 0.820 0.148 0.012 0.000 0.020
#> SRR1177682 1 0.4387 0.30446 0.640 0.348 0.000 0.000 0.012
#> SRR1177683 2 0.0671 0.71532 0.016 0.980 0.000 0.000 0.004
#> SRR1177684 2 0.0671 0.71532 0.016 0.980 0.000 0.000 0.004
#> SRR1177685 1 0.2929 0.67674 0.820 0.000 0.000 0.180 0.000
#> SRR1177686 3 0.0404 0.91109 0.000 0.000 0.988 0.000 0.012
#> SRR1177687 2 0.1310 0.70806 0.020 0.956 0.000 0.000 0.024
#> SRR1177688 1 0.3707 0.48607 0.768 0.220 0.004 0.000 0.008
#> SRR1177689 1 0.4590 0.18292 0.568 0.420 0.000 0.000 0.012
#> SRR1177690 1 0.1443 0.65644 0.948 0.044 0.000 0.004 0.004
#> SRR1177691 2 0.1281 0.70293 0.032 0.956 0.000 0.000 0.012
#> SRR1177692 2 0.1444 0.69977 0.040 0.948 0.000 0.000 0.012
#> SRR1177693 2 0.3496 0.67736 0.000 0.788 0.000 0.200 0.012
#> SRR1177694 2 0.4588 0.48210 0.000 0.604 0.000 0.380 0.016
#> SRR1177695 1 0.4402 0.32266 0.636 0.352 0.000 0.000 0.012
#> SRR1177697 1 0.4192 0.48606 0.596 0.000 0.000 0.404 0.000
#> SRR1177696 1 0.6882 0.00948 0.392 0.264 0.340 0.000 0.004
#> SRR1177698 3 0.3689 0.64131 0.256 0.000 0.740 0.000 0.004
#> SRR1177700 4 0.5352 0.45738 0.152 0.004 0.160 0.684 0.000
#> SRR1177701 4 0.2813 0.58271 0.168 0.000 0.000 0.832 0.000
#> SRR1177702 2 0.2286 0.72937 0.000 0.888 0.000 0.108 0.004
#> SRR1177703 4 0.3508 0.44321 0.252 0.000 0.000 0.748 0.000
#> SRR1177704 2 0.2824 0.72197 0.000 0.864 0.000 0.116 0.020
#> SRR1177705 1 0.4666 0.46647 0.572 0.000 0.000 0.412 0.016
#> SRR1177706 2 0.1788 0.68868 0.056 0.932 0.000 0.004 0.008
#> SRR1177707 4 0.3266 0.54123 0.200 0.000 0.000 0.796 0.004
#> SRR1177708 4 0.5586 0.40226 0.016 0.012 0.208 0.688 0.076
#> SRR1177709 1 0.3307 0.61934 0.864 0.040 0.080 0.004 0.012
#> SRR1177710 3 0.2929 0.78568 0.152 0.000 0.840 0.000 0.008
#> SRR1177711 1 0.4161 0.49857 0.608 0.000 0.000 0.392 0.000
#> SRR1177712 2 0.5757 0.09305 0.000 0.496 0.000 0.088 0.416
#> SRR1177714 2 0.0613 0.72427 0.004 0.984 0.000 0.008 0.004
#> SRR1177713 2 0.2429 0.69556 0.020 0.904 0.000 0.008 0.068
#> SRR1177715 2 0.2723 0.61385 0.124 0.864 0.000 0.000 0.012
#> SRR1177716 3 0.0000 0.91127 0.000 0.000 1.000 0.000 0.000
#> SRR1177717 1 0.4283 0.38860 0.544 0.000 0.000 0.456 0.000
#> SRR1177718 1 0.1831 0.68554 0.920 0.000 0.000 0.076 0.004
#> SRR1177719 4 0.3895 0.28580 0.320 0.000 0.000 0.680 0.000
#> SRR1177720 3 0.2297 0.86668 0.008 0.060 0.912 0.000 0.020
#> SRR1177721 2 0.0613 0.72342 0.004 0.984 0.000 0.004 0.008
#> SRR1177722 2 0.0451 0.72567 0.000 0.988 0.000 0.008 0.004
#> SRR1177723 1 0.2966 0.67437 0.816 0.000 0.000 0.184 0.000
#> SRR1177725 1 0.4305 0.31704 0.512 0.000 0.000 0.488 0.000
#> SRR1177724 1 0.1282 0.68382 0.952 0.000 0.000 0.044 0.004
#> SRR1177726 3 0.0000 0.91127 0.000 0.000 1.000 0.000 0.000
#> SRR1177727 1 0.3696 0.66273 0.772 0.000 0.000 0.212 0.016
#> SRR1177728 3 0.0162 0.91132 0.000 0.000 0.996 0.000 0.004
#> SRR1177729 1 0.4182 0.48664 0.600 0.000 0.000 0.400 0.000
#> SRR1177730 3 0.2605 0.78882 0.148 0.000 0.852 0.000 0.000
#> SRR1177731 1 0.0994 0.67521 0.972 0.004 0.004 0.016 0.004
#> SRR1177732 1 0.2267 0.68013 0.916 0.000 0.008 0.048 0.028
#> SRR1177733 1 0.4173 0.60051 0.688 0.000 0.000 0.300 0.012
#> SRR1177734 1 0.4538 0.53847 0.620 0.000 0.000 0.364 0.016
#> SRR1177735 2 0.7218 -0.15839 0.336 0.344 0.000 0.304 0.016
#> SRR1177736 1 0.7007 0.38202 0.468 0.000 0.124 0.360 0.048
#> SRR1177737 4 0.3395 0.48336 0.000 0.236 0.000 0.764 0.000
#> SRR1177738 3 0.2124 0.83446 0.000 0.004 0.900 0.096 0.000
#> SRR1177739 1 0.4456 0.58537 0.660 0.000 0.000 0.320 0.020
#> SRR1177740 1 0.4082 0.64441 0.740 0.008 0.000 0.240 0.012
#> SRR1177741 1 0.1701 0.68169 0.936 0.000 0.000 0.048 0.016
#> SRR1177742 3 0.0162 0.91125 0.000 0.000 0.996 0.000 0.004
#> SRR1177743 1 0.1701 0.66986 0.944 0.000 0.028 0.016 0.012
#> SRR1177744 3 0.3373 0.74054 0.168 0.000 0.816 0.008 0.008
#> SRR1177745 2 0.1195 0.71136 0.012 0.960 0.000 0.000 0.028
#> SRR1177746 2 0.1740 0.68819 0.056 0.932 0.000 0.000 0.012
#> SRR1177747 3 0.2305 0.87962 0.000 0.000 0.896 0.012 0.092
#> SRR1177748 3 0.0000 0.91127 0.000 0.000 1.000 0.000 0.000
#> SRR1177749 1 0.4182 0.55283 0.644 0.000 0.000 0.352 0.004
#> SRR1177750 1 0.0854 0.67078 0.976 0.012 0.000 0.008 0.004
#> SRR1177751 1 0.3053 0.55458 0.828 0.164 0.000 0.000 0.008
#> SRR1177752 1 0.0609 0.67853 0.980 0.000 0.000 0.020 0.000
#> SRR1177753 1 0.1074 0.67609 0.968 0.004 0.000 0.016 0.012
#> SRR1177754 1 0.3769 0.54883 0.796 0.000 0.172 0.004 0.028
#> SRR1177755 1 0.4305 0.31562 0.512 0.000 0.000 0.488 0.000
#> SRR1177756 1 0.2517 0.68574 0.884 0.008 0.000 0.104 0.004
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.3737 0.6137 0.000 0.772 0.000 0.188 0.016 0.024
#> SRR1026871 2 0.3829 0.6036 0.000 0.760 0.000 0.200 0.016 0.024
#> SRR1026872 2 0.3776 0.6571 0.000 0.796 0.000 0.132 0.016 0.056
#> SRR1026873 1 0.4148 0.5974 0.748 0.000 0.000 0.184 0.012 0.056
#> SRR1026874 1 0.3759 0.5370 0.804 0.000 0.104 0.004 0.008 0.080
#> SRR1026875 2 0.2094 0.6793 0.000 0.908 0.000 0.064 0.024 0.004
#> SRR1026876 2 0.2206 0.6789 0.000 0.904 0.000 0.064 0.024 0.008
#> SRR1026877 3 0.3587 0.7253 0.000 0.000 0.792 0.000 0.068 0.140
#> SRR1026878 3 0.3328 0.7424 0.000 0.000 0.816 0.000 0.064 0.120
#> SRR1026879 1 0.4824 0.4348 0.656 0.000 0.000 0.060 0.016 0.268
#> SRR1026880 1 0.1723 0.6148 0.940 0.000 0.012 0.016 0.012 0.020
#> SRR1026881 2 0.4642 0.2553 0.000 0.516 0.000 0.452 0.020 0.012
#> SRR1026882 2 0.4606 0.3369 0.000 0.548 0.000 0.420 0.020 0.012
#> SRR1026883 4 0.6315 0.2823 0.000 0.204 0.000 0.560 0.168 0.068
#> SRR1026884 4 0.6367 0.2658 0.000 0.204 0.000 0.552 0.176 0.068
#> SRR1026885 4 0.4985 0.2819 0.000 0.020 0.000 0.592 0.044 0.344
#> SRR1026886 4 0.4925 0.2845 0.000 0.020 0.000 0.596 0.040 0.344
#> SRR1026887 3 0.6608 0.1627 0.000 0.000 0.452 0.064 0.148 0.336
#> SRR1026888 3 0.6668 0.1116 0.000 0.000 0.436 0.068 0.148 0.348
#> SRR1026889 2 0.4903 0.5695 0.000 0.696 0.000 0.112 0.172 0.020
#> SRR1026890 5 0.6620 0.1245 0.000 0.304 0.000 0.196 0.452 0.048
#> SRR1026891 4 0.1932 0.5693 0.040 0.000 0.000 0.924 0.016 0.020
#> SRR1026892 4 0.1679 0.5741 0.036 0.000 0.000 0.936 0.012 0.016
#> SRR1026893 3 0.0520 0.8047 0.000 0.000 0.984 0.000 0.008 0.008
#> SRR1026894 3 0.0520 0.8047 0.000 0.000 0.984 0.000 0.008 0.008
#> SRR1026895 4 0.6315 0.1124 0.000 0.352 0.008 0.484 0.120 0.036
#> SRR1026896 4 0.6338 0.1151 0.000 0.348 0.008 0.484 0.124 0.036
#> SRR1026897 2 0.6619 0.0932 0.012 0.456 0.240 0.000 0.020 0.272
#> SRR1026898 1 0.3164 0.5632 0.844 0.048 0.000 0.000 0.012 0.096
#> SRR1026899 1 0.4510 0.5784 0.764 0.000 0.048 0.072 0.004 0.112
#> SRR1026900 2 0.3679 0.6366 0.012 0.796 0.000 0.160 0.020 0.012
#> SRR1026901 2 0.6263 0.2148 0.016 0.536 0.332 0.072 0.016 0.028
#> SRR1026902 4 0.5435 0.2876 0.008 0.004 0.000 0.592 0.112 0.284
#> SRR1026903 4 0.5438 0.2847 0.016 0.000 0.000 0.592 0.108 0.284
#> SRR1026904 4 0.5102 0.3894 0.000 0.264 0.000 0.632 0.012 0.092
#> SRR1026905 4 0.5330 0.3707 0.000 0.268 0.000 0.612 0.016 0.104
#> SRR1026906 2 0.3246 0.6524 0.000 0.812 0.000 0.160 0.016 0.012
#> SRR1026907 2 0.3056 0.6563 0.000 0.820 0.000 0.160 0.012 0.008
#> SRR1026908 2 0.2114 0.6786 0.000 0.904 0.000 0.076 0.012 0.008
#> SRR1026909 2 0.2114 0.6786 0.000 0.904 0.000 0.076 0.012 0.008
#> SRR1026910 4 0.4777 0.4396 0.000 0.060 0.000 0.676 0.020 0.244
#> SRR1026911 4 0.4642 0.4461 0.000 0.052 0.000 0.688 0.020 0.240
#> SRR1026912 3 0.5844 0.4435 0.000 0.008 0.584 0.040 0.084 0.284
#> SRR1026913 3 0.5713 0.4522 0.000 0.004 0.588 0.040 0.080 0.288
#> SRR1026914 2 0.5348 0.4472 0.000 0.592 0.000 0.292 0.012 0.104
#> SRR1026915 2 0.5211 0.4601 0.000 0.608 0.000 0.288 0.012 0.092
#> SRR1026916 2 0.4743 0.4427 0.000 0.600 0.000 0.348 0.008 0.044
#> SRR1026917 2 0.4671 0.4495 0.000 0.608 0.000 0.344 0.008 0.040
#> SRR1026918 4 0.5113 0.1576 0.000 0.372 0.000 0.556 0.060 0.012
#> SRR1026919 4 0.5130 0.1312 0.000 0.380 0.000 0.548 0.060 0.012
#> SRR1026920 2 0.4453 0.4756 0.000 0.636 0.000 0.328 0.016 0.020
#> SRR1026921 2 0.4682 0.4615 0.000 0.624 0.004 0.332 0.020 0.020
#> SRR1026922 2 0.3098 0.6563 0.004 0.832 0.000 0.140 0.016 0.008
#> SRR1026923 2 0.3311 0.6641 0.024 0.840 0.000 0.108 0.020 0.008
#> SRR1026924 4 0.6452 0.3018 0.000 0.172 0.000 0.564 0.156 0.108
#> SRR1026925 3 0.1411 0.8022 0.000 0.000 0.936 0.000 0.004 0.060
#> SRR1026926 4 0.6737 0.1836 0.000 0.116 0.000 0.460 0.104 0.320
#> SRR1026927 4 0.3238 0.5535 0.044 0.000 0.000 0.852 0.044 0.060
#> SRR1026928 4 0.3424 0.5191 0.000 0.196 0.000 0.780 0.004 0.020
#> SRR1026929 3 0.0777 0.8042 0.000 0.000 0.972 0.000 0.004 0.024
#> SRR1026930 2 0.3087 0.6505 0.012 0.852 0.000 0.008 0.024 0.104
#> SRR1026931 2 0.1477 0.6710 0.004 0.940 0.000 0.000 0.008 0.048
#> SRR1026932 2 0.2474 0.6805 0.000 0.884 0.000 0.032 0.004 0.080
#> SRR1026933 2 0.2277 0.6805 0.000 0.892 0.000 0.032 0.000 0.076
#> SRR1026934 2 0.3457 0.6355 0.000 0.800 0.000 0.164 0.016 0.020
#> SRR1026935 2 0.3372 0.6371 0.000 0.804 0.000 0.164 0.016 0.016
#> SRR1026936 4 0.4711 0.5198 0.000 0.112 0.000 0.744 0.072 0.072
#> SRR1026937 4 0.4720 0.5205 0.000 0.108 0.000 0.744 0.072 0.076
#> SRR1026938 2 0.4780 0.3888 0.000 0.588 0.000 0.364 0.032 0.016
#> SRR1026939 2 0.4746 0.4061 0.000 0.600 0.000 0.352 0.032 0.016
#> SRR1026940 6 0.4743 0.6153 0.036 0.012 0.004 0.264 0.008 0.676
#> SRR1026941 3 0.2668 0.7615 0.000 0.000 0.828 0.000 0.004 0.168
#> SRR1026942 4 0.4185 -0.2851 0.492 0.000 0.000 0.496 0.012 0.000
#> SRR1026943 1 0.5664 0.4220 0.504 0.008 0.000 0.360 0.128 0.000
#> SRR1026944 4 0.4077 0.2188 0.320 0.000 0.000 0.660 0.008 0.012
#> SRR1026945 3 0.1390 0.8010 0.032 0.000 0.948 0.000 0.004 0.016
#> SRR1026947 2 0.2883 0.6850 0.000 0.864 0.000 0.068 0.008 0.060
#> SRR1026946 2 0.4081 0.6749 0.000 0.772 0.000 0.124 0.012 0.092
#> SRR1026948 2 0.2555 0.6526 0.008 0.876 0.000 0.000 0.020 0.096
#> SRR1026949 2 0.5682 0.1220 0.052 0.496 0.000 0.408 0.004 0.040
#> SRR1026950 4 0.3376 0.4265 0.220 0.000 0.000 0.764 0.000 0.016
#> SRR1026951 2 0.5199 0.5667 0.012 0.692 0.008 0.080 0.016 0.192
#> SRR1026952 4 0.5081 0.2299 0.256 0.000 0.000 0.616 0.000 0.128
#> SRR1026953 3 0.0508 0.8031 0.000 0.000 0.984 0.000 0.004 0.012
#> SRR1026954 4 0.2213 0.5876 0.004 0.100 0.000 0.888 0.000 0.008
#> SRR1026955 2 0.2711 0.6833 0.000 0.880 0.000 0.048 0.016 0.056
#> SRR1026956 4 0.2816 0.5399 0.088 0.000 0.000 0.868 0.024 0.020
#> SRR1026957 2 0.4394 0.6636 0.000 0.768 0.000 0.108 0.068 0.056
#> SRR1026958 4 0.5780 -0.1313 0.360 0.000 0.000 0.488 0.008 0.144
#> SRR1026959 2 0.2734 0.6489 0.020 0.872 0.000 0.000 0.020 0.088
#> SRR1026960 4 0.1844 0.5929 0.024 0.048 0.000 0.924 0.000 0.004
#> SRR1026961 4 0.3558 0.4663 0.000 0.248 0.000 0.736 0.000 0.016
#> SRR1026962 4 0.3864 0.1323 0.344 0.000 0.000 0.648 0.004 0.004
#> SRR1026963 4 0.4758 -0.2620 0.460 0.000 0.000 0.500 0.008 0.032
#> SRR1026964 4 0.5886 0.1266 0.000 0.056 0.000 0.488 0.064 0.392
#> SRR1026965 4 0.6058 0.1293 0.000 0.068 0.000 0.480 0.068 0.384
#> SRR1026966 3 0.2531 0.7710 0.000 0.000 0.856 0.000 0.012 0.132
#> SRR1026967 3 0.2531 0.7710 0.000 0.000 0.856 0.000 0.012 0.132
#> SRR1026968 4 0.2740 0.5804 0.000 0.120 0.000 0.852 0.000 0.028
#> SRR1026969 4 0.0914 0.5872 0.016 0.000 0.000 0.968 0.000 0.016
#> SRR1026970 4 0.2465 0.5826 0.036 0.004 0.000 0.892 0.064 0.004
#> SRR1026971 4 0.2465 0.5826 0.036 0.004 0.000 0.892 0.064 0.004
#> SRR1026972 5 0.1074 0.5113 0.012 0.028 0.000 0.000 0.960 0.000
#> SRR1026973 5 0.1074 0.5113 0.012 0.028 0.000 0.000 0.960 0.000
#> SRR1026974 4 0.2094 0.5561 0.068 0.000 0.000 0.908 0.008 0.016
#> SRR1026975 4 0.2036 0.5586 0.064 0.000 0.000 0.912 0.008 0.016
#> SRR1026976 4 0.2001 0.5927 0.012 0.068 0.000 0.912 0.000 0.008
#> SRR1026977 4 0.1942 0.5933 0.012 0.064 0.000 0.916 0.000 0.008
#> SRR1026978 1 0.5882 0.1782 0.476 0.392 0.000 0.112 0.016 0.004
#> SRR1026979 3 0.3508 0.6540 0.000 0.000 0.704 0.000 0.004 0.292
#> SRR1026980 2 0.4223 0.6015 0.012 0.792 0.124 0.040 0.020 0.012
#> SRR1026981 3 0.2290 0.7880 0.004 0.044 0.908 0.000 0.012 0.032
#> SRR1026982 4 0.1642 0.5915 0.004 0.028 0.000 0.936 0.000 0.032
#> SRR1026983 4 0.1565 0.5921 0.004 0.028 0.000 0.940 0.000 0.028
#> SRR1026984 4 0.2573 0.5774 0.008 0.132 0.000 0.856 0.000 0.004
#> SRR1026985 4 0.2504 0.5735 0.004 0.136 0.000 0.856 0.000 0.004
#> SRR1026986 2 0.7127 -0.0195 0.344 0.420 0.000 0.136 0.016 0.084
#> SRR1026987 1 0.6753 0.3711 0.548 0.224 0.000 0.084 0.020 0.124
#> SRR1026988 3 0.5934 0.2232 0.292 0.000 0.540 0.148 0.004 0.016
#> SRR1026989 3 0.0862 0.8019 0.008 0.000 0.972 0.000 0.004 0.016
#> SRR1026990 4 0.2095 0.5772 0.016 0.004 0.000 0.916 0.012 0.052
#> SRR1026991 3 0.2595 0.7656 0.000 0.000 0.836 0.000 0.004 0.160
#> SRR1026992 1 0.4497 0.4943 0.600 0.000 0.000 0.368 0.012 0.020
#> SRR1026993 1 0.4022 0.4995 0.628 0.000 0.000 0.360 0.004 0.008
#> SRR1026994 2 0.5424 0.3603 0.268 0.620 0.000 0.000 0.052 0.060
#> SRR1026995 1 0.5491 0.3658 0.628 0.180 0.008 0.000 0.176 0.008
#> SRR1026996 4 0.4715 0.5201 0.000 0.048 0.000 0.736 0.136 0.080
#> SRR1026997 4 0.4575 0.5255 0.000 0.044 0.000 0.748 0.128 0.080
#> SRR1026998 3 0.4596 0.3178 0.000 0.000 0.508 0.004 0.028 0.460
#> SRR1026999 3 0.4598 0.3079 0.000 0.000 0.504 0.004 0.028 0.464
#> SRR1027000 1 0.3979 0.4818 0.772 0.160 0.000 0.000 0.016 0.052
#> SRR1027001 3 0.2597 0.7583 0.088 0.000 0.880 0.008 0.004 0.020
#> SRR1027002 2 0.4728 0.3453 0.336 0.620 0.000 0.012 0.012 0.020
#> SRR1027003 2 0.3776 0.5759 0.172 0.784 0.000 0.008 0.020 0.016
#> SRR1027004 1 0.4754 0.3541 0.508 0.000 0.008 0.452 0.000 0.032
#> SRR1027005 3 0.0547 0.8049 0.000 0.000 0.980 0.000 0.000 0.020
#> SRR1027006 3 0.3472 0.7121 0.072 0.004 0.840 0.064 0.004 0.016
#> SRR1027007 4 0.5403 0.3508 0.268 0.116 0.000 0.604 0.004 0.008
#> SRR1027008 1 0.4168 0.5725 0.796 0.048 0.000 0.024 0.024 0.108
#> SRR1027009 3 0.1141 0.8052 0.000 0.000 0.948 0.000 0.000 0.052
#> SRR1027010 6 0.5688 0.5196 0.216 0.000 0.112 0.040 0.004 0.628
#> SRR1027011 3 0.1866 0.7979 0.008 0.000 0.908 0.000 0.000 0.084
#> SRR1177668 1 0.4412 0.1300 0.500 0.000 0.012 0.000 0.480 0.008
#> SRR1177667 1 0.2728 0.6302 0.860 0.000 0.000 0.100 0.040 0.000
#> SRR1177669 3 0.3174 0.7194 0.104 0.000 0.836 0.000 0.004 0.056
#> SRR1177670 3 0.1485 0.8011 0.024 0.000 0.944 0.000 0.004 0.028
#> SRR1177671 2 0.3235 0.6305 0.024 0.832 0.000 0.000 0.020 0.124
#> SRR1177672 3 0.1923 0.7833 0.064 0.000 0.916 0.000 0.004 0.016
#> SRR1177673 1 0.4808 0.3954 0.628 0.000 0.000 0.060 0.008 0.304
#> SRR1177674 3 0.1732 0.8010 0.004 0.000 0.920 0.000 0.004 0.072
#> SRR1177675 1 0.3915 0.4614 0.584 0.000 0.000 0.412 0.000 0.004
#> SRR1177676 1 0.4289 0.2868 0.660 0.000 0.304 0.000 0.004 0.032
#> SRR1177677 1 0.1750 0.5941 0.932 0.040 0.000 0.000 0.012 0.016
#> SRR1177678 1 0.1411 0.6284 0.936 0.000 0.000 0.060 0.004 0.000
#> SRR1177679 2 0.3920 0.6008 0.052 0.788 0.000 0.000 0.024 0.136
#> SRR1177680 2 0.4351 0.5776 0.072 0.752 0.000 0.000 0.024 0.152
#> SRR1177681 1 0.4400 0.5010 0.744 0.092 0.000 0.000 0.016 0.148
#> SRR1177682 1 0.5905 0.2770 0.560 0.252 0.000 0.000 0.024 0.164
#> SRR1177683 2 0.3344 0.6254 0.032 0.828 0.000 0.000 0.020 0.120
#> SRR1177684 2 0.2969 0.6449 0.032 0.860 0.000 0.000 0.020 0.088
#> SRR1177685 1 0.4050 0.5788 0.716 0.000 0.000 0.236 0.000 0.048
#> SRR1177686 3 0.1714 0.7990 0.000 0.000 0.908 0.000 0.000 0.092
#> SRR1177687 2 0.5013 0.4795 0.064 0.648 0.000 0.000 0.024 0.264
#> SRR1177688 1 0.3721 0.5260 0.804 0.100 0.000 0.000 0.012 0.084
#> SRR1177689 1 0.5983 0.1764 0.496 0.348 0.000 0.000 0.024 0.132
#> SRR1177690 1 0.1777 0.6140 0.932 0.032 0.000 0.024 0.000 0.012
#> SRR1177691 2 0.4306 0.5752 0.080 0.760 0.000 0.000 0.024 0.136
#> SRR1177692 2 0.4927 0.5257 0.100 0.708 0.004 0.000 0.024 0.164
#> SRR1177693 2 0.3192 0.6512 0.000 0.828 0.000 0.136 0.016 0.020
#> SRR1177694 2 0.4383 0.5240 0.000 0.680 0.000 0.276 0.020 0.024
#> SRR1177695 1 0.5547 0.3676 0.624 0.192 0.000 0.000 0.024 0.160
#> SRR1177697 1 0.3847 0.3928 0.544 0.000 0.000 0.456 0.000 0.000
#> SRR1177696 3 0.5629 0.3655 0.292 0.120 0.572 0.000 0.004 0.012
#> SRR1177698 3 0.3892 0.6464 0.188 0.000 0.752 0.000 0.000 0.060
#> SRR1177700 4 0.5051 0.4041 0.068 0.036 0.188 0.700 0.000 0.008
#> SRR1177701 4 0.2687 0.5413 0.092 0.000 0.000 0.872 0.012 0.024
#> SRR1177702 2 0.3219 0.6773 0.004 0.848 0.000 0.052 0.012 0.084
#> SRR1177703 4 0.4545 0.3972 0.124 0.000 0.000 0.728 0.012 0.136
#> SRR1177704 2 0.2896 0.6708 0.000 0.872 0.020 0.080 0.016 0.012
#> SRR1177705 1 0.5495 0.3966 0.504 0.000 0.000 0.408 0.036 0.052
#> SRR1177706 2 0.3662 0.6150 0.096 0.812 0.000 0.000 0.016 0.076
#> SRR1177707 4 0.2261 0.5475 0.104 0.004 0.000 0.884 0.000 0.008
#> SRR1177708 6 0.3463 0.6266 0.004 0.004 0.008 0.200 0.004 0.780
#> SRR1177709 1 0.3504 0.5366 0.828 0.036 0.108 0.000 0.024 0.004
#> SRR1177710 3 0.1194 0.8057 0.032 0.000 0.956 0.000 0.004 0.008
#> SRR1177711 1 0.4062 0.4064 0.552 0.000 0.000 0.440 0.000 0.008
#> SRR1177712 2 0.4625 0.4292 0.004 0.652 0.000 0.040 0.296 0.008
#> SRR1177714 2 0.2605 0.6508 0.012 0.876 0.000 0.000 0.020 0.092
#> SRR1177713 2 0.2590 0.6683 0.044 0.896 0.000 0.008 0.028 0.024
#> SRR1177715 2 0.5296 0.4620 0.184 0.656 0.000 0.000 0.024 0.136
#> SRR1177716 3 0.0363 0.8046 0.000 0.000 0.988 0.000 0.000 0.012
#> SRR1177717 1 0.4333 0.3345 0.512 0.000 0.000 0.468 0.000 0.020
#> SRR1177718 1 0.2913 0.6182 0.812 0.000 0.000 0.180 0.004 0.004
#> SRR1177719 4 0.3447 0.4670 0.164 0.000 0.000 0.800 0.012 0.024
#> SRR1177720 3 0.5121 0.5879 0.012 0.112 0.704 0.000 0.024 0.148
#> SRR1177721 2 0.2704 0.6493 0.012 0.868 0.000 0.000 0.020 0.100
#> SRR1177722 2 0.2295 0.6686 0.004 0.900 0.000 0.008 0.016 0.072
#> SRR1177723 1 0.3215 0.5994 0.756 0.000 0.000 0.240 0.000 0.004
#> SRR1177725 4 0.5552 -0.2916 0.436 0.000 0.000 0.452 0.008 0.104
#> SRR1177724 1 0.2738 0.6223 0.820 0.000 0.000 0.176 0.004 0.000
#> SRR1177726 3 0.0291 0.8040 0.004 0.000 0.992 0.000 0.000 0.004
#> SRR1177727 1 0.5173 0.5456 0.636 0.000 0.000 0.268 0.032 0.064
#> SRR1177728 3 0.1471 0.8041 0.004 0.000 0.932 0.000 0.000 0.064
#> SRR1177729 1 0.3955 0.4132 0.560 0.000 0.000 0.436 0.000 0.004
#> SRR1177730 3 0.2443 0.7568 0.096 0.000 0.880 0.000 0.004 0.020
#> SRR1177731 1 0.1527 0.6125 0.948 0.000 0.020 0.008 0.012 0.012
#> SRR1177732 1 0.4699 0.5500 0.756 0.000 0.016 0.032 0.088 0.108
#> SRR1177733 1 0.5938 0.4181 0.520 0.000 0.000 0.300 0.016 0.164
#> SRR1177734 1 0.6276 0.2392 0.428 0.000 0.000 0.316 0.012 0.244
#> SRR1177735 4 0.7578 -0.1849 0.244 0.092 0.000 0.352 0.016 0.296
#> SRR1177736 6 0.4680 0.6624 0.100 0.000 0.008 0.176 0.004 0.712
#> SRR1177737 4 0.3969 0.3157 0.000 0.344 0.000 0.644 0.004 0.008
#> SRR1177738 3 0.1699 0.7857 0.000 0.032 0.936 0.016 0.000 0.016
#> SRR1177739 1 0.6399 0.0706 0.388 0.000 0.000 0.248 0.016 0.348
#> SRR1177740 1 0.4183 0.5901 0.716 0.000 0.000 0.240 0.020 0.024
#> SRR1177741 1 0.3160 0.6268 0.840 0.000 0.000 0.104 0.048 0.008
#> SRR1177742 3 0.1765 0.7976 0.000 0.000 0.904 0.000 0.000 0.096
#> SRR1177743 1 0.3925 0.4923 0.744 0.000 0.008 0.024 0.004 0.220
#> SRR1177744 3 0.6342 0.0800 0.264 0.000 0.500 0.024 0.004 0.208
#> SRR1177745 2 0.4153 0.5785 0.028 0.736 0.000 0.000 0.024 0.212
#> SRR1177746 2 0.4931 0.5207 0.120 0.700 0.000 0.000 0.024 0.156
#> SRR1177747 6 0.3686 0.5121 0.016 0.000 0.156 0.036 0.000 0.792
#> SRR1177748 3 0.0458 0.8046 0.000 0.000 0.984 0.000 0.000 0.016
#> SRR1177749 1 0.4290 0.5039 0.612 0.000 0.000 0.364 0.004 0.020
#> SRR1177750 1 0.1490 0.6085 0.948 0.024 0.000 0.008 0.016 0.004
#> SRR1177751 1 0.3548 0.5378 0.812 0.112 0.000 0.000 0.008 0.068
#> SRR1177752 1 0.1327 0.6294 0.936 0.000 0.000 0.064 0.000 0.000
#> SRR1177753 1 0.2390 0.6293 0.900 0.012 0.000 0.060 0.024 0.004
#> SRR1177754 1 0.3825 0.5077 0.788 0.000 0.128 0.000 0.076 0.008
#> SRR1177755 4 0.4127 -0.0360 0.400 0.008 0.000 0.588 0.000 0.004
#> SRR1177756 1 0.3390 0.6092 0.780 0.008 0.000 0.200 0.012 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["CV", "hclust"]
# you can also extract it by
# res = res_list["CV:hclust"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'CV' method.
#> Subgroups are detected by 'hclust' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 6.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.237 0.469 0.702 0.3982 0.806 0.806
#> 3 3 0.183 0.359 0.691 0.2150 0.727 0.666
#> 4 4 0.224 0.273 0.665 0.0616 0.583 0.450
#> 5 5 0.297 0.489 0.699 0.0657 0.629 0.485
#> 6 6 0.319 0.578 0.736 0.0491 0.824 0.688
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 6
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 1.000 0.8658 0.496 0.504
#> SRR1026871 2 1.000 0.8658 0.496 0.504
#> SRR1026872 1 1.000 -0.8547 0.504 0.496
#> SRR1026873 1 0.971 0.6483 0.600 0.400
#> SRR1026874 1 0.985 0.6430 0.572 0.428
#> SRR1026875 2 0.985 0.9894 0.428 0.572
#> SRR1026876 2 0.985 0.9894 0.428 0.572
#> SRR1026877 1 0.985 0.6430 0.572 0.428
#> SRR1026878 1 0.985 0.6430 0.572 0.428
#> SRR1026879 1 0.983 0.6443 0.576 0.424
#> SRR1026880 1 0.983 0.6443 0.576 0.424
#> SRR1026881 1 0.949 -0.5169 0.632 0.368
#> SRR1026882 1 0.949 -0.5169 0.632 0.368
#> SRR1026883 1 0.949 -0.5169 0.632 0.368
#> SRR1026884 1 0.949 -0.5169 0.632 0.368
#> SRR1026885 1 0.327 0.5027 0.940 0.060
#> SRR1026886 1 0.327 0.5027 0.940 0.060
#> SRR1026887 1 0.753 0.6105 0.784 0.216
#> SRR1026888 1 0.753 0.6105 0.784 0.216
#> SRR1026889 1 0.973 -0.6226 0.596 0.404
#> SRR1026890 1 0.963 -0.5799 0.612 0.388
#> SRR1026891 1 0.260 0.5430 0.956 0.044
#> SRR1026892 1 0.260 0.5430 0.956 0.044
#> SRR1026893 1 0.985 0.6430 0.572 0.428
#> SRR1026894 1 0.985 0.6430 0.572 0.428
#> SRR1026895 1 0.653 0.2344 0.832 0.168
#> SRR1026896 1 0.653 0.2344 0.832 0.168
#> SRR1026897 1 0.985 0.6430 0.572 0.428
#> SRR1026898 1 0.983 0.6443 0.576 0.424
#> SRR1026899 1 0.983 0.6443 0.576 0.424
#> SRR1026900 1 0.634 0.2597 0.840 0.160
#> SRR1026901 1 0.895 -0.1213 0.688 0.312
#> SRR1026902 1 0.416 0.4596 0.916 0.084
#> SRR1026903 1 0.416 0.4596 0.916 0.084
#> SRR1026904 1 0.416 0.4596 0.916 0.084
#> SRR1026905 1 0.416 0.4596 0.916 0.084
#> SRR1026906 2 0.985 0.9894 0.428 0.572
#> SRR1026907 2 0.985 0.9894 0.428 0.572
#> SRR1026908 2 0.985 0.9894 0.428 0.572
#> SRR1026909 2 0.985 0.9894 0.428 0.572
#> SRR1026910 1 0.443 0.4683 0.908 0.092
#> SRR1026911 1 0.443 0.4683 0.908 0.092
#> SRR1026912 1 0.697 0.5442 0.812 0.188
#> SRR1026913 1 0.697 0.5442 0.812 0.188
#> SRR1026914 1 0.952 -0.5321 0.628 0.372
#> SRR1026915 1 0.952 -0.5321 0.628 0.372
#> SRR1026916 1 0.952 -0.5321 0.628 0.372
#> SRR1026917 1 0.952 -0.5321 0.628 0.372
#> SRR1026918 1 0.958 -0.5518 0.620 0.380
#> SRR1026919 1 0.958 -0.5518 0.620 0.380
#> SRR1026920 1 0.958 -0.5518 0.620 0.380
#> SRR1026921 1 0.958 -0.5518 0.620 0.380
#> SRR1026922 1 0.999 -0.8217 0.520 0.480
#> SRR1026923 1 1.000 -0.7943 0.512 0.488
#> SRR1026924 1 0.430 0.4229 0.912 0.088
#> SRR1026925 1 0.985 0.6430 0.572 0.428
#> SRR1026926 1 0.118 0.5308 0.984 0.016
#> SRR1026927 1 0.118 0.5308 0.984 0.016
#> SRR1026928 1 0.443 0.4150 0.908 0.092
#> SRR1026929 1 0.985 0.6430 0.572 0.428
#> SRR1026930 1 0.821 -0.1241 0.744 0.256
#> SRR1026931 2 0.985 0.9894 0.428 0.572
#> SRR1026932 2 0.985 0.9894 0.428 0.572
#> SRR1026933 2 0.985 0.9894 0.428 0.572
#> SRR1026934 2 0.985 0.9894 0.428 0.572
#> SRR1026935 2 0.985 0.9894 0.428 0.572
#> SRR1026936 1 0.644 0.2285 0.836 0.164
#> SRR1026937 1 0.644 0.2285 0.836 0.164
#> SRR1026938 1 0.963 -0.5754 0.612 0.388
#> SRR1026939 1 0.963 -0.5754 0.612 0.388
#> SRR1026940 1 0.529 0.6073 0.880 0.120
#> SRR1026941 1 0.985 0.6430 0.572 0.428
#> SRR1026942 1 0.753 0.6437 0.784 0.216
#> SRR1026943 1 0.753 0.6437 0.784 0.216
#> SRR1026944 1 0.753 0.6436 0.784 0.216
#> SRR1026945 1 0.985 0.6430 0.572 0.428
#> SRR1026947 2 0.985 0.9894 0.428 0.572
#> SRR1026946 2 0.985 0.9894 0.428 0.572
#> SRR1026948 2 0.985 0.9894 0.428 0.572
#> SRR1026949 1 0.689 0.3056 0.816 0.184
#> SRR1026950 1 0.416 0.5829 0.916 0.084
#> SRR1026951 1 0.416 0.5829 0.916 0.084
#> SRR1026952 1 0.767 0.6466 0.776 0.224
#> SRR1026953 1 0.985 0.6430 0.572 0.428
#> SRR1026954 1 0.242 0.5076 0.960 0.040
#> SRR1026955 2 0.985 0.9894 0.428 0.572
#> SRR1026956 1 0.373 0.5616 0.928 0.072
#> SRR1026957 1 0.961 -0.5654 0.616 0.384
#> SRR1026958 1 0.295 0.5513 0.948 0.052
#> SRR1026959 2 0.985 0.9894 0.428 0.572
#> SRR1026960 1 0.204 0.4978 0.968 0.032
#> SRR1026961 1 0.204 0.4978 0.968 0.032
#> SRR1026962 1 0.913 0.6540 0.672 0.328
#> SRR1026963 1 0.985 0.6430 0.572 0.428
#> SRR1026964 1 0.295 0.4808 0.948 0.052
#> SRR1026965 1 0.295 0.4808 0.948 0.052
#> SRR1026966 1 0.985 0.6430 0.572 0.428
#> SRR1026967 1 0.985 0.6430 0.572 0.428
#> SRR1026968 1 0.204 0.5066 0.968 0.032
#> SRR1026969 1 0.204 0.5066 0.968 0.032
#> SRR1026970 1 0.184 0.5115 0.972 0.028
#> SRR1026971 1 0.184 0.5115 0.972 0.028
#> SRR1026972 1 0.184 0.5115 0.972 0.028
#> SRR1026973 1 0.184 0.5115 0.972 0.028
#> SRR1026974 1 0.615 0.6240 0.848 0.152
#> SRR1026975 1 0.615 0.6240 0.848 0.152
#> SRR1026976 1 0.563 0.6165 0.868 0.132
#> SRR1026977 1 0.563 0.6165 0.868 0.132
#> SRR1026978 1 0.278 0.5088 0.952 0.048
#> SRR1026979 1 0.985 0.6430 0.572 0.428
#> SRR1026980 1 0.518 0.4967 0.884 0.116
#> SRR1026981 1 0.963 0.6488 0.612 0.388
#> SRR1026982 1 0.443 0.4153 0.908 0.092
#> SRR1026983 1 0.443 0.4153 0.908 0.092
#> SRR1026984 1 0.443 0.4153 0.908 0.092
#> SRR1026985 1 0.443 0.4153 0.908 0.092
#> SRR1026986 1 0.278 0.4769 0.952 0.048
#> SRR1026987 1 0.278 0.4769 0.952 0.048
#> SRR1026988 1 0.985 0.6430 0.572 0.428
#> SRR1026989 1 0.985 0.6430 0.572 0.428
#> SRR1026990 1 0.204 0.5231 0.968 0.032
#> SRR1026991 1 0.985 0.6430 0.572 0.428
#> SRR1026992 1 0.936 0.6544 0.648 0.352
#> SRR1026993 1 0.814 0.6504 0.748 0.252
#> SRR1026994 1 0.689 0.1994 0.816 0.184
#> SRR1026995 1 0.689 0.1994 0.816 0.184
#> SRR1026996 1 0.184 0.5191 0.972 0.028
#> SRR1026997 1 0.184 0.5191 0.972 0.028
#> SRR1026998 1 0.985 0.6430 0.572 0.428
#> SRR1026999 1 0.985 0.6430 0.572 0.428
#> SRR1027000 1 0.795 0.6456 0.760 0.240
#> SRR1027001 1 0.985 0.6430 0.572 0.428
#> SRR1027002 1 0.443 0.4486 0.908 0.092
#> SRR1027003 1 0.714 0.1433 0.804 0.196
#> SRR1027004 1 0.839 0.6529 0.732 0.268
#> SRR1027005 1 0.985 0.6430 0.572 0.428
#> SRR1027006 1 0.949 0.6523 0.632 0.368
#> SRR1027007 1 0.327 0.5442 0.940 0.060
#> SRR1027008 1 0.795 0.6481 0.760 0.240
#> SRR1027009 1 0.985 0.6430 0.572 0.428
#> SRR1027010 1 0.981 0.6453 0.580 0.420
#> SRR1027011 1 0.985 0.6430 0.572 0.428
#> SRR1177668 1 0.983 0.6443 0.576 0.424
#> SRR1177667 1 0.983 0.6443 0.576 0.424
#> SRR1177669 1 0.981 0.6453 0.580 0.420
#> SRR1177670 1 0.985 0.6430 0.572 0.428
#> SRR1177671 2 0.985 0.9894 0.428 0.572
#> SRR1177672 1 0.985 0.6430 0.572 0.428
#> SRR1177673 1 0.985 0.6430 0.572 0.428
#> SRR1177674 1 0.985 0.6430 0.572 0.428
#> SRR1177675 1 0.921 0.6538 0.664 0.336
#> SRR1177676 1 0.985 0.6430 0.572 0.428
#> SRR1177677 1 0.795 0.6476 0.760 0.240
#> SRR1177678 1 0.961 0.6515 0.616 0.384
#> SRR1177679 2 0.985 0.9894 0.428 0.572
#> SRR1177680 1 0.895 -0.2919 0.688 0.312
#> SRR1177681 1 0.881 0.6539 0.700 0.300
#> SRR1177682 1 0.886 0.6541 0.696 0.304
#> SRR1177683 2 0.985 0.9894 0.428 0.572
#> SRR1177684 2 0.985 0.9894 0.428 0.572
#> SRR1177685 1 0.969 0.6495 0.604 0.396
#> SRR1177686 1 0.985 0.6430 0.572 0.428
#> SRR1177687 1 0.327 0.4714 0.940 0.060
#> SRR1177688 1 0.327 0.4714 0.940 0.060
#> SRR1177689 1 0.671 0.6240 0.824 0.176
#> SRR1177690 1 0.671 0.6240 0.824 0.176
#> SRR1177691 1 0.966 -0.6012 0.608 0.392
#> SRR1177692 1 0.966 -0.6012 0.608 0.392
#> SRR1177693 1 0.999 -0.7879 0.520 0.480
#> SRR1177694 1 0.961 -0.5635 0.616 0.384
#> SRR1177695 1 0.745 0.6410 0.788 0.212
#> SRR1177697 1 0.541 0.6144 0.876 0.124
#> SRR1177696 1 0.745 0.6410 0.788 0.212
#> SRR1177698 1 0.985 0.6430 0.572 0.428
#> SRR1177700 1 0.506 0.5298 0.888 0.112
#> SRR1177701 1 0.327 0.5803 0.940 0.060
#> SRR1177702 1 0.985 0.6430 0.572 0.428
#> SRR1177703 1 0.518 0.6100 0.884 0.116
#> SRR1177704 1 0.981 0.6453 0.580 0.420
#> SRR1177705 1 0.745 0.6442 0.788 0.212
#> SRR1177706 1 0.876 -0.2878 0.704 0.296
#> SRR1177707 1 0.343 0.5826 0.936 0.064
#> SRR1177708 1 0.343 0.5826 0.936 0.064
#> SRR1177709 1 0.983 0.6443 0.576 0.424
#> SRR1177710 1 0.983 0.6443 0.576 0.424
#> SRR1177711 1 0.943 0.6528 0.640 0.360
#> SRR1177712 1 0.983 0.6442 0.576 0.424
#> SRR1177714 2 0.985 0.9894 0.428 0.572
#> SRR1177713 1 0.985 0.6430 0.572 0.428
#> SRR1177715 1 0.929 -0.4587 0.656 0.344
#> SRR1177716 1 0.985 0.6430 0.572 0.428
#> SRR1177717 1 0.909 0.6543 0.676 0.324
#> SRR1177718 1 0.946 0.6528 0.636 0.364
#> SRR1177719 1 0.552 0.6190 0.872 0.128
#> SRR1177720 1 0.985 0.6430 0.572 0.428
#> SRR1177721 2 0.985 0.9894 0.428 0.572
#> SRR1177722 2 0.985 0.9894 0.428 0.572
#> SRR1177723 1 0.909 0.6541 0.676 0.324
#> SRR1177725 1 0.839 0.6526 0.732 0.268
#> SRR1177724 1 0.909 0.6541 0.676 0.324
#> SRR1177726 1 0.985 0.6430 0.572 0.428
#> SRR1177727 1 0.981 0.6453 0.580 0.420
#> SRR1177728 1 0.985 0.6430 0.572 0.428
#> SRR1177729 1 0.881 0.6541 0.700 0.300
#> SRR1177730 1 0.985 0.6430 0.572 0.428
#> SRR1177731 1 0.981 0.6453 0.580 0.420
#> SRR1177732 1 0.981 0.6453 0.580 0.420
#> SRR1177733 1 0.518 0.6052 0.884 0.116
#> SRR1177734 1 0.518 0.6052 0.884 0.116
#> SRR1177735 1 0.518 0.6052 0.884 0.116
#> SRR1177736 1 0.518 0.6052 0.884 0.116
#> SRR1177737 1 0.997 -0.7915 0.532 0.468
#> SRR1177738 1 0.929 0.0845 0.656 0.344
#> SRR1177739 1 0.541 0.6091 0.876 0.124
#> SRR1177740 1 0.541 0.6091 0.876 0.124
#> SRR1177741 1 0.981 0.6453 0.580 0.420
#> SRR1177742 1 0.985 0.6430 0.572 0.428
#> SRR1177743 1 0.983 0.6443 0.576 0.424
#> SRR1177744 1 0.983 0.6443 0.576 0.424
#> SRR1177745 1 0.730 0.1416 0.796 0.204
#> SRR1177746 1 0.814 -0.1088 0.748 0.252
#> SRR1177747 1 0.981 0.6453 0.580 0.420
#> SRR1177748 1 0.985 0.6430 0.572 0.428
#> SRR1177749 1 0.958 0.6516 0.620 0.380
#> SRR1177750 1 0.958 0.6516 0.620 0.380
#> SRR1177751 1 0.855 0.6535 0.720 0.280
#> SRR1177752 1 0.855 0.6535 0.720 0.280
#> SRR1177753 1 0.963 0.6509 0.612 0.388
#> SRR1177754 1 0.963 0.6509 0.612 0.388
#> SRR1177755 1 0.469 0.6019 0.900 0.100
#> SRR1177756 1 0.402 0.5895 0.920 0.080
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 1 0.6302 -0.7664 0.520 0.480 0.000
#> SRR1026871 1 0.6302 -0.7664 0.520 0.480 0.000
#> SRR1026872 1 0.6295 -0.7476 0.528 0.472 0.000
#> SRR1026873 1 0.6905 -0.1722 0.544 0.016 0.440
#> SRR1026874 3 0.5105 0.7693 0.124 0.048 0.828
#> SRR1026875 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026876 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026877 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026878 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026879 1 0.6952 -0.2902 0.504 0.016 0.480
#> SRR1026880 1 0.6952 -0.2902 0.504 0.016 0.480
#> SRR1026881 1 0.5859 -0.3410 0.656 0.344 0.000
#> SRR1026882 1 0.5859 -0.3410 0.656 0.344 0.000
#> SRR1026883 1 0.5859 -0.3410 0.656 0.344 0.000
#> SRR1026884 1 0.5859 -0.3410 0.656 0.344 0.000
#> SRR1026885 1 0.1919 0.5548 0.956 0.020 0.024
#> SRR1026886 1 0.1919 0.5548 0.956 0.020 0.024
#> SRR1026887 1 0.6869 0.0329 0.560 0.016 0.424
#> SRR1026888 1 0.6869 0.0329 0.560 0.016 0.424
#> SRR1026889 1 0.6045 -0.4677 0.620 0.380 0.000
#> SRR1026890 1 0.5968 -0.4220 0.636 0.364 0.000
#> SRR1026891 1 0.2280 0.5810 0.940 0.008 0.052
#> SRR1026892 1 0.2280 0.5810 0.940 0.008 0.052
#> SRR1026893 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026894 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026895 1 0.4326 0.3636 0.844 0.144 0.012
#> SRR1026896 1 0.4326 0.3636 0.844 0.144 0.012
#> SRR1026897 3 0.5105 0.7693 0.124 0.048 0.828
#> SRR1026898 1 0.6952 -0.2902 0.504 0.016 0.480
#> SRR1026899 1 0.6952 -0.2902 0.504 0.016 0.480
#> SRR1026900 1 0.4128 0.3912 0.856 0.132 0.012
#> SRR1026901 1 0.7003 0.0575 0.692 0.248 0.060
#> SRR1026902 1 0.2116 0.5262 0.948 0.040 0.012
#> SRR1026903 1 0.2116 0.5262 0.948 0.040 0.012
#> SRR1026904 1 0.2116 0.5262 0.948 0.040 0.012
#> SRR1026905 1 0.2116 0.5262 0.948 0.040 0.012
#> SRR1026906 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026907 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026908 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026909 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026910 1 0.2663 0.5321 0.932 0.044 0.024
#> SRR1026911 1 0.2663 0.5321 0.932 0.044 0.024
#> SRR1026912 1 0.7034 0.3753 0.668 0.048 0.284
#> SRR1026913 1 0.7034 0.3753 0.668 0.048 0.284
#> SRR1026914 1 0.5882 -0.3562 0.652 0.348 0.000
#> SRR1026915 1 0.5882 -0.3562 0.652 0.348 0.000
#> SRR1026916 1 0.5882 -0.3562 0.652 0.348 0.000
#> SRR1026917 1 0.5882 -0.3562 0.652 0.348 0.000
#> SRR1026918 1 0.5926 -0.3835 0.644 0.356 0.000
#> SRR1026919 1 0.5926 -0.3835 0.644 0.356 0.000
#> SRR1026920 1 0.5926 -0.3835 0.644 0.356 0.000
#> SRR1026921 1 0.5926 -0.3835 0.644 0.356 0.000
#> SRR1026922 1 0.6286 -0.7158 0.536 0.464 0.000
#> SRR1026923 1 0.6931 -0.6938 0.528 0.456 0.016
#> SRR1026924 1 0.2998 0.5056 0.916 0.068 0.016
#> SRR1026925 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026926 1 0.1647 0.5735 0.960 0.004 0.036
#> SRR1026927 1 0.1647 0.5735 0.960 0.004 0.036
#> SRR1026928 1 0.3091 0.4950 0.912 0.072 0.016
#> SRR1026929 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026930 1 0.5639 0.1046 0.752 0.232 0.016
#> SRR1026931 2 0.7403 0.6495 0.216 0.688 0.096
#> SRR1026932 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026933 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026934 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026935 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026936 1 0.3619 0.3539 0.864 0.136 0.000
#> SRR1026937 1 0.3619 0.3539 0.864 0.136 0.000
#> SRR1026938 1 0.5968 -0.4101 0.636 0.364 0.000
#> SRR1026939 1 0.5968 -0.4101 0.636 0.364 0.000
#> SRR1026940 1 0.4164 0.5647 0.848 0.008 0.144
#> SRR1026941 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026942 1 0.5493 0.4330 0.756 0.012 0.232
#> SRR1026943 1 0.5493 0.4330 0.756 0.012 0.232
#> SRR1026944 1 0.5493 0.4333 0.756 0.012 0.232
#> SRR1026945 3 0.5109 0.8912 0.212 0.008 0.780
#> SRR1026947 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026946 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026948 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026949 1 0.4618 0.3987 0.840 0.136 0.024
#> SRR1026950 1 0.3459 0.5984 0.892 0.012 0.096
#> SRR1026951 1 0.3459 0.5984 0.892 0.012 0.096
#> SRR1026952 1 0.5659 0.4081 0.740 0.012 0.248
#> SRR1026953 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026954 1 0.1482 0.5600 0.968 0.012 0.020
#> SRR1026955 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1026956 1 0.2774 0.5906 0.920 0.008 0.072
#> SRR1026957 1 0.5948 -0.3978 0.640 0.360 0.000
#> SRR1026958 1 0.2550 0.5860 0.932 0.012 0.056
#> SRR1026959 2 0.7298 0.6558 0.220 0.692 0.088
#> SRR1026960 1 0.0848 0.5518 0.984 0.008 0.008
#> SRR1026961 1 0.0848 0.5518 0.984 0.008 0.008
#> SRR1026962 1 0.6566 0.1519 0.636 0.016 0.348
#> SRR1026963 3 0.5105 0.7693 0.124 0.048 0.828
#> SRR1026964 1 0.1905 0.5436 0.956 0.028 0.016
#> SRR1026965 1 0.1905 0.5436 0.956 0.028 0.016
#> SRR1026966 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026967 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026968 1 0.0829 0.5579 0.984 0.004 0.012
#> SRR1026969 1 0.0829 0.5579 0.984 0.004 0.012
#> SRR1026970 1 0.0983 0.5615 0.980 0.004 0.016
#> SRR1026971 1 0.0983 0.5615 0.980 0.004 0.016
#> SRR1026972 1 0.0983 0.5615 0.980 0.004 0.016
#> SRR1026973 1 0.0983 0.5615 0.980 0.004 0.016
#> SRR1026974 1 0.4409 0.5274 0.824 0.004 0.172
#> SRR1026975 1 0.4409 0.5274 0.824 0.004 0.172
#> SRR1026976 1 0.3941 0.5488 0.844 0.000 0.156
#> SRR1026977 1 0.3941 0.5488 0.844 0.000 0.156
#> SRR1026978 1 0.2313 0.5637 0.944 0.024 0.032
#> SRR1026979 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026980 1 0.4194 0.5546 0.876 0.060 0.064
#> SRR1026981 3 0.5986 0.7903 0.284 0.012 0.704
#> SRR1026982 1 0.2845 0.4941 0.920 0.068 0.012
#> SRR1026983 1 0.2845 0.4941 0.920 0.068 0.012
#> SRR1026984 1 0.2845 0.4941 0.920 0.068 0.012
#> SRR1026985 1 0.2845 0.4941 0.920 0.068 0.012
#> SRR1026986 1 0.2031 0.5421 0.952 0.032 0.016
#> SRR1026987 1 0.2031 0.5421 0.952 0.032 0.016
#> SRR1026988 3 0.6955 0.3262 0.488 0.016 0.496
#> SRR1026989 3 0.6584 0.6088 0.380 0.012 0.608
#> SRR1026990 1 0.1399 0.5689 0.968 0.004 0.028
#> SRR1026991 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026992 1 0.6686 0.0754 0.612 0.016 0.372
#> SRR1026993 1 0.5956 0.3699 0.720 0.016 0.264
#> SRR1026994 1 0.5412 0.3481 0.796 0.172 0.032
#> SRR1026995 1 0.5412 0.3481 0.796 0.172 0.032
#> SRR1026996 1 0.1267 0.5663 0.972 0.004 0.024
#> SRR1026997 1 0.1267 0.5663 0.972 0.004 0.024
#> SRR1026998 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1026999 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1027000 1 0.5737 0.3949 0.732 0.012 0.256
#> SRR1027001 3 0.6816 0.3791 0.472 0.012 0.516
#> SRR1027002 1 0.2846 0.5239 0.924 0.056 0.020
#> SRR1027003 1 0.4749 0.3070 0.816 0.172 0.012
#> SRR1027004 1 0.6172 0.2828 0.680 0.012 0.308
#> SRR1027005 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1027006 1 0.6608 -0.1289 0.560 0.008 0.432
#> SRR1027007 1 0.2550 0.5828 0.932 0.012 0.056
#> SRR1027008 1 0.5775 0.3903 0.728 0.012 0.260
#> SRR1027009 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1027010 1 0.6952 -0.2896 0.504 0.016 0.480
#> SRR1027011 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1177668 1 0.6952 -0.2902 0.504 0.016 0.480
#> SRR1177667 1 0.6952 -0.2902 0.504 0.016 0.480
#> SRR1177669 3 0.6954 0.3374 0.484 0.016 0.500
#> SRR1177670 3 0.6769 0.5844 0.392 0.016 0.592
#> SRR1177671 2 0.7403 0.6495 0.216 0.688 0.096
#> SRR1177672 3 0.5202 0.8831 0.220 0.008 0.772
#> SRR1177673 1 0.6955 -0.3256 0.496 0.016 0.488
#> SRR1177674 3 0.4883 0.8963 0.208 0.004 0.788
#> SRR1177675 1 0.6608 0.1250 0.628 0.016 0.356
#> SRR1177676 3 0.5156 0.8874 0.216 0.008 0.776
#> SRR1177677 1 0.5775 0.3906 0.728 0.012 0.260
#> SRR1177678 1 0.6888 -0.1336 0.552 0.016 0.432
#> SRR1177679 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1177680 1 0.5656 -0.1230 0.712 0.284 0.004
#> SRR1177681 1 0.6255 0.2505 0.668 0.012 0.320
#> SRR1177682 1 0.6396 0.2417 0.664 0.016 0.320
#> SRR1177683 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1177684 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1177685 1 0.6919 -0.1936 0.536 0.016 0.448
#> SRR1177686 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1177687 1 0.2527 0.5365 0.936 0.044 0.020
#> SRR1177688 1 0.2527 0.5365 0.936 0.044 0.020
#> SRR1177689 1 0.4968 0.5189 0.800 0.012 0.188
#> SRR1177690 1 0.4968 0.5189 0.800 0.012 0.188
#> SRR1177691 1 0.6228 -0.4652 0.624 0.372 0.004
#> SRR1177692 1 0.6228 -0.4652 0.624 0.372 0.004
#> SRR1177693 1 0.6793 -0.6833 0.536 0.452 0.012
#> SRR1177694 1 0.5948 -0.3966 0.640 0.360 0.000
#> SRR1177695 1 0.5450 0.4471 0.760 0.012 0.228
#> SRR1177697 1 0.4228 0.5575 0.844 0.008 0.148
#> SRR1177696 1 0.5450 0.4471 0.760 0.012 0.228
#> SRR1177698 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1177700 1 0.3434 0.5715 0.904 0.032 0.064
#> SRR1177701 1 0.2796 0.5984 0.908 0.000 0.092
#> SRR1177702 3 0.5105 0.7693 0.124 0.048 0.828
#> SRR1177703 1 0.3752 0.5628 0.856 0.000 0.144
#> SRR1177704 1 0.9319 -0.3246 0.464 0.168 0.368
#> SRR1177705 1 0.5325 0.4242 0.748 0.004 0.248
#> SRR1177706 1 0.5553 -0.0712 0.724 0.272 0.004
#> SRR1177707 1 0.2878 0.5963 0.904 0.000 0.096
#> SRR1177708 1 0.2878 0.5963 0.904 0.000 0.096
#> SRR1177709 1 0.6954 -0.3027 0.500 0.016 0.484
#> SRR1177710 1 0.6954 -0.3027 0.500 0.016 0.484
#> SRR1177711 1 0.6753 0.0160 0.596 0.016 0.388
#> SRR1177712 3 0.7394 0.3736 0.472 0.032 0.496
#> SRR1177714 2 0.7403 0.6495 0.216 0.688 0.096
#> SRR1177713 3 0.9329 0.4536 0.400 0.164 0.436
#> SRR1177715 1 0.5956 -0.2934 0.672 0.324 0.004
#> SRR1177716 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1177717 1 0.6543 0.1599 0.640 0.016 0.344
#> SRR1177718 1 0.6769 -0.0069 0.592 0.016 0.392
#> SRR1177719 1 0.4062 0.5442 0.836 0.000 0.164
#> SRR1177720 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1177721 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1177722 2 0.6267 0.9170 0.452 0.548 0.000
#> SRR1177723 1 0.6543 0.1661 0.640 0.016 0.344
#> SRR1177725 1 0.6051 0.3104 0.696 0.012 0.292
#> SRR1177724 1 0.6543 0.1661 0.640 0.016 0.344
#> SRR1177726 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1177727 1 0.6948 -0.2658 0.512 0.016 0.472
#> SRR1177728 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1177729 1 0.6396 0.2314 0.664 0.016 0.320
#> SRR1177730 3 0.5202 0.8832 0.220 0.008 0.772
#> SRR1177731 1 0.6948 -0.2659 0.512 0.016 0.472
#> SRR1177732 1 0.6948 -0.2659 0.512 0.016 0.472
#> SRR1177733 1 0.4099 0.5681 0.852 0.008 0.140
#> SRR1177734 1 0.4099 0.5681 0.852 0.008 0.140
#> SRR1177735 1 0.4099 0.5681 0.852 0.008 0.140
#> SRR1177736 1 0.4099 0.5681 0.852 0.008 0.140
#> SRR1177737 1 0.6451 -0.6721 0.560 0.436 0.004
#> SRR1177738 1 0.8021 0.1782 0.644 0.232 0.124
#> SRR1177739 1 0.4228 0.5610 0.844 0.008 0.148
#> SRR1177740 1 0.4228 0.5610 0.844 0.008 0.148
#> SRR1177741 1 0.6948 -0.2659 0.512 0.016 0.472
#> SRR1177742 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1177743 1 0.6948 -0.2671 0.512 0.016 0.472
#> SRR1177744 1 0.6948 -0.2671 0.512 0.016 0.472
#> SRR1177745 1 0.4953 0.2975 0.808 0.176 0.016
#> SRR1177746 1 0.4887 0.0715 0.772 0.228 0.000
#> SRR1177747 1 0.6952 -0.2896 0.504 0.016 0.480
#> SRR1177748 3 0.4834 0.9001 0.204 0.004 0.792
#> SRR1177749 1 0.6745 -0.1150 0.560 0.012 0.428
#> SRR1177750 1 0.6745 -0.1150 0.560 0.012 0.428
#> SRR1177751 1 0.6143 0.2865 0.684 0.012 0.304
#> SRR1177752 1 0.6143 0.2865 0.684 0.012 0.304
#> SRR1177753 1 0.6888 -0.1335 0.552 0.016 0.432
#> SRR1177754 1 0.6888 -0.1335 0.552 0.016 0.432
#> SRR1177755 1 0.3846 0.5799 0.876 0.016 0.108
#> SRR1177756 1 0.3295 0.5926 0.896 0.008 0.096
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.1867 0.73718 0.072 0.928 0.000 0.000
#> SRR1026871 2 0.1867 0.73718 0.072 0.928 0.000 0.000
#> SRR1026872 2 0.2011 0.74308 0.080 0.920 0.000 0.000
#> SRR1026873 1 0.2197 0.33666 0.928 0.024 0.048 0.000
#> SRR1026874 3 0.5586 0.71276 0.452 0.000 0.528 0.020
#> SRR1026875 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026876 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026877 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026878 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026879 1 0.1792 0.27738 0.932 0.000 0.068 0.000
#> SRR1026880 1 0.1792 0.27738 0.932 0.000 0.068 0.000
#> SRR1026881 2 0.3688 0.74312 0.208 0.792 0.000 0.000
#> SRR1026882 2 0.3688 0.74312 0.208 0.792 0.000 0.000
#> SRR1026883 2 0.3688 0.74312 0.208 0.792 0.000 0.000
#> SRR1026884 2 0.3688 0.74312 0.208 0.792 0.000 0.000
#> SRR1026885 1 0.4941 0.11659 0.564 0.436 0.000 0.000
#> SRR1026886 1 0.4941 0.11659 0.564 0.436 0.000 0.000
#> SRR1026887 1 0.7817 0.11120 0.416 0.288 0.296 0.000
#> SRR1026888 1 0.7817 0.11120 0.416 0.288 0.296 0.000
#> SRR1026889 2 0.3311 0.75959 0.172 0.828 0.000 0.000
#> SRR1026890 2 0.3528 0.75494 0.192 0.808 0.000 0.000
#> SRR1026891 1 0.4843 0.21646 0.604 0.396 0.000 0.000
#> SRR1026892 1 0.4843 0.21646 0.604 0.396 0.000 0.000
#> SRR1026893 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026894 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026895 2 0.4925 0.34183 0.428 0.572 0.000 0.000
#> SRR1026896 2 0.4925 0.34183 0.428 0.572 0.000 0.000
#> SRR1026897 3 0.5586 0.71276 0.452 0.000 0.528 0.020
#> SRR1026898 1 0.1792 0.27738 0.932 0.000 0.068 0.000
#> SRR1026899 1 0.1792 0.27738 0.932 0.000 0.068 0.000
#> SRR1026900 2 0.4941 0.30657 0.436 0.564 0.000 0.000
#> SRR1026901 2 0.5808 0.58666 0.312 0.644 0.036 0.008
#> SRR1026902 1 0.4985 0.01690 0.532 0.468 0.000 0.000
#> SRR1026903 1 0.4985 0.01690 0.532 0.468 0.000 0.000
#> SRR1026904 1 0.4985 0.01690 0.532 0.468 0.000 0.000
#> SRR1026905 1 0.4985 0.01690 0.532 0.468 0.000 0.000
#> SRR1026906 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026907 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026908 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026909 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026910 1 0.4977 0.02952 0.540 0.460 0.000 0.000
#> SRR1026911 1 0.4977 0.02952 0.540 0.460 0.000 0.000
#> SRR1026912 1 0.7626 0.00546 0.412 0.384 0.204 0.000
#> SRR1026913 1 0.7626 0.00546 0.412 0.384 0.204 0.000
#> SRR1026914 2 0.3688 0.74519 0.208 0.792 0.000 0.000
#> SRR1026915 2 0.3688 0.74519 0.208 0.792 0.000 0.000
#> SRR1026916 2 0.3688 0.74519 0.208 0.792 0.000 0.000
#> SRR1026917 2 0.3688 0.74519 0.208 0.792 0.000 0.000
#> SRR1026918 2 0.3569 0.75257 0.196 0.804 0.000 0.000
#> SRR1026919 2 0.3569 0.75257 0.196 0.804 0.000 0.000
#> SRR1026920 2 0.3569 0.75257 0.196 0.804 0.000 0.000
#> SRR1026921 2 0.3569 0.75257 0.196 0.804 0.000 0.000
#> SRR1026922 2 0.2334 0.74707 0.088 0.908 0.004 0.000
#> SRR1026923 2 0.3561 0.71432 0.068 0.876 0.040 0.016
#> SRR1026924 1 0.4999 -0.06185 0.508 0.492 0.000 0.000
#> SRR1026925 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026926 1 0.4877 0.19185 0.592 0.408 0.000 0.000
#> SRR1026927 1 0.4877 0.19185 0.592 0.408 0.000 0.000
#> SRR1026928 1 0.5000 -0.08089 0.504 0.496 0.000 0.000
#> SRR1026929 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026930 2 0.4643 0.55583 0.344 0.656 0.000 0.000
#> SRR1026931 4 0.4040 0.99445 0.000 0.248 0.000 0.752
#> SRR1026932 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026933 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026934 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026935 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026936 2 0.4907 0.35074 0.420 0.580 0.000 0.000
#> SRR1026937 2 0.4907 0.35074 0.420 0.580 0.000 0.000
#> SRR1026938 2 0.3486 0.75575 0.188 0.812 0.000 0.000
#> SRR1026939 2 0.3486 0.75575 0.188 0.812 0.000 0.000
#> SRR1026940 1 0.4431 0.37247 0.696 0.304 0.000 0.000
#> SRR1026941 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026942 1 0.3791 0.47715 0.796 0.200 0.004 0.000
#> SRR1026943 1 0.3791 0.47715 0.796 0.200 0.004 0.000
#> SRR1026944 1 0.3791 0.47709 0.796 0.200 0.004 0.000
#> SRR1026945 1 0.4967 -0.54291 0.548 0.000 0.452 0.000
#> SRR1026947 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026946 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026948 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026949 2 0.4955 0.14341 0.444 0.556 0.000 0.000
#> SRR1026950 1 0.4661 0.30479 0.652 0.348 0.000 0.000
#> SRR1026951 1 0.4661 0.30479 0.652 0.348 0.000 0.000
#> SRR1026952 1 0.3626 0.48807 0.812 0.184 0.004 0.000
#> SRR1026953 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026954 1 0.4933 0.13032 0.568 0.432 0.000 0.000
#> SRR1026955 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1026956 1 0.4776 0.25731 0.624 0.376 0.000 0.000
#> SRR1026957 2 0.3528 0.75441 0.192 0.808 0.000 0.000
#> SRR1026958 1 0.4817 0.23082 0.612 0.388 0.000 0.000
#> SRR1026959 4 0.4164 0.98333 0.000 0.264 0.000 0.736
#> SRR1026960 1 0.4948 0.10972 0.560 0.440 0.000 0.000
#> SRR1026961 1 0.4948 0.10972 0.560 0.440 0.000 0.000
#> SRR1026962 1 0.2197 0.44020 0.916 0.080 0.004 0.000
#> SRR1026963 3 0.5586 0.71276 0.452 0.000 0.528 0.020
#> SRR1026964 1 0.4967 0.07492 0.548 0.452 0.000 0.000
#> SRR1026965 1 0.4967 0.07492 0.548 0.452 0.000 0.000
#> SRR1026966 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026967 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026968 1 0.4933 0.13206 0.568 0.432 0.000 0.000
#> SRR1026969 1 0.4933 0.13206 0.568 0.432 0.000 0.000
#> SRR1026970 1 0.4925 0.14373 0.572 0.428 0.000 0.000
#> SRR1026971 1 0.4925 0.14373 0.572 0.428 0.000 0.000
#> SRR1026972 1 0.4925 0.14373 0.572 0.428 0.000 0.000
#> SRR1026973 1 0.4925 0.14373 0.572 0.428 0.000 0.000
#> SRR1026974 1 0.4164 0.41719 0.736 0.264 0.000 0.000
#> SRR1026975 1 0.4164 0.41719 0.736 0.264 0.000 0.000
#> SRR1026976 1 0.4304 0.39750 0.716 0.284 0.000 0.000
#> SRR1026977 1 0.4304 0.39750 0.716 0.284 0.000 0.000
#> SRR1026978 1 0.4933 0.13230 0.568 0.432 0.000 0.000
#> SRR1026979 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026980 1 0.4941 0.09619 0.564 0.436 0.000 0.000
#> SRR1026981 1 0.6235 -0.50535 0.524 0.056 0.420 0.000
#> SRR1026982 1 0.5000 -0.08192 0.504 0.496 0.000 0.000
#> SRR1026983 1 0.5000 -0.08192 0.504 0.496 0.000 0.000
#> SRR1026984 1 0.5000 -0.08192 0.504 0.496 0.000 0.000
#> SRR1026985 1 0.5000 -0.08192 0.504 0.496 0.000 0.000
#> SRR1026986 1 0.4972 0.06163 0.544 0.456 0.000 0.000
#> SRR1026987 1 0.4972 0.06163 0.544 0.456 0.000 0.000
#> SRR1026988 1 0.2149 0.23766 0.912 0.000 0.088 0.000
#> SRR1026989 1 0.3907 -0.13908 0.768 0.000 0.232 0.000
#> SRR1026990 1 0.4898 0.17164 0.584 0.416 0.000 0.000
#> SRR1026991 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026992 1 0.2300 0.41732 0.920 0.064 0.016 0.000
#> SRR1026993 1 0.3718 0.49968 0.820 0.168 0.012 0.000
#> SRR1026994 2 0.4907 0.36791 0.420 0.580 0.000 0.000
#> SRR1026995 2 0.4907 0.36791 0.420 0.580 0.000 0.000
#> SRR1026996 1 0.4907 0.16206 0.580 0.420 0.000 0.000
#> SRR1026997 1 0.4907 0.16206 0.580 0.420 0.000 0.000
#> SRR1026998 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1026999 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1027000 1 0.3810 0.48644 0.804 0.188 0.008 0.000
#> SRR1027001 1 0.2469 0.20108 0.892 0.000 0.108 0.000
#> SRR1027002 1 0.4992 -0.00806 0.524 0.476 0.000 0.000
#> SRR1027003 2 0.4855 0.41400 0.400 0.600 0.000 0.000
#> SRR1027004 1 0.4100 0.47319 0.816 0.148 0.036 0.000
#> SRR1027005 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1027006 1 0.3392 0.34232 0.872 0.056 0.072 0.000
#> SRR1027007 1 0.4843 0.21144 0.604 0.396 0.000 0.000
#> SRR1027008 1 0.3681 0.49430 0.816 0.176 0.008 0.000
#> SRR1027009 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1027010 1 0.2053 0.27853 0.924 0.004 0.072 0.000
#> SRR1027011 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1177668 1 0.1792 0.27738 0.932 0.000 0.068 0.000
#> SRR1177667 1 0.1792 0.27738 0.932 0.000 0.068 0.000
#> SRR1177669 1 0.2466 0.22878 0.900 0.004 0.096 0.000
#> SRR1177670 1 0.3649 -0.07795 0.796 0.000 0.204 0.000
#> SRR1177671 4 0.4040 0.99445 0.000 0.248 0.000 0.752
#> SRR1177672 1 0.4955 -0.53485 0.556 0.000 0.444 0.000
#> SRR1177673 1 0.1940 0.25564 0.924 0.000 0.076 0.000
#> SRR1177674 1 0.4977 -0.54616 0.540 0.000 0.460 0.000
#> SRR1177675 1 0.2053 0.43238 0.924 0.072 0.004 0.000
#> SRR1177676 1 0.4955 -0.53444 0.556 0.000 0.444 0.000
#> SRR1177677 1 0.3583 0.48964 0.816 0.180 0.004 0.000
#> SRR1177678 1 0.2830 0.34842 0.900 0.040 0.060 0.000
#> SRR1177679 2 0.0188 0.67062 0.004 0.996 0.000 0.000
#> SRR1177680 2 0.4250 0.56352 0.276 0.724 0.000 0.000
#> SRR1177681 1 0.2831 0.46986 0.876 0.120 0.004 0.000
#> SRR1177682 1 0.2773 0.46698 0.880 0.116 0.004 0.000
#> SRR1177683 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0188 0.67062 0.004 0.996 0.000 0.000
#> SRR1177685 1 0.2363 0.32877 0.920 0.024 0.056 0.000
#> SRR1177686 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1177687 1 0.4981 0.03811 0.536 0.464 0.000 0.000
#> SRR1177688 1 0.4981 0.03811 0.536 0.464 0.000 0.000
#> SRR1177689 1 0.4164 0.41916 0.736 0.264 0.000 0.000
#> SRR1177690 1 0.4164 0.41916 0.736 0.264 0.000 0.000
#> SRR1177691 2 0.3528 0.75188 0.192 0.808 0.000 0.000
#> SRR1177692 2 0.3528 0.75188 0.192 0.808 0.000 0.000
#> SRR1177693 2 0.3313 0.73401 0.084 0.880 0.028 0.008
#> SRR1177694 2 0.3528 0.75429 0.192 0.808 0.000 0.000
#> SRR1177695 1 0.4086 0.46824 0.776 0.216 0.008 0.000
#> SRR1177697 1 0.4356 0.38803 0.708 0.292 0.000 0.000
#> SRR1177696 1 0.4086 0.46824 0.776 0.216 0.008 0.000
#> SRR1177698 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1177700 1 0.4877 0.16862 0.592 0.408 0.000 0.000
#> SRR1177701 1 0.4661 0.30678 0.652 0.348 0.000 0.000
#> SRR1177702 3 0.5558 0.70329 0.432 0.000 0.548 0.020
#> SRR1177703 1 0.4584 0.38194 0.696 0.300 0.004 0.000
#> SRR1177704 3 0.6932 0.20652 0.396 0.000 0.492 0.112
#> SRR1177705 1 0.3893 0.48196 0.796 0.196 0.008 0.000
#> SRR1177706 2 0.4356 0.63938 0.292 0.708 0.000 0.000
#> SRR1177707 1 0.4643 0.31261 0.656 0.344 0.000 0.000
#> SRR1177708 1 0.4643 0.31261 0.656 0.344 0.000 0.000
#> SRR1177709 1 0.1867 0.27143 0.928 0.000 0.072 0.000
#> SRR1177710 1 0.1867 0.27143 0.928 0.000 0.072 0.000
#> SRR1177711 1 0.2174 0.39791 0.928 0.052 0.020 0.000
#> SRR1177712 1 0.3450 0.06944 0.836 0.000 0.156 0.008
#> SRR1177714 4 0.4040 0.99445 0.000 0.248 0.000 0.752
#> SRR1177713 3 0.7553 0.15090 0.308 0.000 0.476 0.216
#> SRR1177715 2 0.3975 0.70794 0.240 0.760 0.000 0.000
#> SRR1177716 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1177717 1 0.2266 0.44231 0.912 0.084 0.004 0.000
#> SRR1177718 1 0.2089 0.39049 0.932 0.048 0.020 0.000
#> SRR1177719 1 0.4456 0.40230 0.716 0.280 0.004 0.000
#> SRR1177720 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1177721 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.66803 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.2266 0.44437 0.912 0.084 0.004 0.000
#> SRR1177725 1 0.3105 0.48627 0.856 0.140 0.004 0.000
#> SRR1177724 1 0.2266 0.44437 0.912 0.084 0.004 0.000
#> SRR1177726 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1177727 1 0.1902 0.29058 0.932 0.004 0.064 0.000
#> SRR1177728 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1177729 1 0.2654 0.46332 0.888 0.108 0.004 0.000
#> SRR1177730 1 0.4955 -0.53504 0.556 0.000 0.444 0.000
#> SRR1177731 1 0.1902 0.29036 0.932 0.004 0.064 0.000
#> SRR1177732 1 0.1902 0.29036 0.932 0.004 0.064 0.000
#> SRR1177733 1 0.4454 0.36691 0.692 0.308 0.000 0.000
#> SRR1177734 1 0.4454 0.36691 0.692 0.308 0.000 0.000
#> SRR1177735 1 0.4454 0.36691 0.692 0.308 0.000 0.000
#> SRR1177736 1 0.4454 0.36691 0.692 0.308 0.000 0.000
#> SRR1177737 2 0.2773 0.75943 0.116 0.880 0.000 0.004
#> SRR1177738 2 0.6600 0.45014 0.348 0.572 0.072 0.008
#> SRR1177739 1 0.4406 0.37774 0.700 0.300 0.000 0.000
#> SRR1177740 1 0.4406 0.37774 0.700 0.300 0.000 0.000
#> SRR1177741 1 0.1902 0.29036 0.932 0.004 0.064 0.000
#> SRR1177742 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1177743 1 0.1637 0.28958 0.940 0.000 0.060 0.000
#> SRR1177744 1 0.1637 0.28958 0.940 0.000 0.060 0.000
#> SRR1177745 2 0.4855 0.41809 0.400 0.600 0.000 0.000
#> SRR1177746 2 0.4585 0.55373 0.332 0.668 0.000 0.000
#> SRR1177747 1 0.2053 0.27853 0.924 0.004 0.072 0.000
#> SRR1177748 1 0.4981 -0.55009 0.536 0.000 0.464 0.000
#> SRR1177749 1 0.2840 0.35512 0.900 0.044 0.056 0.000
#> SRR1177750 1 0.2840 0.35512 0.900 0.044 0.056 0.000
#> SRR1177751 1 0.2944 0.47994 0.868 0.128 0.004 0.000
#> SRR1177752 1 0.2944 0.47994 0.868 0.128 0.004 0.000
#> SRR1177753 1 0.2660 0.34833 0.908 0.036 0.056 0.000
#> SRR1177754 1 0.2660 0.34833 0.908 0.036 0.056 0.000
#> SRR1177755 1 0.4500 0.34858 0.684 0.316 0.000 0.000
#> SRR1177756 1 0.4605 0.32052 0.664 0.336 0.000 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.4219 0.82701 0.416 0.584 0.000 0.000 0.000
#> SRR1026871 2 0.4219 0.82701 0.416 0.584 0.000 0.000 0.000
#> SRR1026872 2 0.4235 0.81338 0.424 0.576 0.000 0.000 0.000
#> SRR1026873 1 0.5058 0.32018 0.576 0.040 0.384 0.000 0.000
#> SRR1026874 3 0.4865 0.48472 0.044 0.168 0.748 0.040 0.000
#> SRR1026875 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026876 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026877 3 0.1732 0.90767 0.080 0.000 0.920 0.000 0.000
#> SRR1026878 3 0.1732 0.90767 0.080 0.000 0.920 0.000 0.000
#> SRR1026879 1 0.5143 0.23367 0.532 0.040 0.428 0.000 0.000
#> SRR1026880 1 0.5143 0.23367 0.532 0.040 0.428 0.000 0.000
#> SRR1026881 1 0.4219 -0.39446 0.584 0.416 0.000 0.000 0.000
#> SRR1026882 1 0.4219 -0.39446 0.584 0.416 0.000 0.000 0.000
#> SRR1026883 1 0.4219 -0.39446 0.584 0.416 0.000 0.000 0.000
#> SRR1026884 1 0.4219 -0.39446 0.584 0.416 0.000 0.000 0.000
#> SRR1026885 1 0.1845 0.57662 0.928 0.056 0.016 0.000 0.000
#> SRR1026886 1 0.1845 0.57662 0.928 0.056 0.016 0.000 0.000
#> SRR1026887 1 0.5227 0.13738 0.508 0.044 0.448 0.000 0.000
#> SRR1026888 1 0.5227 0.13738 0.508 0.044 0.448 0.000 0.000
#> SRR1026889 1 0.4291 -0.53902 0.536 0.464 0.000 0.000 0.000
#> SRR1026890 1 0.4268 -0.48845 0.556 0.444 0.000 0.000 0.000
#> SRR1026891 1 0.1753 0.60005 0.936 0.032 0.032 0.000 0.000
#> SRR1026892 1 0.1753 0.60005 0.936 0.032 0.032 0.000 0.000
#> SRR1026893 3 0.1732 0.90767 0.080 0.000 0.920 0.000 0.000
#> SRR1026894 3 0.1732 0.90767 0.080 0.000 0.920 0.000 0.000
#> SRR1026895 1 0.3160 0.37370 0.808 0.188 0.004 0.000 0.000
#> SRR1026896 1 0.3160 0.37370 0.808 0.188 0.004 0.000 0.000
#> SRR1026897 3 0.4865 0.48472 0.044 0.168 0.748 0.040 0.000
#> SRR1026898 1 0.5143 0.23367 0.532 0.040 0.428 0.000 0.000
#> SRR1026899 1 0.5143 0.23367 0.532 0.040 0.428 0.000 0.000
#> SRR1026900 1 0.3086 0.39801 0.816 0.180 0.004 0.000 0.000
#> SRR1026901 1 0.5318 -0.08022 0.628 0.316 0.032 0.024 0.000
#> SRR1026902 1 0.2189 0.55003 0.904 0.084 0.012 0.000 0.000
#> SRR1026903 1 0.2189 0.55003 0.904 0.084 0.012 0.000 0.000
#> SRR1026904 1 0.2189 0.55003 0.904 0.084 0.012 0.000 0.000
#> SRR1026905 1 0.2189 0.55003 0.904 0.084 0.012 0.000 0.000
#> SRR1026906 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026907 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026908 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026909 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026910 1 0.2390 0.55353 0.896 0.084 0.020 0.000 0.000
#> SRR1026911 1 0.2390 0.55353 0.896 0.084 0.020 0.000 0.000
#> SRR1026912 1 0.5373 0.33216 0.620 0.084 0.296 0.000 0.000
#> SRR1026913 1 0.5373 0.33216 0.620 0.084 0.296 0.000 0.000
#> SRR1026914 1 0.4227 -0.41268 0.580 0.420 0.000 0.000 0.000
#> SRR1026915 1 0.4227 -0.41268 0.580 0.420 0.000 0.000 0.000
#> SRR1026916 1 0.4227 -0.41268 0.580 0.420 0.000 0.000 0.000
#> SRR1026917 1 0.4227 -0.41268 0.580 0.420 0.000 0.000 0.000
#> SRR1026918 1 0.4249 -0.44514 0.568 0.432 0.000 0.000 0.000
#> SRR1026919 1 0.4249 -0.44514 0.568 0.432 0.000 0.000 0.000
#> SRR1026920 1 0.4249 -0.44514 0.568 0.432 0.000 0.000 0.000
#> SRR1026921 1 0.4249 -0.44514 0.568 0.432 0.000 0.000 0.000
#> SRR1026922 2 0.4420 0.77605 0.448 0.548 0.000 0.004 0.000
#> SRR1026923 2 0.5267 0.78970 0.428 0.532 0.008 0.032 0.000
#> SRR1026924 1 0.2522 0.52333 0.880 0.108 0.012 0.000 0.000
#> SRR1026925 3 0.1732 0.90767 0.080 0.000 0.920 0.000 0.000
#> SRR1026926 1 0.1399 0.59377 0.952 0.028 0.020 0.000 0.000
#> SRR1026927 1 0.1399 0.59377 0.952 0.028 0.020 0.000 0.000
#> SRR1026928 1 0.2624 0.51267 0.872 0.116 0.012 0.000 0.000
#> SRR1026929 3 0.1732 0.90767 0.080 0.000 0.920 0.000 0.000
#> SRR1026930 1 0.3534 0.13957 0.744 0.256 0.000 0.000 0.000
#> SRR1026931 5 0.0000 0.98659 0.000 0.000 0.000 0.000 1.000
#> SRR1026932 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026933 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026934 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026935 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026936 1 0.3003 0.37153 0.812 0.188 0.000 0.000 0.000
#> SRR1026937 1 0.3003 0.37153 0.812 0.188 0.000 0.000 0.000
#> SRR1026938 1 0.4262 -0.47135 0.560 0.440 0.000 0.000 0.000
#> SRR1026939 1 0.4262 -0.47135 0.560 0.440 0.000 0.000 0.000
#> SRR1026940 1 0.2519 0.62755 0.884 0.016 0.100 0.000 0.000
#> SRR1026941 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1026942 1 0.3602 0.61137 0.796 0.024 0.180 0.000 0.000
#> SRR1026943 1 0.3602 0.61137 0.796 0.024 0.180 0.000 0.000
#> SRR1026944 1 0.3602 0.61081 0.796 0.024 0.180 0.000 0.000
#> SRR1026945 3 0.1952 0.89866 0.084 0.004 0.912 0.000 0.000
#> SRR1026947 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026946 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026948 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026949 1 0.3527 0.40898 0.792 0.192 0.016 0.000 0.000
#> SRR1026950 1 0.1893 0.61965 0.928 0.024 0.048 0.000 0.000
#> SRR1026951 1 0.1893 0.61965 0.928 0.024 0.048 0.000 0.000
#> SRR1026952 1 0.3795 0.59906 0.780 0.028 0.192 0.000 0.000
#> SRR1026953 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1026954 1 0.1124 0.58078 0.960 0.036 0.004 0.000 0.000
#> SRR1026955 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1026956 1 0.2438 0.61262 0.900 0.040 0.060 0.000 0.000
#> SRR1026957 1 0.4268 -0.47653 0.556 0.444 0.000 0.000 0.000
#> SRR1026958 1 0.1469 0.60461 0.948 0.036 0.016 0.000 0.000
#> SRR1026959 5 0.0703 0.95955 0.000 0.024 0.000 0.000 0.976
#> SRR1026960 1 0.1043 0.57482 0.960 0.040 0.000 0.000 0.000
#> SRR1026961 1 0.1043 0.57482 0.960 0.040 0.000 0.000 0.000
#> SRR1026962 1 0.4666 0.47513 0.676 0.040 0.284 0.000 0.000
#> SRR1026963 3 0.4865 0.48472 0.044 0.168 0.748 0.040 0.000
#> SRR1026964 1 0.1877 0.56560 0.924 0.064 0.012 0.000 0.000
#> SRR1026965 1 0.1877 0.56560 0.924 0.064 0.012 0.000 0.000
#> SRR1026966 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1026967 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1026968 1 0.1331 0.58019 0.952 0.040 0.008 0.000 0.000
#> SRR1026969 1 0.1331 0.58019 0.952 0.040 0.008 0.000 0.000
#> SRR1026970 1 0.1251 0.58298 0.956 0.036 0.008 0.000 0.000
#> SRR1026971 1 0.1251 0.58298 0.956 0.036 0.008 0.000 0.000
#> SRR1026972 1 0.1251 0.58298 0.956 0.036 0.008 0.000 0.000
#> SRR1026973 1 0.1251 0.58298 0.956 0.036 0.008 0.000 0.000
#> SRR1026974 1 0.3321 0.62984 0.832 0.032 0.136 0.000 0.000
#> SRR1026975 1 0.3321 0.62984 0.832 0.032 0.136 0.000 0.000
#> SRR1026976 1 0.3012 0.63049 0.852 0.024 0.124 0.000 0.000
#> SRR1026977 1 0.3012 0.63049 0.852 0.024 0.124 0.000 0.000
#> SRR1026978 1 0.1043 0.58153 0.960 0.040 0.000 0.000 0.000
#> SRR1026979 3 0.1732 0.90767 0.080 0.000 0.920 0.000 0.000
#> SRR1026980 1 0.2694 0.57440 0.884 0.076 0.040 0.000 0.000
#> SRR1026981 3 0.3123 0.76717 0.160 0.012 0.828 0.000 0.000
#> SRR1026982 1 0.2574 0.51683 0.876 0.112 0.012 0.000 0.000
#> SRR1026983 1 0.2574 0.51683 0.876 0.112 0.012 0.000 0.000
#> SRR1026984 1 0.2574 0.51683 0.876 0.112 0.012 0.000 0.000
#> SRR1026985 1 0.2574 0.51683 0.876 0.112 0.012 0.000 0.000
#> SRR1026986 1 0.1341 0.56193 0.944 0.056 0.000 0.000 0.000
#> SRR1026987 1 0.1341 0.56193 0.944 0.056 0.000 0.000 0.000
#> SRR1026988 1 0.5106 0.16238 0.508 0.036 0.456 0.000 0.000
#> SRR1026989 3 0.4718 0.38551 0.344 0.028 0.628 0.000 0.000
#> SRR1026990 1 0.1568 0.59018 0.944 0.036 0.020 0.000 0.000
#> SRR1026991 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1026992 1 0.4752 0.44058 0.648 0.036 0.316 0.000 0.000
#> SRR1026993 1 0.4087 0.58107 0.756 0.036 0.208 0.000 0.000
#> SRR1026994 1 0.2929 0.36472 0.820 0.180 0.000 0.000 0.000
#> SRR1026995 1 0.2929 0.36472 0.820 0.180 0.000 0.000 0.000
#> SRR1026996 1 0.1648 0.58799 0.940 0.040 0.020 0.000 0.000
#> SRR1026997 1 0.1648 0.58799 0.940 0.040 0.020 0.000 0.000
#> SRR1026998 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1026999 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1027000 1 0.4062 0.59889 0.764 0.040 0.196 0.000 0.000
#> SRR1027001 1 0.4979 0.10122 0.492 0.028 0.480 0.000 0.000
#> SRR1027002 1 0.1908 0.54499 0.908 0.092 0.000 0.000 0.000
#> SRR1027003 1 0.3109 0.32857 0.800 0.200 0.000 0.000 0.000
#> SRR1027004 1 0.4354 0.54083 0.712 0.032 0.256 0.000 0.000
#> SRR1027005 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1027006 1 0.4789 0.33175 0.584 0.024 0.392 0.000 0.000
#> SRR1027007 1 0.1493 0.60248 0.948 0.028 0.024 0.000 0.000
#> SRR1027008 1 0.3944 0.59324 0.768 0.032 0.200 0.000 0.000
#> SRR1027009 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1027010 1 0.5143 0.23463 0.532 0.040 0.428 0.000 0.000
#> SRR1027011 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1177668 1 0.5143 0.23367 0.532 0.040 0.428 0.000 0.000
#> SRR1177667 1 0.5143 0.23367 0.532 0.040 0.428 0.000 0.000
#> SRR1177669 1 0.5109 0.14856 0.504 0.036 0.460 0.000 0.000
#> SRR1177670 3 0.4822 0.36802 0.352 0.032 0.616 0.000 0.000
#> SRR1177671 5 0.0000 0.98659 0.000 0.000 0.000 0.000 1.000
#> SRR1177672 3 0.2124 0.88220 0.096 0.004 0.900 0.000 0.000
#> SRR1177673 1 0.5153 0.20591 0.524 0.040 0.436 0.000 0.000
#> SRR1177674 3 0.1732 0.90612 0.080 0.000 0.920 0.000 0.000
#> SRR1177675 1 0.4708 0.46315 0.668 0.040 0.292 0.000 0.000
#> SRR1177676 3 0.2068 0.88802 0.092 0.004 0.904 0.000 0.000
#> SRR1177677 1 0.3988 0.59804 0.768 0.036 0.196 0.000 0.000
#> SRR1177678 1 0.5048 0.33450 0.580 0.040 0.380 0.000 0.000
#> SRR1177679 2 0.3966 0.91848 0.336 0.664 0.000 0.000 0.000
#> SRR1177680 1 0.4182 -0.12859 0.644 0.352 0.004 0.000 0.000
#> SRR1177681 1 0.4430 0.53134 0.708 0.036 0.256 0.000 0.000
#> SRR1177682 1 0.4503 0.52701 0.704 0.040 0.256 0.000 0.000
#> SRR1177683 2 0.3895 0.92718 0.320 0.680 0.000 0.000 0.000
#> SRR1177684 2 0.3932 0.92249 0.328 0.672 0.000 0.000 0.000
#> SRR1177685 1 0.5077 0.31155 0.568 0.040 0.392 0.000 0.000
#> SRR1177686 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1177687 1 0.1544 0.55563 0.932 0.068 0.000 0.000 0.000
#> SRR1177688 1 0.1544 0.55563 0.932 0.068 0.000 0.000 0.000
#> SRR1177689 1 0.3432 0.62761 0.828 0.040 0.132 0.000 0.000
#> SRR1177690 1 0.3432 0.62761 0.828 0.040 0.132 0.000 0.000
#> SRR1177691 1 0.4235 -0.47117 0.576 0.424 0.000 0.000 0.000
#> SRR1177692 1 0.4235 -0.47117 0.576 0.424 0.000 0.000 0.000
#> SRR1177693 2 0.4922 0.79909 0.424 0.552 0.004 0.020 0.000
#> SRR1177694 1 0.4262 -0.46600 0.560 0.440 0.000 0.000 0.000
#> SRR1177695 1 0.3734 0.62253 0.796 0.036 0.168 0.000 0.000
#> SRR1177697 1 0.2879 0.63100 0.868 0.032 0.100 0.000 0.000
#> SRR1177696 1 0.3734 0.62253 0.796 0.036 0.168 0.000 0.000
#> SRR1177698 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1177700 1 0.2580 0.59100 0.892 0.064 0.044 0.000 0.000
#> SRR1177701 1 0.1697 0.61934 0.932 0.008 0.060 0.000 0.000
#> SRR1177702 3 0.4993 0.31323 0.020 0.224 0.708 0.048 0.000
#> SRR1177703 1 0.2574 0.63069 0.876 0.012 0.112 0.000 0.000
#> SRR1177704 4 0.6578 0.22435 0.244 0.060 0.104 0.592 0.000
#> SRR1177705 1 0.3621 0.60980 0.788 0.020 0.192 0.000 0.000
#> SRR1177706 1 0.3857 -0.05857 0.688 0.312 0.000 0.000 0.000
#> SRR1177707 1 0.1764 0.62041 0.928 0.008 0.064 0.000 0.000
#> SRR1177708 1 0.1764 0.62041 0.928 0.008 0.064 0.000 0.000
#> SRR1177709 1 0.5148 0.22532 0.528 0.040 0.432 0.000 0.000
#> SRR1177710 1 0.5148 0.22532 0.528 0.040 0.432 0.000 0.000
#> SRR1177711 1 0.4874 0.41017 0.632 0.040 0.328 0.000 0.000
#> SRR1177712 1 0.7056 -0.16398 0.408 0.160 0.400 0.032 0.000
#> SRR1177714 5 0.0000 0.98659 0.000 0.000 0.000 0.000 1.000
#> SRR1177713 4 0.1544 -0.20339 0.000 0.000 0.068 0.932 0.000
#> SRR1177715 1 0.4088 -0.28391 0.632 0.368 0.000 0.000 0.000
#> SRR1177716 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1177717 1 0.4644 0.48013 0.680 0.040 0.280 0.000 0.000
#> SRR1177718 1 0.4890 0.40025 0.628 0.040 0.332 0.000 0.000
#> SRR1177719 1 0.2563 0.63164 0.872 0.008 0.120 0.000 0.000
#> SRR1177720 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1177721 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1177722 2 0.3837 0.93312 0.308 0.692 0.000 0.000 0.000
#> SRR1177723 1 0.4644 0.48261 0.680 0.040 0.280 0.000 0.000
#> SRR1177725 1 0.4141 0.54997 0.736 0.028 0.236 0.000 0.000
#> SRR1177724 1 0.4644 0.48261 0.680 0.040 0.280 0.000 0.000
#> SRR1177726 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1177727 1 0.5131 0.25271 0.540 0.040 0.420 0.000 0.000
#> SRR1177728 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1177729 1 0.4503 0.51291 0.704 0.040 0.256 0.000 0.000
#> SRR1177730 3 0.2124 0.88228 0.096 0.004 0.900 0.000 0.000
#> SRR1177731 1 0.5131 0.25265 0.540 0.040 0.420 0.000 0.000
#> SRR1177732 1 0.5131 0.25265 0.540 0.040 0.420 0.000 0.000
#> SRR1177733 1 0.2464 0.62692 0.888 0.016 0.096 0.000 0.000
#> SRR1177734 1 0.2464 0.62692 0.888 0.016 0.096 0.000 0.000
#> SRR1177735 1 0.2464 0.62692 0.888 0.016 0.096 0.000 0.000
#> SRR1177736 1 0.2464 0.62692 0.888 0.016 0.096 0.000 0.000
#> SRR1177737 2 0.4446 0.72327 0.476 0.520 0.000 0.004 0.000
#> SRR1177738 1 0.6338 0.00679 0.568 0.292 0.116 0.024 0.000
#> SRR1177739 1 0.2573 0.62781 0.880 0.016 0.104 0.000 0.000
#> SRR1177740 1 0.2573 0.62781 0.880 0.016 0.104 0.000 0.000
#> SRR1177741 1 0.5131 0.25265 0.540 0.040 0.420 0.000 0.000
#> SRR1177742 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1177743 1 0.5131 0.25255 0.540 0.040 0.420 0.000 0.000
#> SRR1177744 1 0.5131 0.25255 0.540 0.040 0.420 0.000 0.000
#> SRR1177745 1 0.3487 0.32201 0.780 0.212 0.008 0.000 0.000
#> SRR1177746 1 0.3684 0.10209 0.720 0.280 0.000 0.000 0.000
#> SRR1177747 1 0.5143 0.23463 0.532 0.040 0.428 0.000 0.000
#> SRR1177748 3 0.1671 0.90932 0.076 0.000 0.924 0.000 0.000
#> SRR1177749 1 0.4969 0.34630 0.588 0.036 0.376 0.000 0.000
#> SRR1177750 1 0.4969 0.34630 0.588 0.036 0.376 0.000 0.000
#> SRR1177751 1 0.4223 0.53864 0.724 0.028 0.248 0.000 0.000
#> SRR1177752 1 0.4223 0.53864 0.724 0.028 0.248 0.000 0.000
#> SRR1177753 1 0.5048 0.33581 0.580 0.040 0.380 0.000 0.000
#> SRR1177754 1 0.5048 0.33581 0.580 0.040 0.380 0.000 0.000
#> SRR1177755 1 0.2139 0.62502 0.916 0.032 0.052 0.000 0.000
#> SRR1177756 1 0.1893 0.62179 0.928 0.024 0.048 0.000 0.000
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.2445 0.7364 0.108 0.872 0.000 0.020 0.000 0.000
#> SRR1026871 2 0.2445 0.7364 0.108 0.872 0.000 0.020 0.000 0.000
#> SRR1026872 2 0.2573 0.7366 0.112 0.864 0.000 0.024 0.000 0.000
#> SRR1026873 1 0.2489 0.5153 0.860 0.000 0.128 0.012 0.000 0.000
#> SRR1026874 3 0.4655 0.3375 0.104 0.000 0.692 0.200 0.000 0.004
#> SRR1026875 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026876 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026877 3 0.3101 0.9217 0.244 0.000 0.756 0.000 0.000 0.000
#> SRR1026878 3 0.3101 0.9217 0.244 0.000 0.756 0.000 0.000 0.000
#> SRR1026879 1 0.3088 0.4455 0.808 0.000 0.172 0.020 0.000 0.000
#> SRR1026880 1 0.3088 0.4455 0.808 0.000 0.172 0.020 0.000 0.000
#> SRR1026881 2 0.3330 0.6461 0.284 0.716 0.000 0.000 0.000 0.000
#> SRR1026882 2 0.3330 0.6461 0.284 0.716 0.000 0.000 0.000 0.000
#> SRR1026883 2 0.3330 0.6461 0.284 0.716 0.000 0.000 0.000 0.000
#> SRR1026884 2 0.3330 0.6461 0.284 0.716 0.000 0.000 0.000 0.000
#> SRR1026885 1 0.3699 0.5259 0.660 0.336 0.004 0.000 0.000 0.000
#> SRR1026886 1 0.3699 0.5259 0.660 0.336 0.004 0.000 0.000 0.000
#> SRR1026887 1 0.5896 0.1533 0.420 0.204 0.376 0.000 0.000 0.000
#> SRR1026888 1 0.5896 0.1533 0.420 0.204 0.376 0.000 0.000 0.000
#> SRR1026889 2 0.3323 0.6937 0.240 0.752 0.000 0.008 0.000 0.000
#> SRR1026890 2 0.3445 0.6791 0.260 0.732 0.000 0.008 0.000 0.000
#> SRR1026891 1 0.3547 0.5659 0.696 0.300 0.004 0.000 0.000 0.000
#> SRR1026892 1 0.3547 0.5659 0.696 0.300 0.004 0.000 0.000 0.000
#> SRR1026893 3 0.3101 0.9217 0.244 0.000 0.756 0.000 0.000 0.000
#> SRR1026894 3 0.3101 0.9217 0.244 0.000 0.756 0.000 0.000 0.000
#> SRR1026895 1 0.3862 0.1655 0.524 0.476 0.000 0.000 0.000 0.000
#> SRR1026896 1 0.3862 0.1655 0.524 0.476 0.000 0.000 0.000 0.000
#> SRR1026897 3 0.4655 0.3375 0.104 0.000 0.692 0.200 0.000 0.004
#> SRR1026898 1 0.3088 0.4455 0.808 0.000 0.172 0.020 0.000 0.000
#> SRR1026899 1 0.3088 0.4455 0.808 0.000 0.172 0.020 0.000 0.000
#> SRR1026900 1 0.3989 0.2019 0.528 0.468 0.000 0.004 0.000 0.000
#> SRR1026901 2 0.5360 0.4019 0.360 0.552 0.012 0.072 0.000 0.004
#> SRR1026902 1 0.3672 0.4752 0.632 0.368 0.000 0.000 0.000 0.000
#> SRR1026903 1 0.3672 0.4752 0.632 0.368 0.000 0.000 0.000 0.000
#> SRR1026904 1 0.3672 0.4752 0.632 0.368 0.000 0.000 0.000 0.000
#> SRR1026905 1 0.3672 0.4752 0.632 0.368 0.000 0.000 0.000 0.000
#> SRR1026906 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026907 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026908 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026909 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026910 1 0.3782 0.4849 0.636 0.360 0.004 0.000 0.000 0.000
#> SRR1026911 1 0.3782 0.4849 0.636 0.360 0.004 0.000 0.000 0.000
#> SRR1026912 1 0.5946 0.1537 0.456 0.288 0.256 0.000 0.000 0.000
#> SRR1026913 1 0.5946 0.1537 0.456 0.288 0.256 0.000 0.000 0.000
#> SRR1026914 2 0.3448 0.6599 0.280 0.716 0.000 0.004 0.000 0.000
#> SRR1026915 2 0.3448 0.6599 0.280 0.716 0.000 0.004 0.000 0.000
#> SRR1026916 2 0.3448 0.6599 0.280 0.716 0.000 0.004 0.000 0.000
#> SRR1026917 2 0.3448 0.6599 0.280 0.716 0.000 0.004 0.000 0.000
#> SRR1026918 2 0.3244 0.6703 0.268 0.732 0.000 0.000 0.000 0.000
#> SRR1026919 2 0.3244 0.6703 0.268 0.732 0.000 0.000 0.000 0.000
#> SRR1026920 2 0.3244 0.6703 0.268 0.732 0.000 0.000 0.000 0.000
#> SRR1026921 2 0.3244 0.6703 0.268 0.732 0.000 0.000 0.000 0.000
#> SRR1026922 2 0.3295 0.7311 0.128 0.816 0.000 0.056 0.000 0.000
#> SRR1026923 2 0.4045 0.7078 0.124 0.756 0.000 0.120 0.000 0.000
#> SRR1026924 1 0.4024 0.4181 0.592 0.400 0.004 0.004 0.000 0.000
#> SRR1026925 3 0.3101 0.9217 0.244 0.000 0.756 0.000 0.000 0.000
#> SRR1026926 1 0.3721 0.5574 0.684 0.308 0.004 0.004 0.000 0.000
#> SRR1026927 1 0.3721 0.5574 0.684 0.308 0.004 0.004 0.000 0.000
#> SRR1026928 1 0.3907 0.4017 0.588 0.408 0.004 0.000 0.000 0.000
#> SRR1026929 3 0.3101 0.9217 0.244 0.000 0.756 0.000 0.000 0.000
#> SRR1026930 2 0.3843 0.2140 0.452 0.548 0.000 0.000 0.000 0.000
#> SRR1026931 5 0.0000 0.9818 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1026932 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026933 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026934 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026935 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026936 1 0.3867 0.1414 0.512 0.488 0.000 0.000 0.000 0.000
#> SRR1026937 1 0.3867 0.1414 0.512 0.488 0.000 0.000 0.000 0.000
#> SRR1026938 2 0.3198 0.6789 0.260 0.740 0.000 0.000 0.000 0.000
#> SRR1026939 2 0.3198 0.6789 0.260 0.740 0.000 0.000 0.000 0.000
#> SRR1026940 1 0.3370 0.6258 0.772 0.212 0.012 0.004 0.000 0.000
#> SRR1026941 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1026942 1 0.2491 0.6419 0.868 0.112 0.020 0.000 0.000 0.000
#> SRR1026943 1 0.2491 0.6419 0.868 0.112 0.020 0.000 0.000 0.000
#> SRR1026944 1 0.2445 0.6418 0.872 0.108 0.020 0.000 0.000 0.000
#> SRR1026945 3 0.3445 0.9007 0.260 0.000 0.732 0.008 0.000 0.000
#> SRR1026947 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026946 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026948 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026949 1 0.4453 0.2820 0.524 0.452 0.004 0.020 0.000 0.000
#> SRR1026950 1 0.3240 0.6073 0.752 0.244 0.000 0.004 0.000 0.000
#> SRR1026951 1 0.3240 0.6073 0.752 0.244 0.000 0.004 0.000 0.000
#> SRR1026952 1 0.2383 0.6414 0.880 0.096 0.024 0.000 0.000 0.000
#> SRR1026953 3 0.3349 0.9175 0.244 0.000 0.748 0.008 0.000 0.000
#> SRR1026954 1 0.3668 0.5330 0.668 0.328 0.004 0.000 0.000 0.000
#> SRR1026955 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1026956 1 0.3448 0.5868 0.716 0.280 0.004 0.000 0.000 0.000
#> SRR1026957 2 0.3337 0.6805 0.260 0.736 0.000 0.004 0.000 0.000
#> SRR1026958 1 0.3309 0.5759 0.720 0.280 0.000 0.000 0.000 0.000
#> SRR1026959 5 0.0692 0.9451 0.000 0.020 0.000 0.004 0.976 0.000
#> SRR1026960 1 0.3578 0.5180 0.660 0.340 0.000 0.000 0.000 0.000
#> SRR1026961 1 0.3578 0.5180 0.660 0.340 0.000 0.000 0.000 0.000
#> SRR1026962 1 0.1116 0.6159 0.960 0.004 0.028 0.008 0.000 0.000
#> SRR1026963 3 0.4655 0.3375 0.104 0.000 0.692 0.200 0.000 0.004
#> SRR1026964 1 0.3769 0.4984 0.640 0.356 0.004 0.000 0.000 0.000
#> SRR1026965 1 0.3769 0.4984 0.640 0.356 0.004 0.000 0.000 0.000
#> SRR1026966 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1026967 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1026968 1 0.3531 0.5308 0.672 0.328 0.000 0.000 0.000 0.000
#> SRR1026969 1 0.3531 0.5308 0.672 0.328 0.000 0.000 0.000 0.000
#> SRR1026970 1 0.3515 0.5349 0.676 0.324 0.000 0.000 0.000 0.000
#> SRR1026971 1 0.3515 0.5349 0.676 0.324 0.000 0.000 0.000 0.000
#> SRR1026972 1 0.3515 0.5349 0.676 0.324 0.000 0.000 0.000 0.000
#> SRR1026973 1 0.3515 0.5349 0.676 0.324 0.000 0.000 0.000 0.000
#> SRR1026974 1 0.3156 0.6353 0.800 0.180 0.020 0.000 0.000 0.000
#> SRR1026975 1 0.3156 0.6353 0.800 0.180 0.020 0.000 0.000 0.000
#> SRR1026976 1 0.3200 0.6322 0.788 0.196 0.016 0.000 0.000 0.000
#> SRR1026977 1 0.3200 0.6322 0.788 0.196 0.016 0.000 0.000 0.000
#> SRR1026978 1 0.3531 0.5284 0.672 0.328 0.000 0.000 0.000 0.000
#> SRR1026979 3 0.3101 0.9217 0.244 0.000 0.756 0.000 0.000 0.000
#> SRR1026980 1 0.4045 0.5174 0.648 0.336 0.008 0.008 0.000 0.000
#> SRR1026981 3 0.4291 0.7339 0.292 0.044 0.664 0.000 0.000 0.000
#> SRR1026982 1 0.3899 0.4101 0.592 0.404 0.004 0.000 0.000 0.000
#> SRR1026983 1 0.3899 0.4101 0.592 0.404 0.004 0.000 0.000 0.000
#> SRR1026984 1 0.3899 0.4101 0.592 0.404 0.004 0.000 0.000 0.000
#> SRR1026985 1 0.3899 0.4101 0.592 0.404 0.004 0.000 0.000 0.000
#> SRR1026986 1 0.3620 0.4953 0.648 0.352 0.000 0.000 0.000 0.000
#> SRR1026987 1 0.3620 0.4953 0.648 0.352 0.000 0.000 0.000 0.000
#> SRR1026988 1 0.3364 0.3950 0.780 0.000 0.196 0.024 0.000 0.000
#> SRR1026989 1 0.4121 -0.1772 0.604 0.000 0.380 0.016 0.000 0.000
#> SRR1026990 1 0.3619 0.5476 0.680 0.316 0.004 0.000 0.000 0.000
#> SRR1026991 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1026992 1 0.1946 0.6047 0.912 0.012 0.072 0.004 0.000 0.000
#> SRR1026993 1 0.3176 0.6365 0.840 0.100 0.052 0.008 0.000 0.000
#> SRR1026994 1 0.3862 0.1337 0.524 0.476 0.000 0.000 0.000 0.000
#> SRR1026995 1 0.3862 0.1337 0.524 0.476 0.000 0.000 0.000 0.000
#> SRR1026996 1 0.3772 0.5461 0.672 0.320 0.004 0.004 0.000 0.000
#> SRR1026997 1 0.3772 0.5461 0.672 0.320 0.004 0.004 0.000 0.000
#> SRR1026998 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1026999 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1027000 1 0.3480 0.6357 0.816 0.124 0.048 0.012 0.000 0.000
#> SRR1027001 1 0.3566 0.3419 0.752 0.000 0.224 0.024 0.000 0.000
#> SRR1027002 1 0.3684 0.4662 0.628 0.372 0.000 0.000 0.000 0.000
#> SRR1027003 1 0.3868 0.0721 0.504 0.496 0.000 0.000 0.000 0.000
#> SRR1027004 1 0.3773 0.6231 0.800 0.096 0.092 0.012 0.000 0.000
#> SRR1027005 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1027006 1 0.3651 0.5141 0.792 0.032 0.160 0.016 0.000 0.000
#> SRR1027007 1 0.3665 0.5669 0.696 0.296 0.004 0.004 0.000 0.000
#> SRR1027008 1 0.2839 0.6406 0.860 0.100 0.032 0.008 0.000 0.000
#> SRR1027009 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1027010 1 0.3088 0.4463 0.808 0.000 0.172 0.020 0.000 0.000
#> SRR1027011 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1177668 1 0.3088 0.4455 0.808 0.000 0.172 0.020 0.000 0.000
#> SRR1177667 1 0.3088 0.4455 0.808 0.000 0.172 0.020 0.000 0.000
#> SRR1177669 1 0.3320 0.3727 0.772 0.000 0.212 0.016 0.000 0.000
#> SRR1177670 1 0.4121 -0.1753 0.604 0.000 0.380 0.016 0.000 0.000
#> SRR1177671 5 0.0000 0.9818 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177672 3 0.3608 0.8785 0.272 0.000 0.716 0.012 0.000 0.000
#> SRR1177673 1 0.3284 0.4307 0.800 0.000 0.168 0.032 0.000 0.000
#> SRR1177674 3 0.3323 0.9200 0.240 0.000 0.752 0.008 0.000 0.000
#> SRR1177675 1 0.1049 0.6127 0.960 0.000 0.032 0.008 0.000 0.000
#> SRR1177676 3 0.3564 0.8915 0.264 0.000 0.724 0.012 0.000 0.000
#> SRR1177677 1 0.3438 0.6372 0.820 0.120 0.048 0.012 0.000 0.000
#> SRR1177678 1 0.2723 0.5215 0.852 0.004 0.128 0.016 0.000 0.000
#> SRR1177679 2 0.1863 0.6784 0.036 0.920 0.000 0.044 0.000 0.000
#> SRR1177680 2 0.4254 0.3405 0.352 0.624 0.004 0.020 0.000 0.000
#> SRR1177681 1 0.3014 0.6258 0.860 0.068 0.056 0.016 0.000 0.000
#> SRR1177682 1 0.2957 0.6247 0.864 0.064 0.056 0.016 0.000 0.000
#> SRR1177683 2 0.1682 0.6637 0.020 0.928 0.000 0.052 0.000 0.000
#> SRR1177684 2 0.1780 0.6708 0.028 0.924 0.000 0.048 0.000 0.000
#> SRR1177685 1 0.2846 0.5047 0.840 0.004 0.140 0.016 0.000 0.000
#> SRR1177686 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1177687 1 0.3659 0.4812 0.636 0.364 0.000 0.000 0.000 0.000
#> SRR1177688 1 0.3659 0.4812 0.636 0.364 0.000 0.000 0.000 0.000
#> SRR1177689 1 0.3438 0.6326 0.788 0.184 0.020 0.008 0.000 0.000
#> SRR1177690 1 0.3438 0.6326 0.788 0.184 0.020 0.008 0.000 0.000
#> SRR1177691 2 0.3555 0.6520 0.280 0.712 0.000 0.008 0.000 0.000
#> SRR1177692 2 0.3555 0.6520 0.280 0.712 0.000 0.008 0.000 0.000
#> SRR1177693 2 0.3698 0.7158 0.116 0.788 0.000 0.096 0.000 0.000
#> SRR1177694 2 0.3198 0.6774 0.260 0.740 0.000 0.000 0.000 0.000
#> SRR1177695 1 0.3219 0.6391 0.828 0.132 0.028 0.012 0.000 0.000
#> SRR1177697 1 0.3281 0.6314 0.784 0.200 0.012 0.004 0.000 0.000
#> SRR1177696 1 0.3219 0.6391 0.828 0.132 0.028 0.012 0.000 0.000
#> SRR1177698 3 0.3215 0.9218 0.240 0.000 0.756 0.004 0.000 0.000
#> SRR1177700 1 0.4058 0.5485 0.660 0.320 0.016 0.004 0.000 0.000
#> SRR1177701 1 0.3380 0.6058 0.748 0.244 0.004 0.004 0.000 0.000
#> SRR1177702 3 0.4127 -0.1620 0.012 0.008 0.708 0.260 0.000 0.012
#> SRR1177703 1 0.3341 0.6296 0.776 0.208 0.012 0.004 0.000 0.000
#> SRR1177704 4 0.5733 0.0000 0.040 0.000 0.124 0.608 0.000 0.228
#> SRR1177705 1 0.3182 0.6419 0.832 0.124 0.036 0.008 0.000 0.000
#> SRR1177706 2 0.3727 0.4010 0.388 0.612 0.000 0.000 0.000 0.000
#> SRR1177707 1 0.3596 0.6092 0.740 0.244 0.008 0.008 0.000 0.000
#> SRR1177708 1 0.3596 0.6092 0.740 0.244 0.008 0.008 0.000 0.000
#> SRR1177709 1 0.3071 0.4376 0.804 0.000 0.180 0.016 0.000 0.000
#> SRR1177710 1 0.3071 0.4376 0.804 0.000 0.180 0.016 0.000 0.000
#> SRR1177711 1 0.1643 0.5859 0.924 0.000 0.068 0.008 0.000 0.000
#> SRR1177712 1 0.5866 0.0498 0.540 0.004 0.296 0.148 0.000 0.012
#> SRR1177714 5 0.0000 0.9818 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1177713 6 0.0000 0.0000 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1177715 2 0.3699 0.5504 0.336 0.660 0.000 0.004 0.000 0.000
#> SRR1177716 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1177717 1 0.1577 0.6171 0.940 0.016 0.036 0.008 0.000 0.000
#> SRR1177718 1 0.2152 0.5746 0.904 0.004 0.068 0.024 0.000 0.000
#> SRR1177719 1 0.3449 0.6342 0.780 0.196 0.016 0.008 0.000 0.000
#> SRR1177720 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1177721 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1177722 2 0.1398 0.6581 0.008 0.940 0.000 0.052 0.000 0.000
#> SRR1177723 1 0.1230 0.6179 0.956 0.008 0.028 0.008 0.000 0.000
#> SRR1177725 1 0.1938 0.6333 0.920 0.052 0.020 0.008 0.000 0.000
#> SRR1177724 1 0.1230 0.6179 0.956 0.008 0.028 0.008 0.000 0.000
#> SRR1177726 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1177727 1 0.2932 0.4629 0.820 0.000 0.164 0.016 0.000 0.000
#> SRR1177728 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1177729 1 0.1700 0.6245 0.936 0.028 0.024 0.012 0.000 0.000
#> SRR1177730 3 0.3405 0.8808 0.272 0.000 0.724 0.004 0.000 0.000
#> SRR1177731 1 0.2932 0.4628 0.820 0.000 0.164 0.016 0.000 0.000
#> SRR1177732 1 0.2932 0.4628 0.820 0.000 0.164 0.016 0.000 0.000
#> SRR1177733 1 0.3398 0.6241 0.768 0.216 0.012 0.004 0.000 0.000
#> SRR1177734 1 0.3398 0.6241 0.768 0.216 0.012 0.004 0.000 0.000
#> SRR1177735 1 0.3398 0.6241 0.768 0.216 0.012 0.004 0.000 0.000
#> SRR1177736 1 0.3398 0.6241 0.768 0.216 0.012 0.004 0.000 0.000
#> SRR1177737 2 0.3481 0.7230 0.160 0.792 0.000 0.048 0.000 0.000
#> SRR1177738 2 0.6314 0.3358 0.356 0.488 0.080 0.072 0.000 0.004
#> SRR1177739 1 0.3341 0.6265 0.776 0.208 0.012 0.004 0.000 0.000
#> SRR1177740 1 0.3341 0.6265 0.776 0.208 0.012 0.004 0.000 0.000
#> SRR1177741 1 0.2932 0.4628 0.820 0.000 0.164 0.016 0.000 0.000
#> SRR1177742 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1177743 1 0.2877 0.4610 0.820 0.000 0.168 0.012 0.000 0.000
#> SRR1177744 1 0.2877 0.4610 0.820 0.000 0.168 0.012 0.000 0.000
#> SRR1177745 1 0.3998 0.0620 0.504 0.492 0.000 0.004 0.000 0.000
#> SRR1177746 2 0.3944 0.2138 0.428 0.568 0.000 0.004 0.000 0.000
#> SRR1177747 1 0.3088 0.4463 0.808 0.000 0.172 0.020 0.000 0.000
#> SRR1177748 3 0.3076 0.9234 0.240 0.000 0.760 0.000 0.000 0.000
#> SRR1177749 1 0.3016 0.5270 0.836 0.016 0.136 0.012 0.000 0.000
#> SRR1177750 1 0.3016 0.5270 0.836 0.016 0.136 0.012 0.000 0.000
#> SRR1177751 1 0.1737 0.6315 0.932 0.040 0.020 0.008 0.000 0.000
#> SRR1177752 1 0.1737 0.6315 0.932 0.040 0.020 0.008 0.000 0.000
#> SRR1177753 1 0.2961 0.5196 0.840 0.008 0.132 0.020 0.000 0.000
#> SRR1177754 1 0.2961 0.5196 0.840 0.008 0.132 0.020 0.000 0.000
#> SRR1177755 1 0.2994 0.6201 0.788 0.208 0.000 0.004 0.000 0.000
#> SRR1177756 1 0.2996 0.6107 0.772 0.228 0.000 0.000 0.000 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["CV", "kmeans"]
# you can also extract it by
# res = res_list["CV:kmeans"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'CV' method.
#> Subgroups are detected by 'kmeans' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.536 0.847 0.914 0.4695 0.499 0.499
#> 3 3 0.881 0.914 0.945 0.2265 0.599 0.385
#> 4 4 0.608 0.781 0.825 0.1875 0.778 0.502
#> 5 5 0.653 0.676 0.823 0.0853 0.949 0.821
#> 6 6 0.682 0.514 0.760 0.0491 0.969 0.886
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.883 0.000 1.000
#> SRR1026871 2 0.0000 0.883 0.000 1.000
#> SRR1026872 2 0.0000 0.883 0.000 1.000
#> SRR1026873 1 0.4431 0.924 0.908 0.092
#> SRR1026874 1 0.0376 0.917 0.996 0.004
#> SRR1026875 2 0.0000 0.883 0.000 1.000
#> SRR1026876 2 0.0000 0.883 0.000 1.000
#> SRR1026877 1 0.0000 0.916 1.000 0.000
#> SRR1026878 1 0.0000 0.916 1.000 0.000
#> SRR1026879 1 0.4431 0.924 0.908 0.092
#> SRR1026880 1 0.1633 0.922 0.976 0.024
#> SRR1026881 2 0.0000 0.883 0.000 1.000
#> SRR1026882 2 0.0000 0.883 0.000 1.000
#> SRR1026883 2 0.2778 0.877 0.048 0.952
#> SRR1026884 2 0.2778 0.877 0.048 0.952
#> SRR1026885 2 0.9358 0.516 0.352 0.648
#> SRR1026886 2 0.9358 0.516 0.352 0.648
#> SRR1026887 1 0.0000 0.916 1.000 0.000
#> SRR1026888 1 0.0000 0.916 1.000 0.000
#> SRR1026889 2 0.0000 0.883 0.000 1.000
#> SRR1026890 2 0.8499 0.652 0.276 0.724
#> SRR1026891 1 0.5059 0.917 0.888 0.112
#> SRR1026892 1 0.5059 0.917 0.888 0.112
#> SRR1026893 1 0.0000 0.916 1.000 0.000
#> SRR1026894 1 0.0000 0.916 1.000 0.000
#> SRR1026895 2 0.2778 0.877 0.048 0.952
#> SRR1026896 2 0.2778 0.877 0.048 0.952
#> SRR1026897 1 0.0376 0.917 0.996 0.004
#> SRR1026898 1 0.4690 0.922 0.900 0.100
#> SRR1026899 1 0.2948 0.926 0.948 0.052
#> SRR1026900 2 0.0376 0.883 0.004 0.996
#> SRR1026901 2 0.1184 0.883 0.016 0.984
#> SRR1026902 1 0.7815 0.763 0.768 0.232
#> SRR1026903 1 0.7815 0.763 0.768 0.232
#> SRR1026904 1 0.8327 0.705 0.736 0.264
#> SRR1026905 1 0.8267 0.713 0.740 0.260
#> SRR1026906 2 0.0000 0.883 0.000 1.000
#> SRR1026907 2 0.0000 0.883 0.000 1.000
#> SRR1026908 2 0.0000 0.883 0.000 1.000
#> SRR1026909 2 0.0000 0.883 0.000 1.000
#> SRR1026910 2 0.4431 0.853 0.092 0.908
#> SRR1026911 2 0.4298 0.855 0.088 0.912
#> SRR1026912 1 0.3431 0.926 0.936 0.064
#> SRR1026913 1 0.3431 0.926 0.936 0.064
#> SRR1026914 2 0.0000 0.883 0.000 1.000
#> SRR1026915 2 0.0000 0.883 0.000 1.000
#> SRR1026916 2 0.0000 0.883 0.000 1.000
#> SRR1026917 2 0.0000 0.883 0.000 1.000
#> SRR1026918 2 0.1843 0.882 0.028 0.972
#> SRR1026919 2 0.1843 0.882 0.028 0.972
#> SRR1026920 2 0.0000 0.883 0.000 1.000
#> SRR1026921 2 0.0000 0.883 0.000 1.000
#> SRR1026922 2 0.0000 0.883 0.000 1.000
#> SRR1026923 2 0.0000 0.883 0.000 1.000
#> SRR1026924 2 0.2778 0.877 0.048 0.952
#> SRR1026925 1 0.0000 0.916 1.000 0.000
#> SRR1026926 2 0.4562 0.850 0.096 0.904
#> SRR1026927 1 0.4815 0.921 0.896 0.104
#> SRR1026928 2 0.0000 0.883 0.000 1.000
#> SRR1026929 1 0.0000 0.916 1.000 0.000
#> SRR1026930 2 0.0000 0.883 0.000 1.000
#> SRR1026931 2 0.0000 0.883 0.000 1.000
#> SRR1026932 2 0.0000 0.883 0.000 1.000
#> SRR1026933 2 0.0000 0.883 0.000 1.000
#> SRR1026934 2 0.0000 0.883 0.000 1.000
#> SRR1026935 2 0.0000 0.883 0.000 1.000
#> SRR1026936 2 0.4562 0.851 0.096 0.904
#> SRR1026937 2 0.4562 0.851 0.096 0.904
#> SRR1026938 2 0.0000 0.883 0.000 1.000
#> SRR1026939 2 0.0000 0.883 0.000 1.000
#> SRR1026940 1 0.5059 0.917 0.888 0.112
#> SRR1026941 1 0.0000 0.916 1.000 0.000
#> SRR1026942 1 0.5178 0.915 0.884 0.116
#> SRR1026943 2 0.9815 0.353 0.420 0.580
#> SRR1026944 1 0.4939 0.919 0.892 0.108
#> SRR1026945 1 0.0000 0.916 1.000 0.000
#> SRR1026947 2 0.0000 0.883 0.000 1.000
#> SRR1026946 2 0.0000 0.883 0.000 1.000
#> SRR1026948 2 0.0000 0.883 0.000 1.000
#> SRR1026949 2 0.2423 0.877 0.040 0.960
#> SRR1026950 1 0.6247 0.871 0.844 0.156
#> SRR1026951 2 0.7745 0.724 0.228 0.772
#> SRR1026952 1 0.4939 0.919 0.892 0.108
#> SRR1026953 1 0.0000 0.916 1.000 0.000
#> SRR1026954 2 0.5629 0.823 0.132 0.868
#> SRR1026955 2 0.0000 0.883 0.000 1.000
#> SRR1026956 1 0.7299 0.806 0.796 0.204
#> SRR1026957 2 0.0000 0.883 0.000 1.000
#> SRR1026958 2 0.9881 0.306 0.436 0.564
#> SRR1026959 2 0.0000 0.883 0.000 1.000
#> SRR1026960 2 0.2778 0.877 0.048 0.952
#> SRR1026961 2 0.2778 0.877 0.048 0.952
#> SRR1026962 1 0.5059 0.917 0.888 0.112
#> SRR1026963 1 0.1414 0.921 0.980 0.020
#> SRR1026964 2 0.2603 0.879 0.044 0.956
#> SRR1026965 2 0.2603 0.879 0.044 0.956
#> SRR1026966 1 0.0000 0.916 1.000 0.000
#> SRR1026967 1 0.0000 0.916 1.000 0.000
#> SRR1026968 2 0.2778 0.877 0.048 0.952
#> SRR1026969 2 0.5408 0.829 0.124 0.876
#> SRR1026970 2 0.9000 0.587 0.316 0.684
#> SRR1026971 2 0.9000 0.587 0.316 0.684
#> SRR1026972 2 0.8813 0.614 0.300 0.700
#> SRR1026973 2 0.8813 0.614 0.300 0.700
#> SRR1026974 1 0.5178 0.915 0.884 0.116
#> SRR1026975 1 0.5178 0.915 0.884 0.116
#> SRR1026976 2 0.9815 0.353 0.420 0.580
#> SRR1026977 2 0.9815 0.353 0.420 0.580
#> SRR1026978 2 0.2778 0.877 0.048 0.952
#> SRR1026979 1 0.0000 0.916 1.000 0.000
#> SRR1026980 2 0.5519 0.826 0.128 0.872
#> SRR1026981 1 0.0000 0.916 1.000 0.000
#> SRR1026982 2 0.2778 0.877 0.048 0.952
#> SRR1026983 2 0.2778 0.877 0.048 0.952
#> SRR1026984 2 0.2423 0.879 0.040 0.960
#> SRR1026985 2 0.2423 0.879 0.040 0.960
#> SRR1026986 2 0.0000 0.883 0.000 1.000
#> SRR1026987 1 0.8608 0.661 0.716 0.284
#> SRR1026988 1 0.1633 0.922 0.976 0.024
#> SRR1026989 1 0.0000 0.916 1.000 0.000
#> SRR1026990 2 0.4815 0.845 0.104 0.896
#> SRR1026991 1 0.0000 0.916 1.000 0.000
#> SRR1026992 1 0.5059 0.917 0.888 0.112
#> SRR1026993 1 0.5059 0.917 0.888 0.112
#> SRR1026994 2 0.7950 0.705 0.240 0.760
#> SRR1026995 1 0.5059 0.917 0.888 0.112
#> SRR1026996 2 0.9522 0.475 0.372 0.628
#> SRR1026997 2 0.9522 0.475 0.372 0.628
#> SRR1026998 1 0.0000 0.916 1.000 0.000
#> SRR1026999 1 0.0000 0.916 1.000 0.000
#> SRR1027000 1 0.5178 0.915 0.884 0.116
#> SRR1027001 1 0.0000 0.916 1.000 0.000
#> SRR1027002 2 0.1633 0.882 0.024 0.976
#> SRR1027003 2 0.6973 0.769 0.188 0.812
#> SRR1027004 1 0.4562 0.923 0.904 0.096
#> SRR1027005 1 0.0000 0.916 1.000 0.000
#> SRR1027006 1 0.3274 0.926 0.940 0.060
#> SRR1027007 2 0.5294 0.834 0.120 0.880
#> SRR1027008 1 0.5178 0.915 0.884 0.116
#> SRR1027009 1 0.0000 0.916 1.000 0.000
#> SRR1027010 1 0.3114 0.926 0.944 0.056
#> SRR1027011 1 0.0000 0.916 1.000 0.000
#> SRR1177668 1 0.1633 0.922 0.976 0.024
#> SRR1177667 1 0.4939 0.919 0.892 0.108
#> SRR1177669 1 0.3274 0.926 0.940 0.060
#> SRR1177670 1 0.0000 0.916 1.000 0.000
#> SRR1177671 2 0.0000 0.883 0.000 1.000
#> SRR1177672 1 0.0000 0.916 1.000 0.000
#> SRR1177673 1 0.4431 0.924 0.908 0.092
#> SRR1177674 1 0.0000 0.916 1.000 0.000
#> SRR1177675 1 0.4815 0.921 0.896 0.104
#> SRR1177676 1 0.0000 0.916 1.000 0.000
#> SRR1177677 1 0.5178 0.915 0.884 0.116
#> SRR1177678 1 0.4431 0.924 0.908 0.092
#> SRR1177679 2 0.0000 0.883 0.000 1.000
#> SRR1177680 2 0.0000 0.883 0.000 1.000
#> SRR1177681 1 0.5059 0.917 0.888 0.112
#> SRR1177682 1 0.5059 0.917 0.888 0.112
#> SRR1177683 2 0.0000 0.883 0.000 1.000
#> SRR1177684 2 0.0000 0.883 0.000 1.000
#> SRR1177685 1 0.4939 0.919 0.892 0.108
#> SRR1177686 1 0.0000 0.916 1.000 0.000
#> SRR1177687 2 0.2603 0.879 0.044 0.956
#> SRR1177688 1 0.5059 0.917 0.888 0.112
#> SRR1177689 2 0.7602 0.733 0.220 0.780
#> SRR1177690 1 0.6973 0.829 0.812 0.188
#> SRR1177691 2 0.0000 0.883 0.000 1.000
#> SRR1177692 2 0.2778 0.878 0.048 0.952
#> SRR1177693 2 0.0000 0.883 0.000 1.000
#> SRR1177694 2 0.0000 0.883 0.000 1.000
#> SRR1177695 2 0.9993 0.135 0.484 0.516
#> SRR1177697 2 0.9944 0.241 0.456 0.544
#> SRR1177696 1 0.2043 0.923 0.968 0.032
#> SRR1177698 1 0.0000 0.916 1.000 0.000
#> SRR1177700 1 0.5059 0.917 0.888 0.112
#> SRR1177701 2 0.9993 0.133 0.484 0.516
#> SRR1177702 1 0.0376 0.917 0.996 0.004
#> SRR1177703 1 0.8207 0.717 0.744 0.256
#> SRR1177704 1 0.0000 0.916 1.000 0.000
#> SRR1177705 1 0.7950 0.747 0.760 0.240
#> SRR1177706 2 0.2043 0.881 0.032 0.968
#> SRR1177707 2 0.9922 0.269 0.448 0.552
#> SRR1177708 1 0.5059 0.917 0.888 0.112
#> SRR1177709 1 0.4431 0.924 0.908 0.092
#> SRR1177710 1 0.0000 0.916 1.000 0.000
#> SRR1177711 1 0.4939 0.919 0.892 0.108
#> SRR1177712 1 0.3879 0.926 0.924 0.076
#> SRR1177714 2 0.0000 0.883 0.000 1.000
#> SRR1177713 1 0.0672 0.918 0.992 0.008
#> SRR1177715 2 0.0000 0.883 0.000 1.000
#> SRR1177716 1 0.0000 0.916 1.000 0.000
#> SRR1177717 1 0.5178 0.915 0.884 0.116
#> SRR1177718 1 0.3584 0.926 0.932 0.068
#> SRR1177719 1 0.5178 0.915 0.884 0.116
#> SRR1177720 1 0.0000 0.916 1.000 0.000
#> SRR1177721 2 0.0000 0.883 0.000 1.000
#> SRR1177722 2 0.0000 0.883 0.000 1.000
#> SRR1177723 1 0.5178 0.915 0.884 0.116
#> SRR1177725 1 0.5059 0.917 0.888 0.112
#> SRR1177724 1 0.5178 0.915 0.884 0.116
#> SRR1177726 1 0.0000 0.916 1.000 0.000
#> SRR1177727 1 0.4298 0.925 0.912 0.088
#> SRR1177728 1 0.0000 0.916 1.000 0.000
#> SRR1177729 1 0.5178 0.915 0.884 0.116
#> SRR1177730 1 0.0000 0.916 1.000 0.000
#> SRR1177731 1 0.4431 0.924 0.908 0.092
#> SRR1177732 1 0.2948 0.926 0.948 0.052
#> SRR1177733 1 0.5059 0.917 0.888 0.112
#> SRR1177734 1 0.5059 0.917 0.888 0.112
#> SRR1177735 2 0.8909 0.604 0.308 0.692
#> SRR1177736 1 0.4431 0.924 0.908 0.092
#> SRR1177737 2 0.0000 0.883 0.000 1.000
#> SRR1177738 1 0.0000 0.916 1.000 0.000
#> SRR1177739 1 0.5059 0.917 0.888 0.112
#> SRR1177740 2 0.9661 0.426 0.392 0.608
#> SRR1177741 1 0.4431 0.924 0.908 0.092
#> SRR1177742 1 0.0000 0.916 1.000 0.000
#> SRR1177743 1 0.2948 0.926 0.948 0.052
#> SRR1177744 1 0.0000 0.916 1.000 0.000
#> SRR1177745 2 0.2603 0.879 0.044 0.956
#> SRR1177746 2 0.2236 0.880 0.036 0.964
#> SRR1177747 1 0.2948 0.926 0.948 0.052
#> SRR1177748 1 0.0000 0.916 1.000 0.000
#> SRR1177749 1 0.4939 0.919 0.892 0.108
#> SRR1177750 1 0.5178 0.915 0.884 0.116
#> SRR1177751 2 0.9881 0.307 0.436 0.564
#> SRR1177752 1 0.5059 0.917 0.888 0.112
#> SRR1177753 1 0.4939 0.919 0.892 0.108
#> SRR1177754 1 0.2778 0.926 0.952 0.048
#> SRR1177755 2 0.9909 0.281 0.444 0.556
#> SRR1177756 2 0.7745 0.724 0.228 0.772
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0661 0.992 0.004 0.988 0.008
#> SRR1026871 2 0.0661 0.992 0.004 0.988 0.008
#> SRR1026872 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026873 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1026874 3 0.4883 0.775 0.208 0.004 0.788
#> SRR1026875 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026876 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026877 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026878 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026879 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1026880 3 0.5397 0.745 0.280 0.000 0.720
#> SRR1026881 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026882 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026883 1 0.2066 0.942 0.940 0.060 0.000
#> SRR1026884 1 0.2066 0.942 0.940 0.060 0.000
#> SRR1026885 1 0.1163 0.960 0.972 0.028 0.000
#> SRR1026886 1 0.1163 0.960 0.972 0.028 0.000
#> SRR1026887 3 0.4291 0.810 0.180 0.000 0.820
#> SRR1026888 3 0.4291 0.810 0.180 0.000 0.820
#> SRR1026889 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026890 1 0.1753 0.951 0.952 0.048 0.000
#> SRR1026891 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026892 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026893 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026894 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026895 1 0.2066 0.942 0.940 0.060 0.000
#> SRR1026896 1 0.2066 0.942 0.940 0.060 0.000
#> SRR1026897 3 0.4883 0.775 0.208 0.004 0.788
#> SRR1026898 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1026899 3 0.6308 0.341 0.492 0.000 0.508
#> SRR1026900 1 0.2537 0.924 0.920 0.080 0.000
#> SRR1026901 1 0.5882 0.518 0.652 0.348 0.000
#> SRR1026902 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026903 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026904 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026905 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026906 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026907 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026908 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026909 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026910 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1026911 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1026912 3 0.5070 0.785 0.224 0.004 0.772
#> SRR1026913 3 0.5070 0.785 0.224 0.004 0.772
#> SRR1026914 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026915 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026916 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026917 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026918 1 0.2165 0.939 0.936 0.064 0.000
#> SRR1026919 1 0.2165 0.939 0.936 0.064 0.000
#> SRR1026920 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026921 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026922 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026923 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026924 1 0.2066 0.942 0.940 0.060 0.000
#> SRR1026925 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026926 1 0.1529 0.955 0.960 0.040 0.000
#> SRR1026927 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026928 1 0.6126 0.393 0.600 0.400 0.000
#> SRR1026929 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026930 2 0.1643 0.943 0.044 0.956 0.000
#> SRR1026931 2 0.0661 0.992 0.004 0.988 0.008
#> SRR1026932 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026933 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026934 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026935 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026936 1 0.1529 0.955 0.960 0.040 0.000
#> SRR1026937 1 0.1529 0.955 0.960 0.040 0.000
#> SRR1026938 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026939 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026940 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026941 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026942 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026943 1 0.0747 0.962 0.984 0.016 0.000
#> SRR1026944 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026945 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026947 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026946 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026948 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026949 1 0.1964 0.946 0.944 0.056 0.000
#> SRR1026950 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026951 1 0.1289 0.959 0.968 0.032 0.000
#> SRR1026952 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026953 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026954 1 0.1411 0.957 0.964 0.036 0.000
#> SRR1026955 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026956 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026957 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1026958 1 0.0747 0.962 0.984 0.016 0.000
#> SRR1026959 2 0.0661 0.992 0.004 0.988 0.008
#> SRR1026960 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1026961 1 0.1753 0.951 0.952 0.048 0.000
#> SRR1026962 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026963 3 0.5285 0.748 0.244 0.004 0.752
#> SRR1026964 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1026965 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1026966 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026967 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026968 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1026969 1 0.1289 0.959 0.968 0.032 0.000
#> SRR1026970 1 0.1031 0.961 0.976 0.024 0.000
#> SRR1026971 1 0.1031 0.961 0.976 0.024 0.000
#> SRR1026972 1 0.1529 0.956 0.960 0.040 0.000
#> SRR1026973 1 0.1529 0.956 0.960 0.040 0.000
#> SRR1026974 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026976 1 0.0747 0.962 0.984 0.016 0.000
#> SRR1026977 1 0.0747 0.962 0.984 0.016 0.000
#> SRR1026978 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1026979 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026980 1 0.1529 0.956 0.960 0.040 0.000
#> SRR1026981 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026982 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1026983 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1026984 1 0.3340 0.884 0.880 0.120 0.000
#> SRR1026985 1 0.3340 0.884 0.880 0.120 0.000
#> SRR1026986 1 0.3941 0.835 0.844 0.156 0.000
#> SRR1026987 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026988 3 0.6180 0.535 0.416 0.000 0.584
#> SRR1026989 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026990 1 0.1529 0.955 0.960 0.040 0.000
#> SRR1026991 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026992 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026994 1 0.1529 0.955 0.960 0.040 0.000
#> SRR1026995 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1026996 1 0.1031 0.961 0.976 0.024 0.000
#> SRR1026997 1 0.1031 0.961 0.976 0.024 0.000
#> SRR1026998 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1026999 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1027000 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1027001 3 0.1964 0.859 0.056 0.000 0.944
#> SRR1027002 1 0.2356 0.933 0.928 0.072 0.000
#> SRR1027003 1 0.1289 0.959 0.968 0.032 0.000
#> SRR1027004 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1027005 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1027006 1 0.0592 0.953 0.988 0.000 0.012
#> SRR1027007 1 0.1411 0.957 0.964 0.036 0.000
#> SRR1027008 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1027009 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1027010 3 0.6252 0.473 0.444 0.000 0.556
#> SRR1027011 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177668 3 0.5098 0.770 0.248 0.000 0.752
#> SRR1177667 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177669 3 0.6244 0.482 0.440 0.000 0.560
#> SRR1177670 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177671 2 0.0661 0.992 0.004 0.988 0.008
#> SRR1177672 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177673 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1177674 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177675 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177676 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177677 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177678 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1177679 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1177680 1 0.3816 0.845 0.852 0.148 0.000
#> SRR1177681 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177682 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177683 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1177684 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1177685 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177686 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177687 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1177688 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177689 1 0.1289 0.959 0.968 0.032 0.000
#> SRR1177690 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177691 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1177692 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1177693 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1177694 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1177695 1 0.0747 0.962 0.984 0.016 0.000
#> SRR1177697 1 0.0747 0.962 0.984 0.016 0.000
#> SRR1177696 1 0.4555 0.675 0.800 0.000 0.200
#> SRR1177698 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177700 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177701 1 0.0592 0.962 0.988 0.012 0.000
#> SRR1177702 3 0.3644 0.817 0.124 0.004 0.872
#> SRR1177703 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177704 3 0.1765 0.847 0.040 0.004 0.956
#> SRR1177705 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177706 1 0.4346 0.806 0.816 0.184 0.000
#> SRR1177707 1 0.1031 0.961 0.976 0.024 0.000
#> SRR1177708 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177709 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1177710 3 0.4654 0.796 0.208 0.000 0.792
#> SRR1177711 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177712 3 0.6330 0.528 0.396 0.004 0.600
#> SRR1177714 2 0.0661 0.992 0.004 0.988 0.008
#> SRR1177713 3 0.5201 0.760 0.236 0.004 0.760
#> SRR1177715 1 0.2165 0.939 0.936 0.064 0.000
#> SRR1177716 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177717 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177718 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1177719 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177720 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177721 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1177722 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1177723 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177726 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177727 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1177728 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177729 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177730 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177731 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1177732 3 0.6168 0.543 0.412 0.000 0.588
#> SRR1177733 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177735 1 0.1289 0.959 0.968 0.032 0.000
#> SRR1177736 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1177737 2 0.0237 0.998 0.004 0.996 0.000
#> SRR1177738 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177739 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177740 1 0.0892 0.962 0.980 0.020 0.000
#> SRR1177741 1 0.0237 0.960 0.996 0.000 0.004
#> SRR1177742 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177743 3 0.6302 0.377 0.480 0.000 0.520
#> SRR1177744 3 0.5254 0.758 0.264 0.000 0.736
#> SRR1177745 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1177746 1 0.1643 0.953 0.956 0.044 0.000
#> SRR1177747 3 0.6140 0.558 0.404 0.000 0.596
#> SRR1177748 3 0.1753 0.861 0.048 0.000 0.952
#> SRR1177749 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177751 1 0.0892 0.962 0.980 0.020 0.000
#> SRR1177752 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.962 1.000 0.000 0.000
#> SRR1177754 3 0.6215 0.509 0.428 0.000 0.572
#> SRR1177755 1 0.0747 0.962 0.984 0.016 0.000
#> SRR1177756 1 0.1289 0.959 0.968 0.032 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.4936 0.7641 0.020 0.700 0.000 0.280
#> SRR1026871 2 0.4936 0.7641 0.020 0.700 0.000 0.280
#> SRR1026872 2 0.4283 0.7851 0.004 0.740 0.000 0.256
#> SRR1026873 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1026874 3 0.5599 0.6512 0.276 0.000 0.672 0.052
#> SRR1026875 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026876 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026877 3 0.0336 0.9359 0.008 0.000 0.992 0.000
#> SRR1026878 3 0.0336 0.9359 0.008 0.000 0.992 0.000
#> SRR1026879 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1026880 1 0.6074 0.6435 0.668 0.000 0.228 0.104
#> SRR1026881 2 0.4804 0.6299 0.000 0.616 0.000 0.384
#> SRR1026882 2 0.4761 0.6500 0.000 0.628 0.000 0.372
#> SRR1026883 4 0.1118 0.8211 0.000 0.036 0.000 0.964
#> SRR1026884 4 0.1118 0.8211 0.000 0.036 0.000 0.964
#> SRR1026885 4 0.0817 0.8330 0.024 0.000 0.000 0.976
#> SRR1026886 4 0.0817 0.8330 0.024 0.000 0.000 0.976
#> SRR1026887 3 0.3215 0.8466 0.032 0.000 0.876 0.092
#> SRR1026888 3 0.3215 0.8466 0.032 0.000 0.876 0.092
#> SRR1026889 2 0.2530 0.8473 0.000 0.888 0.000 0.112
#> SRR1026890 4 0.0895 0.8294 0.004 0.020 0.000 0.976
#> SRR1026891 4 0.4998 -0.5577 0.488 0.000 0.000 0.512
#> SRR1026892 4 0.4998 -0.5577 0.488 0.000 0.000 0.512
#> SRR1026893 3 0.0336 0.9359 0.008 0.000 0.992 0.000
#> SRR1026894 3 0.0336 0.9359 0.008 0.000 0.992 0.000
#> SRR1026895 4 0.1118 0.8211 0.000 0.036 0.000 0.964
#> SRR1026896 4 0.1118 0.8211 0.000 0.036 0.000 0.964
#> SRR1026897 3 0.5599 0.6512 0.276 0.000 0.672 0.052
#> SRR1026898 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1026899 1 0.5849 0.7509 0.704 0.000 0.132 0.164
#> SRR1026900 4 0.1209 0.8220 0.004 0.032 0.000 0.964
#> SRR1026901 4 0.4300 0.6508 0.088 0.092 0.000 0.820
#> SRR1026902 4 0.2760 0.7123 0.128 0.000 0.000 0.872
#> SRR1026903 4 0.2760 0.7123 0.128 0.000 0.000 0.872
#> SRR1026904 4 0.0707 0.8367 0.020 0.000 0.000 0.980
#> SRR1026905 4 0.0707 0.8367 0.020 0.000 0.000 0.980
#> SRR1026906 2 0.0707 0.8551 0.000 0.980 0.000 0.020
#> SRR1026907 2 0.0707 0.8551 0.000 0.980 0.000 0.020
#> SRR1026908 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026909 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026910 4 0.0000 0.8378 0.000 0.000 0.000 1.000
#> SRR1026911 4 0.0000 0.8378 0.000 0.000 0.000 1.000
#> SRR1026912 3 0.5005 0.6485 0.020 0.004 0.712 0.264
#> SRR1026913 3 0.5005 0.6485 0.020 0.004 0.712 0.264
#> SRR1026914 2 0.4406 0.7498 0.000 0.700 0.000 0.300
#> SRR1026915 2 0.4406 0.7498 0.000 0.700 0.000 0.300
#> SRR1026916 2 0.4406 0.7498 0.000 0.700 0.000 0.300
#> SRR1026917 2 0.4406 0.7498 0.000 0.700 0.000 0.300
#> SRR1026918 4 0.1118 0.8211 0.000 0.036 0.000 0.964
#> SRR1026919 4 0.1118 0.8211 0.000 0.036 0.000 0.964
#> SRR1026920 4 0.5206 0.1690 0.024 0.308 0.000 0.668
#> SRR1026921 4 0.5206 0.1690 0.024 0.308 0.000 0.668
#> SRR1026922 2 0.2021 0.8450 0.040 0.936 0.000 0.024
#> SRR1026923 2 0.5334 0.8108 0.088 0.740 0.000 0.172
#> SRR1026924 4 0.1022 0.8238 0.000 0.032 0.000 0.968
#> SRR1026925 3 0.0188 0.9369 0.004 0.000 0.996 0.000
#> SRR1026926 4 0.0000 0.8378 0.000 0.000 0.000 1.000
#> SRR1026927 1 0.4661 0.8474 0.652 0.000 0.000 0.348
#> SRR1026928 4 0.3356 0.6010 0.000 0.176 0.000 0.824
#> SRR1026929 3 0.0188 0.9369 0.004 0.000 0.996 0.000
#> SRR1026930 4 0.4422 0.3901 0.008 0.256 0.000 0.736
#> SRR1026931 2 0.3024 0.7805 0.148 0.852 0.000 0.000
#> SRR1026932 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026933 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026934 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026935 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026936 4 0.0188 0.8379 0.004 0.000 0.000 0.996
#> SRR1026937 4 0.0188 0.8379 0.004 0.000 0.000 0.996
#> SRR1026938 2 0.4008 0.7936 0.000 0.756 0.000 0.244
#> SRR1026939 2 0.4008 0.7936 0.000 0.756 0.000 0.244
#> SRR1026940 1 0.4643 0.8487 0.656 0.000 0.000 0.344
#> SRR1026941 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.4477 0.8776 0.688 0.000 0.000 0.312
#> SRR1026943 1 0.4888 0.7474 0.588 0.000 0.000 0.412
#> SRR1026944 1 0.4406 0.8813 0.700 0.000 0.000 0.300
#> SRR1026945 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1026947 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026946 2 0.0707 0.8551 0.000 0.980 0.000 0.020
#> SRR1026948 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026949 4 0.2831 0.7596 0.120 0.004 0.000 0.876
#> SRR1026950 1 0.4713 0.8281 0.640 0.000 0.000 0.360
#> SRR1026951 4 0.3172 0.6871 0.160 0.000 0.000 0.840
#> SRR1026952 1 0.4431 0.8817 0.696 0.000 0.000 0.304
#> SRR1026953 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.0592 0.8357 0.016 0.000 0.000 0.984
#> SRR1026955 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1026956 4 0.4907 -0.3395 0.420 0.000 0.000 0.580
#> SRR1026957 2 0.4961 0.4998 0.000 0.552 0.000 0.448
#> SRR1026958 1 0.4888 0.7475 0.588 0.000 0.000 0.412
#> SRR1026959 2 0.2868 0.7872 0.136 0.864 0.000 0.000
#> SRR1026960 4 0.0188 0.8370 0.000 0.004 0.000 0.996
#> SRR1026961 4 0.0592 0.8322 0.000 0.016 0.000 0.984
#> SRR1026962 1 0.4431 0.8817 0.696 0.000 0.000 0.304
#> SRR1026963 1 0.5021 0.6112 0.756 0.000 0.180 0.064
#> SRR1026964 4 0.0336 0.8357 0.000 0.008 0.000 0.992
#> SRR1026965 4 0.0188 0.8370 0.000 0.004 0.000 0.996
#> SRR1026966 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.0000 0.8378 0.000 0.000 0.000 1.000
#> SRR1026969 4 0.0707 0.8341 0.020 0.000 0.000 0.980
#> SRR1026970 4 0.1022 0.8284 0.032 0.000 0.000 0.968
#> SRR1026971 4 0.1022 0.8284 0.032 0.000 0.000 0.968
#> SRR1026972 4 0.1042 0.8365 0.020 0.008 0.000 0.972
#> SRR1026973 4 0.1042 0.8365 0.020 0.008 0.000 0.972
#> SRR1026974 1 0.4961 0.7040 0.552 0.000 0.000 0.448
#> SRR1026975 1 0.4961 0.7040 0.552 0.000 0.000 0.448
#> SRR1026976 4 0.0921 0.8310 0.028 0.000 0.000 0.972
#> SRR1026977 4 0.0921 0.8310 0.028 0.000 0.000 0.972
#> SRR1026978 4 0.2469 0.7715 0.108 0.000 0.000 0.892
#> SRR1026979 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1026980 4 0.0188 0.8374 0.004 0.000 0.000 0.996
#> SRR1026981 3 0.0188 0.9369 0.004 0.000 0.996 0.000
#> SRR1026982 4 0.0000 0.8378 0.000 0.000 0.000 1.000
#> SRR1026983 4 0.0000 0.8378 0.000 0.000 0.000 1.000
#> SRR1026984 4 0.1940 0.7841 0.000 0.076 0.000 0.924
#> SRR1026985 4 0.1940 0.7841 0.000 0.076 0.000 0.924
#> SRR1026986 4 0.3587 0.7827 0.088 0.052 0.000 0.860
#> SRR1026987 4 0.4916 -0.2920 0.424 0.000 0.000 0.576
#> SRR1026988 1 0.5763 0.7436 0.712 0.000 0.132 0.156
#> SRR1026989 3 0.0336 0.9359 0.008 0.000 0.992 0.000
#> SRR1026990 4 0.0921 0.8311 0.028 0.000 0.000 0.972
#> SRR1026991 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1026992 1 0.4431 0.8817 0.696 0.000 0.000 0.304
#> SRR1026993 1 0.4477 0.8776 0.688 0.000 0.000 0.312
#> SRR1026994 4 0.2345 0.7756 0.100 0.000 0.000 0.900
#> SRR1026995 1 0.4643 0.8483 0.656 0.000 0.000 0.344
#> SRR1026996 4 0.0336 0.8375 0.008 0.000 0.000 0.992
#> SRR1026997 4 0.0336 0.8375 0.008 0.000 0.000 0.992
#> SRR1026998 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1027000 1 0.4477 0.8800 0.688 0.000 0.000 0.312
#> SRR1027001 3 0.2480 0.8673 0.088 0.000 0.904 0.008
#> SRR1027002 4 0.3224 0.7706 0.120 0.016 0.000 0.864
#> SRR1027003 4 0.2647 0.7706 0.120 0.000 0.000 0.880
#> SRR1027004 1 0.4431 0.8809 0.696 0.000 0.000 0.304
#> SRR1027005 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1027006 1 0.4509 0.8760 0.708 0.000 0.004 0.288
#> SRR1027007 4 0.2760 0.7310 0.128 0.000 0.000 0.872
#> SRR1027008 1 0.4500 0.8780 0.684 0.000 0.000 0.316
#> SRR1027009 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1027010 1 0.6155 0.7064 0.676 0.000 0.176 0.148
#> SRR1027011 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177668 1 0.6549 0.4116 0.556 0.000 0.356 0.088
#> SRR1177667 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177669 1 0.6193 0.6989 0.672 0.000 0.180 0.148
#> SRR1177670 3 0.0188 0.9364 0.004 0.000 0.996 0.000
#> SRR1177671 2 0.2868 0.7872 0.136 0.864 0.000 0.000
#> SRR1177672 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177673 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177674 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177675 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177676 3 0.0188 0.9364 0.004 0.000 0.996 0.000
#> SRR1177677 1 0.4477 0.8800 0.688 0.000 0.000 0.312
#> SRR1177678 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177679 2 0.1042 0.8545 0.008 0.972 0.000 0.020
#> SRR1177680 4 0.3796 0.7806 0.096 0.056 0.000 0.848
#> SRR1177681 1 0.4431 0.8818 0.696 0.000 0.000 0.304
#> SRR1177682 1 0.4431 0.8818 0.696 0.000 0.000 0.304
#> SRR1177683 2 0.1356 0.8556 0.008 0.960 0.000 0.032
#> SRR1177684 2 0.3032 0.8443 0.008 0.868 0.000 0.124
#> SRR1177685 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177686 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177687 4 0.2760 0.7483 0.128 0.000 0.000 0.872
#> SRR1177688 1 0.4454 0.8811 0.692 0.000 0.000 0.308
#> SRR1177689 4 0.4746 -0.0236 0.368 0.000 0.000 0.632
#> SRR1177690 1 0.4500 0.8780 0.684 0.000 0.000 0.316
#> SRR1177691 2 0.2611 0.8503 0.008 0.896 0.000 0.096
#> SRR1177692 4 0.2760 0.7611 0.128 0.000 0.000 0.872
#> SRR1177693 2 0.5431 0.7891 0.064 0.712 0.000 0.224
#> SRR1177694 2 0.4431 0.7452 0.000 0.696 0.000 0.304
#> SRR1177695 1 0.4661 0.8489 0.652 0.000 0.000 0.348
#> SRR1177697 1 0.4746 0.8172 0.632 0.000 0.000 0.368
#> SRR1177696 1 0.5249 0.8393 0.708 0.000 0.044 0.248
#> SRR1177698 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177700 1 0.4933 0.7157 0.568 0.000 0.000 0.432
#> SRR1177701 4 0.4776 -0.0844 0.376 0.000 0.000 0.624
#> SRR1177702 3 0.5407 0.6761 0.296 0.000 0.668 0.036
#> SRR1177703 1 0.4992 0.6204 0.524 0.000 0.000 0.476
#> SRR1177704 3 0.4279 0.7979 0.204 0.012 0.780 0.004
#> SRR1177705 1 0.4866 0.7696 0.596 0.000 0.000 0.404
#> SRR1177706 4 0.3996 0.7805 0.104 0.060 0.000 0.836
#> SRR1177707 4 0.3569 0.5951 0.196 0.000 0.000 0.804
#> SRR1177708 1 0.4477 0.8799 0.688 0.000 0.000 0.312
#> SRR1177709 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177710 3 0.5646 0.5243 0.296 0.000 0.656 0.048
#> SRR1177711 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177712 1 0.5690 0.5438 0.716 0.000 0.116 0.168
#> SRR1177714 2 0.2868 0.7872 0.136 0.864 0.000 0.000
#> SRR1177713 1 0.4030 0.4773 0.820 0.012 0.156 0.012
#> SRR1177715 4 0.3047 0.7704 0.116 0.012 0.000 0.872
#> SRR1177716 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.4500 0.8780 0.684 0.000 0.000 0.316
#> SRR1177718 1 0.4356 0.8799 0.708 0.000 0.000 0.292
#> SRR1177719 1 0.4500 0.8780 0.684 0.000 0.000 0.316
#> SRR1177720 3 0.0188 0.9369 0.004 0.000 0.996 0.000
#> SRR1177721 2 0.0469 0.8542 0.000 0.988 0.000 0.012
#> SRR1177722 2 0.0469 0.8422 0.012 0.988 0.000 0.000
#> SRR1177723 1 0.4500 0.8780 0.684 0.000 0.000 0.316
#> SRR1177725 1 0.4431 0.8817 0.696 0.000 0.000 0.304
#> SRR1177724 1 0.4477 0.8776 0.688 0.000 0.000 0.312
#> SRR1177726 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177728 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.4500 0.8780 0.684 0.000 0.000 0.316
#> SRR1177730 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177731 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177732 1 0.5944 0.7164 0.696 0.000 0.164 0.140
#> SRR1177733 1 0.4500 0.8780 0.684 0.000 0.000 0.316
#> SRR1177734 1 0.4477 0.8776 0.688 0.000 0.000 0.312
#> SRR1177735 4 0.4382 0.3214 0.296 0.000 0.000 0.704
#> SRR1177736 1 0.4406 0.8817 0.700 0.000 0.000 0.300
#> SRR1177737 2 0.4844 0.7466 0.012 0.688 0.000 0.300
#> SRR1177738 3 0.1004 0.9257 0.024 0.000 0.972 0.004
#> SRR1177739 1 0.4477 0.8799 0.688 0.000 0.000 0.312
#> SRR1177740 1 0.5000 0.5580 0.504 0.000 0.000 0.496
#> SRR1177741 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177742 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.5842 0.7552 0.704 0.000 0.128 0.168
#> SRR1177744 1 0.6019 0.6425 0.672 0.000 0.228 0.100
#> SRR1177745 4 0.2266 0.8055 0.084 0.004 0.000 0.912
#> SRR1177746 4 0.2831 0.7623 0.120 0.004 0.000 0.876
#> SRR1177747 1 0.6966 0.4979 0.540 0.000 0.328 0.132
#> SRR1177748 3 0.0000 0.9380 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177750 1 0.4454 0.8811 0.692 0.000 0.000 0.308
#> SRR1177751 1 0.4661 0.8489 0.652 0.000 0.000 0.348
#> SRR1177752 1 0.4406 0.8817 0.700 0.000 0.000 0.300
#> SRR1177753 1 0.4382 0.8810 0.704 0.000 0.000 0.296
#> SRR1177754 1 0.5905 0.7216 0.700 0.000 0.156 0.144
#> SRR1177755 1 0.4713 0.8281 0.640 0.000 0.000 0.360
#> SRR1177756 1 0.4933 0.7080 0.568 0.000 0.000 0.432
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.6268 0.527 0.000 0.484 0.000 0.360 0.156
#> SRR1026871 2 0.6268 0.527 0.000 0.484 0.000 0.360 0.156
#> SRR1026872 2 0.5425 0.602 0.000 0.600 0.000 0.320 0.080
#> SRR1026873 1 0.2074 0.757 0.896 0.000 0.000 0.000 0.104
#> SRR1026874 3 0.6264 -0.243 0.160 0.000 0.496 0.000 0.344
#> SRR1026875 2 0.0566 0.769 0.000 0.984 0.000 0.004 0.012
#> SRR1026876 2 0.0566 0.769 0.000 0.984 0.000 0.004 0.012
#> SRR1026877 3 0.0510 0.855 0.000 0.000 0.984 0.000 0.016
#> SRR1026878 3 0.0510 0.855 0.000 0.000 0.984 0.000 0.016
#> SRR1026879 1 0.2280 0.745 0.880 0.000 0.000 0.000 0.120
#> SRR1026880 1 0.3804 0.635 0.796 0.000 0.044 0.000 0.160
#> SRR1026881 4 0.5546 -0.240 0.000 0.436 0.000 0.496 0.068
#> SRR1026882 4 0.5551 -0.266 0.000 0.444 0.000 0.488 0.068
#> SRR1026883 4 0.2605 0.780 0.060 0.016 0.000 0.900 0.024
#> SRR1026884 4 0.2605 0.780 0.060 0.016 0.000 0.900 0.024
#> SRR1026885 4 0.2951 0.786 0.112 0.000 0.000 0.860 0.028
#> SRR1026886 4 0.2951 0.786 0.112 0.000 0.000 0.860 0.028
#> SRR1026887 3 0.4706 0.576 0.016 0.000 0.764 0.112 0.108
#> SRR1026888 3 0.4706 0.576 0.016 0.000 0.764 0.112 0.108
#> SRR1026889 2 0.3608 0.746 0.000 0.824 0.000 0.112 0.064
#> SRR1026890 4 0.2728 0.785 0.068 0.004 0.000 0.888 0.040
#> SRR1026891 1 0.4940 0.294 0.576 0.000 0.000 0.392 0.032
#> SRR1026892 1 0.4940 0.294 0.576 0.000 0.000 0.392 0.032
#> SRR1026893 3 0.0703 0.852 0.000 0.000 0.976 0.000 0.024
#> SRR1026894 3 0.0703 0.852 0.000 0.000 0.976 0.000 0.024
#> SRR1026895 4 0.2513 0.780 0.060 0.016 0.000 0.904 0.020
#> SRR1026896 4 0.2513 0.780 0.060 0.016 0.000 0.904 0.020
#> SRR1026897 3 0.6264 -0.243 0.160 0.000 0.496 0.000 0.344
#> SRR1026898 1 0.1851 0.770 0.912 0.000 0.000 0.000 0.088
#> SRR1026899 1 0.3454 0.669 0.816 0.000 0.028 0.000 0.156
#> SRR1026900 4 0.5163 0.715 0.080 0.020 0.000 0.716 0.184
#> SRR1026901 4 0.5741 0.607 0.056 0.028 0.000 0.612 0.304
#> SRR1026902 4 0.3954 0.707 0.192 0.000 0.000 0.772 0.036
#> SRR1026903 4 0.3954 0.707 0.192 0.000 0.000 0.772 0.036
#> SRR1026904 4 0.3269 0.785 0.096 0.000 0.000 0.848 0.056
#> SRR1026905 4 0.3269 0.785 0.096 0.000 0.000 0.848 0.056
#> SRR1026906 2 0.0898 0.772 0.000 0.972 0.000 0.008 0.020
#> SRR1026907 2 0.0898 0.772 0.000 0.972 0.000 0.008 0.020
#> SRR1026908 2 0.0324 0.771 0.000 0.992 0.000 0.004 0.004
#> SRR1026909 2 0.0324 0.771 0.000 0.992 0.000 0.004 0.004
#> SRR1026910 4 0.2351 0.796 0.088 0.000 0.000 0.896 0.016
#> SRR1026911 4 0.2351 0.796 0.088 0.000 0.000 0.896 0.016
#> SRR1026912 3 0.5933 0.191 0.012 0.000 0.576 0.320 0.092
#> SRR1026913 3 0.5933 0.191 0.012 0.000 0.576 0.320 0.092
#> SRR1026914 2 0.5429 0.537 0.000 0.564 0.000 0.368 0.068
#> SRR1026915 2 0.5429 0.537 0.000 0.564 0.000 0.368 0.068
#> SRR1026916 2 0.5449 0.523 0.000 0.556 0.000 0.376 0.068
#> SRR1026917 2 0.5449 0.523 0.000 0.556 0.000 0.376 0.068
#> SRR1026918 4 0.3226 0.768 0.060 0.016 0.000 0.868 0.056
#> SRR1026919 4 0.3226 0.768 0.060 0.016 0.000 0.868 0.056
#> SRR1026920 4 0.4149 0.585 0.000 0.128 0.000 0.784 0.088
#> SRR1026921 4 0.4149 0.585 0.000 0.128 0.000 0.784 0.088
#> SRR1026922 2 0.3400 0.750 0.000 0.828 0.000 0.036 0.136
#> SRR1026923 2 0.5604 0.670 0.000 0.628 0.000 0.132 0.240
#> SRR1026924 4 0.2074 0.785 0.060 0.016 0.000 0.920 0.004
#> SRR1026925 3 0.0510 0.855 0.000 0.000 0.984 0.000 0.016
#> SRR1026926 4 0.2017 0.795 0.080 0.000 0.000 0.912 0.008
#> SRR1026927 1 0.4313 0.561 0.732 0.000 0.000 0.228 0.040
#> SRR1026928 4 0.3414 0.713 0.024 0.056 0.000 0.860 0.060
#> SRR1026929 3 0.0404 0.856 0.000 0.000 0.988 0.000 0.012
#> SRR1026930 4 0.5822 0.594 0.036 0.116 0.000 0.676 0.172
#> SRR1026931 2 0.4021 0.652 0.000 0.764 0.000 0.036 0.200
#> SRR1026932 2 0.0566 0.769 0.000 0.984 0.000 0.004 0.012
#> SRR1026933 2 0.0566 0.769 0.000 0.984 0.000 0.004 0.012
#> SRR1026934 2 0.0566 0.770 0.000 0.984 0.000 0.004 0.012
#> SRR1026935 2 0.0566 0.770 0.000 0.984 0.000 0.004 0.012
#> SRR1026936 4 0.1892 0.795 0.080 0.000 0.000 0.916 0.004
#> SRR1026937 4 0.1892 0.795 0.080 0.000 0.000 0.916 0.004
#> SRR1026938 2 0.5200 0.625 0.000 0.628 0.000 0.304 0.068
#> SRR1026939 2 0.5200 0.625 0.000 0.628 0.000 0.304 0.068
#> SRR1026940 1 0.2863 0.758 0.876 0.000 0.000 0.060 0.064
#> SRR1026941 3 0.0000 0.857 0.000 0.000 1.000 0.000 0.000
#> SRR1026942 1 0.0912 0.804 0.972 0.000 0.000 0.016 0.012
#> SRR1026943 1 0.3849 0.695 0.808 0.000 0.000 0.112 0.080
#> SRR1026944 1 0.1205 0.799 0.956 0.000 0.000 0.004 0.040
#> SRR1026945 3 0.0865 0.855 0.000 0.000 0.972 0.004 0.024
#> SRR1026947 2 0.0451 0.770 0.000 0.988 0.000 0.004 0.008
#> SRR1026946 2 0.0898 0.772 0.000 0.972 0.000 0.008 0.020
#> SRR1026948 2 0.0566 0.766 0.000 0.984 0.000 0.004 0.012
#> SRR1026949 4 0.6204 0.535 0.312 0.000 0.000 0.524 0.164
#> SRR1026950 1 0.2592 0.769 0.892 0.000 0.000 0.056 0.052
#> SRR1026951 4 0.6235 0.468 0.344 0.000 0.000 0.500 0.156
#> SRR1026952 1 0.0771 0.801 0.976 0.000 0.000 0.004 0.020
#> SRR1026953 3 0.0865 0.855 0.000 0.000 0.972 0.004 0.024
#> SRR1026954 4 0.2074 0.795 0.104 0.000 0.000 0.896 0.000
#> SRR1026955 2 0.0566 0.769 0.000 0.984 0.000 0.004 0.012
#> SRR1026956 4 0.4655 0.118 0.476 0.000 0.000 0.512 0.012
#> SRR1026957 4 0.5506 -0.117 0.000 0.404 0.000 0.528 0.068
#> SRR1026958 1 0.4312 0.658 0.772 0.000 0.000 0.124 0.104
#> SRR1026959 2 0.3573 0.671 0.000 0.812 0.000 0.036 0.152
#> SRR1026960 4 0.2017 0.795 0.080 0.000 0.000 0.912 0.008
#> SRR1026961 4 0.2162 0.787 0.064 0.012 0.000 0.916 0.008
#> SRR1026962 1 0.1124 0.797 0.960 0.000 0.000 0.004 0.036
#> SRR1026963 1 0.4757 0.125 0.596 0.000 0.024 0.000 0.380
#> SRR1026964 4 0.1892 0.795 0.080 0.000 0.000 0.916 0.004
#> SRR1026965 4 0.1892 0.795 0.080 0.000 0.000 0.916 0.004
#> SRR1026966 3 0.0290 0.856 0.000 0.000 0.992 0.000 0.008
#> SRR1026967 3 0.0290 0.856 0.000 0.000 0.992 0.000 0.008
#> SRR1026968 4 0.2017 0.795 0.080 0.000 0.000 0.912 0.008
#> SRR1026969 4 0.2358 0.796 0.104 0.000 0.000 0.888 0.008
#> SRR1026970 4 0.2624 0.790 0.116 0.000 0.000 0.872 0.012
#> SRR1026971 4 0.2624 0.790 0.116 0.000 0.000 0.872 0.012
#> SRR1026972 4 0.2575 0.794 0.100 0.004 0.000 0.884 0.012
#> SRR1026973 4 0.2575 0.794 0.100 0.004 0.000 0.884 0.012
#> SRR1026974 1 0.4620 0.451 0.652 0.000 0.000 0.320 0.028
#> SRR1026975 1 0.4620 0.451 0.652 0.000 0.000 0.320 0.028
#> SRR1026976 4 0.2286 0.794 0.108 0.000 0.000 0.888 0.004
#> SRR1026977 4 0.2286 0.794 0.108 0.000 0.000 0.888 0.004
#> SRR1026978 4 0.6103 0.574 0.300 0.000 0.000 0.544 0.156
#> SRR1026979 3 0.0703 0.856 0.000 0.000 0.976 0.000 0.024
#> SRR1026980 4 0.4519 0.752 0.100 0.000 0.000 0.752 0.148
#> SRR1026981 3 0.0609 0.854 0.000 0.000 0.980 0.000 0.020
#> SRR1026982 4 0.2017 0.795 0.080 0.000 0.000 0.912 0.008
#> SRR1026983 4 0.2017 0.795 0.080 0.000 0.000 0.912 0.008
#> SRR1026984 4 0.3034 0.770 0.060 0.020 0.000 0.880 0.040
#> SRR1026985 4 0.3034 0.770 0.060 0.020 0.000 0.880 0.040
#> SRR1026986 4 0.6865 0.542 0.288 0.024 0.000 0.504 0.184
#> SRR1026987 1 0.5408 0.485 0.652 0.000 0.000 0.228 0.120
#> SRR1026988 1 0.3151 0.695 0.836 0.000 0.020 0.000 0.144
#> SRR1026989 3 0.0609 0.854 0.000 0.000 0.980 0.000 0.020
#> SRR1026990 4 0.2338 0.793 0.112 0.000 0.000 0.884 0.004
#> SRR1026991 3 0.0404 0.856 0.000 0.000 0.988 0.000 0.012
#> SRR1026992 1 0.0324 0.803 0.992 0.000 0.000 0.004 0.004
#> SRR1026993 1 0.1282 0.797 0.952 0.000 0.000 0.004 0.044
#> SRR1026994 4 0.6174 0.597 0.256 0.000 0.000 0.552 0.192
#> SRR1026995 1 0.3327 0.724 0.828 0.000 0.000 0.028 0.144
#> SRR1026996 4 0.2179 0.796 0.100 0.000 0.000 0.896 0.004
#> SRR1026997 4 0.2179 0.796 0.100 0.000 0.000 0.896 0.004
#> SRR1026998 3 0.0290 0.856 0.000 0.000 0.992 0.000 0.008
#> SRR1026999 3 0.0290 0.856 0.000 0.000 0.992 0.000 0.008
#> SRR1027000 1 0.2286 0.763 0.888 0.000 0.000 0.004 0.108
#> SRR1027001 3 0.5322 0.285 0.140 0.000 0.672 0.000 0.188
#> SRR1027002 4 0.6808 0.564 0.268 0.020 0.000 0.512 0.200
#> SRR1027003 4 0.6709 0.568 0.264 0.012 0.000 0.508 0.216
#> SRR1027004 1 0.0865 0.802 0.972 0.000 0.000 0.004 0.024
#> SRR1027005 3 0.0566 0.856 0.000 0.000 0.984 0.004 0.012
#> SRR1027006 1 0.2230 0.750 0.884 0.000 0.000 0.000 0.116
#> SRR1027007 4 0.5953 0.514 0.336 0.000 0.000 0.540 0.124
#> SRR1027008 1 0.1041 0.799 0.964 0.000 0.000 0.004 0.032
#> SRR1027009 3 0.0955 0.853 0.000 0.000 0.968 0.004 0.028
#> SRR1027010 1 0.3615 0.655 0.808 0.000 0.036 0.000 0.156
#> SRR1027011 3 0.0865 0.855 0.000 0.000 0.972 0.004 0.024
#> SRR1177668 1 0.5379 0.340 0.668 0.000 0.164 0.000 0.168
#> SRR1177667 1 0.1121 0.792 0.956 0.000 0.000 0.000 0.044
#> SRR1177669 1 0.3695 0.645 0.800 0.000 0.036 0.000 0.164
#> SRR1177670 3 0.1357 0.844 0.000 0.000 0.948 0.004 0.048
#> SRR1177671 2 0.3655 0.668 0.000 0.804 0.000 0.036 0.160
#> SRR1177672 3 0.1282 0.846 0.000 0.000 0.952 0.004 0.044
#> SRR1177673 1 0.2179 0.751 0.888 0.000 0.000 0.000 0.112
#> SRR1177674 3 0.1205 0.847 0.000 0.000 0.956 0.004 0.040
#> SRR1177675 1 0.1121 0.792 0.956 0.000 0.000 0.000 0.044
#> SRR1177676 3 0.2179 0.787 0.000 0.000 0.896 0.004 0.100
#> SRR1177677 1 0.1282 0.796 0.952 0.000 0.000 0.004 0.044
#> SRR1177678 1 0.1270 0.788 0.948 0.000 0.000 0.000 0.052
#> SRR1177679 2 0.2462 0.747 0.000 0.880 0.000 0.008 0.112
#> SRR1177680 4 0.7140 0.568 0.240 0.048 0.000 0.516 0.196
#> SRR1177681 1 0.0703 0.800 0.976 0.000 0.000 0.000 0.024
#> SRR1177682 1 0.2074 0.769 0.896 0.000 0.000 0.000 0.104
#> SRR1177683 2 0.2773 0.755 0.000 0.868 0.000 0.020 0.112
#> SRR1177684 2 0.4010 0.738 0.000 0.796 0.000 0.088 0.116
#> SRR1177685 1 0.1043 0.794 0.960 0.000 0.000 0.000 0.040
#> SRR1177686 3 0.0566 0.856 0.000 0.000 0.984 0.004 0.012
#> SRR1177687 4 0.6748 0.548 0.280 0.016 0.000 0.508 0.196
#> SRR1177688 1 0.1341 0.794 0.944 0.000 0.000 0.000 0.056
#> SRR1177689 1 0.5618 0.443 0.628 0.000 0.000 0.236 0.136
#> SRR1177690 1 0.1956 0.780 0.916 0.000 0.000 0.008 0.076
#> SRR1177691 2 0.4922 0.702 0.024 0.744 0.000 0.072 0.160
#> SRR1177692 4 0.6782 0.560 0.260 0.016 0.000 0.508 0.216
#> SRR1177693 2 0.5970 0.655 0.000 0.588 0.000 0.228 0.184
#> SRR1177694 2 0.5513 0.456 0.000 0.524 0.000 0.408 0.068
#> SRR1177695 1 0.2984 0.745 0.860 0.000 0.000 0.032 0.108
#> SRR1177697 1 0.3464 0.728 0.836 0.000 0.000 0.068 0.096
#> SRR1177696 1 0.2248 0.782 0.900 0.000 0.012 0.000 0.088
#> SRR1177698 3 0.0955 0.853 0.000 0.000 0.968 0.004 0.028
#> SRR1177700 1 0.3593 0.723 0.828 0.000 0.000 0.088 0.084
#> SRR1177701 1 0.4651 0.298 0.608 0.000 0.000 0.372 0.020
#> SRR1177702 5 0.6191 0.218 0.120 0.000 0.400 0.004 0.476
#> SRR1177703 1 0.4040 0.564 0.724 0.000 0.000 0.260 0.016
#> SRR1177704 5 0.5237 -0.117 0.000 0.000 0.468 0.044 0.488
#> SRR1177705 1 0.3058 0.739 0.860 0.000 0.000 0.096 0.044
#> SRR1177706 4 0.7050 0.573 0.224 0.036 0.000 0.512 0.228
#> SRR1177707 4 0.4811 0.294 0.452 0.000 0.000 0.528 0.020
#> SRR1177708 1 0.1117 0.803 0.964 0.000 0.000 0.020 0.016
#> SRR1177709 1 0.1732 0.775 0.920 0.000 0.000 0.000 0.080
#> SRR1177710 3 0.6439 -0.382 0.408 0.000 0.416 0.000 0.176
#> SRR1177711 1 0.1121 0.792 0.956 0.000 0.000 0.000 0.044
#> SRR1177712 5 0.6152 0.430 0.352 0.000 0.032 0.068 0.548
#> SRR1177714 2 0.3655 0.668 0.000 0.804 0.000 0.036 0.160
#> SRR1177713 5 0.5363 0.329 0.408 0.000 0.024 0.020 0.548
#> SRR1177715 4 0.6808 0.560 0.268 0.020 0.000 0.512 0.200
#> SRR1177716 3 0.0566 0.856 0.000 0.000 0.984 0.004 0.012
#> SRR1177717 1 0.0324 0.803 0.992 0.000 0.000 0.004 0.004
#> SRR1177718 1 0.0880 0.797 0.968 0.000 0.000 0.000 0.032
#> SRR1177719 1 0.1018 0.804 0.968 0.000 0.000 0.016 0.016
#> SRR1177720 3 0.0865 0.856 0.000 0.000 0.972 0.004 0.024
#> SRR1177721 2 0.0566 0.766 0.000 0.984 0.000 0.004 0.012
#> SRR1177722 2 0.0566 0.767 0.000 0.984 0.000 0.004 0.012
#> SRR1177723 1 0.0451 0.803 0.988 0.000 0.000 0.004 0.008
#> SRR1177725 1 0.0324 0.803 0.992 0.000 0.000 0.004 0.004
#> SRR1177724 1 0.0671 0.802 0.980 0.000 0.000 0.004 0.016
#> SRR1177726 3 0.0865 0.855 0.000 0.000 0.972 0.004 0.024
#> SRR1177727 1 0.2329 0.741 0.876 0.000 0.000 0.000 0.124
#> SRR1177728 3 0.0955 0.853 0.000 0.000 0.968 0.004 0.028
#> SRR1177729 1 0.0566 0.803 0.984 0.000 0.000 0.004 0.012
#> SRR1177730 3 0.1282 0.846 0.000 0.000 0.952 0.004 0.044
#> SRR1177731 1 0.2127 0.755 0.892 0.000 0.000 0.000 0.108
#> SRR1177732 1 0.3536 0.662 0.812 0.000 0.032 0.000 0.156
#> SRR1177733 1 0.1106 0.800 0.964 0.000 0.000 0.012 0.024
#> SRR1177734 1 0.1195 0.799 0.960 0.000 0.000 0.012 0.028
#> SRR1177735 1 0.6069 0.130 0.524 0.000 0.000 0.340 0.136
#> SRR1177736 1 0.0510 0.803 0.984 0.000 0.000 0.000 0.016
#> SRR1177737 2 0.5736 0.474 0.000 0.512 0.000 0.400 0.088
#> SRR1177738 3 0.2012 0.807 0.000 0.000 0.920 0.020 0.060
#> SRR1177739 1 0.1300 0.801 0.956 0.000 0.000 0.016 0.028
#> SRR1177740 1 0.4909 0.585 0.716 0.000 0.000 0.164 0.120
#> SRR1177741 1 0.1908 0.766 0.908 0.000 0.000 0.000 0.092
#> SRR1177742 3 0.0510 0.856 0.000 0.000 0.984 0.000 0.016
#> SRR1177743 1 0.3536 0.662 0.812 0.000 0.032 0.000 0.156
#> SRR1177744 1 0.3691 0.648 0.804 0.000 0.040 0.000 0.156
#> SRR1177745 4 0.6562 0.603 0.212 0.016 0.000 0.552 0.220
#> SRR1177746 4 0.6785 0.561 0.268 0.020 0.000 0.516 0.196
#> SRR1177747 1 0.5595 0.331 0.656 0.000 0.160 0.004 0.180
#> SRR1177748 3 0.0566 0.856 0.000 0.000 0.984 0.004 0.012
#> SRR1177749 1 0.1121 0.792 0.956 0.000 0.000 0.000 0.044
#> SRR1177750 1 0.1205 0.797 0.956 0.000 0.000 0.004 0.040
#> SRR1177751 1 0.2795 0.754 0.872 0.000 0.000 0.028 0.100
#> SRR1177752 1 0.0566 0.803 0.984 0.000 0.000 0.004 0.012
#> SRR1177753 1 0.0703 0.799 0.976 0.000 0.000 0.000 0.024
#> SRR1177754 1 0.3577 0.657 0.808 0.000 0.032 0.000 0.160
#> SRR1177755 1 0.3226 0.742 0.852 0.000 0.000 0.060 0.088
#> SRR1177756 1 0.4457 0.646 0.760 0.000 0.000 0.116 0.124
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.7017 0.47338 0.000 0.404 0.000 0.256 0.268 0.072
#> SRR1026871 2 0.7017 0.47338 0.000 0.404 0.000 0.256 0.268 0.072
#> SRR1026872 2 0.6262 0.51887 0.000 0.500 0.000 0.292 0.176 0.032
#> SRR1026873 1 0.2697 0.66062 0.812 0.000 0.000 0.000 0.000 0.188
#> SRR1026874 6 0.5975 0.51848 0.100 0.000 0.328 0.000 0.044 0.528
#> SRR1026875 2 0.0951 0.70884 0.000 0.968 0.000 0.008 0.004 0.020
#> SRR1026876 2 0.0951 0.70884 0.000 0.968 0.000 0.008 0.004 0.020
#> SRR1026877 3 0.1297 0.84379 0.000 0.000 0.948 0.000 0.040 0.012
#> SRR1026878 3 0.1297 0.84379 0.000 0.000 0.948 0.000 0.040 0.012
#> SRR1026879 1 0.3198 0.59663 0.740 0.000 0.000 0.000 0.000 0.260
#> SRR1026880 1 0.3578 0.49342 0.660 0.000 0.000 0.000 0.000 0.340
#> SRR1026881 4 0.5877 -0.08989 0.000 0.332 0.000 0.516 0.132 0.020
#> SRR1026882 4 0.5896 -0.11795 0.000 0.340 0.000 0.508 0.132 0.020
#> SRR1026883 4 0.1483 0.56952 0.008 0.000 0.000 0.944 0.036 0.012
#> SRR1026884 4 0.1483 0.56952 0.008 0.000 0.000 0.944 0.036 0.012
#> SRR1026885 4 0.2521 0.55076 0.056 0.000 0.000 0.892 0.032 0.020
#> SRR1026886 4 0.2521 0.55076 0.056 0.000 0.000 0.892 0.032 0.020
#> SRR1026887 3 0.5750 0.45854 0.008 0.000 0.648 0.100 0.060 0.184
#> SRR1026888 3 0.5750 0.45854 0.008 0.000 0.648 0.100 0.060 0.184
#> SRR1026889 2 0.4225 0.67853 0.000 0.764 0.000 0.116 0.104 0.016
#> SRR1026890 4 0.1806 0.57147 0.008 0.000 0.000 0.928 0.044 0.020
#> SRR1026891 4 0.4925 -0.00481 0.448 0.000 0.000 0.500 0.008 0.044
#> SRR1026892 4 0.4925 -0.00481 0.448 0.000 0.000 0.500 0.008 0.044
#> SRR1026893 3 0.1549 0.84056 0.000 0.000 0.936 0.000 0.044 0.020
#> SRR1026894 3 0.1549 0.84056 0.000 0.000 0.936 0.000 0.044 0.020
#> SRR1026895 4 0.1307 0.57592 0.008 0.000 0.000 0.952 0.032 0.008
#> SRR1026896 4 0.1307 0.57592 0.008 0.000 0.000 0.952 0.032 0.008
#> SRR1026897 6 0.5975 0.51848 0.100 0.000 0.328 0.000 0.044 0.528
#> SRR1026898 1 0.2730 0.66091 0.808 0.000 0.000 0.000 0.000 0.192
#> SRR1026899 1 0.3531 0.51075 0.672 0.000 0.000 0.000 0.000 0.328
#> SRR1026900 4 0.4370 -0.19985 0.020 0.000 0.000 0.616 0.356 0.008
#> SRR1026901 5 0.5338 0.33979 0.012 0.004 0.000 0.440 0.484 0.060
#> SRR1026902 4 0.3897 0.47921 0.076 0.000 0.000 0.808 0.056 0.060
#> SRR1026903 4 0.3897 0.47921 0.076 0.000 0.000 0.808 0.056 0.060
#> SRR1026904 4 0.3376 0.52114 0.028 0.000 0.000 0.840 0.072 0.060
#> SRR1026905 4 0.3376 0.52114 0.028 0.000 0.000 0.840 0.072 0.060
#> SRR1026906 2 0.0935 0.71286 0.000 0.964 0.000 0.004 0.032 0.000
#> SRR1026907 2 0.0935 0.71286 0.000 0.964 0.000 0.004 0.032 0.000
#> SRR1026908 2 0.0291 0.71187 0.000 0.992 0.000 0.004 0.004 0.000
#> SRR1026909 2 0.0291 0.71187 0.000 0.992 0.000 0.004 0.004 0.000
#> SRR1026910 4 0.0767 0.58864 0.008 0.000 0.000 0.976 0.012 0.004
#> SRR1026911 4 0.0767 0.58864 0.008 0.000 0.000 0.976 0.012 0.004
#> SRR1026912 3 0.6833 0.11956 0.012 0.000 0.492 0.284 0.072 0.140
#> SRR1026913 3 0.6833 0.11956 0.012 0.000 0.492 0.284 0.072 0.140
#> SRR1026914 2 0.5963 0.44204 0.000 0.468 0.000 0.372 0.144 0.016
#> SRR1026915 2 0.5963 0.44204 0.000 0.468 0.000 0.372 0.144 0.016
#> SRR1026916 2 0.5963 0.44204 0.000 0.468 0.000 0.372 0.144 0.016
#> SRR1026917 2 0.5963 0.44204 0.000 0.468 0.000 0.372 0.144 0.016
#> SRR1026918 4 0.2418 0.52660 0.008 0.000 0.000 0.884 0.092 0.016
#> SRR1026919 4 0.2418 0.52660 0.008 0.000 0.000 0.884 0.092 0.016
#> SRR1026920 4 0.4363 0.35628 0.000 0.048 0.000 0.744 0.176 0.032
#> SRR1026921 4 0.4363 0.35628 0.000 0.048 0.000 0.744 0.176 0.032
#> SRR1026922 2 0.4419 0.65487 0.000 0.700 0.000 0.020 0.244 0.036
#> SRR1026923 2 0.6199 0.48069 0.000 0.436 0.000 0.084 0.416 0.064
#> SRR1026924 4 0.0405 0.58636 0.008 0.000 0.000 0.988 0.004 0.000
#> SRR1026925 3 0.1549 0.84056 0.000 0.000 0.936 0.000 0.044 0.020
#> SRR1026926 4 0.0551 0.58671 0.008 0.000 0.000 0.984 0.004 0.004
#> SRR1026927 1 0.4920 0.31149 0.580 0.000 0.000 0.352 0.004 0.064
#> SRR1026928 4 0.2604 0.50129 0.000 0.008 0.000 0.872 0.100 0.020
#> SRR1026929 3 0.1297 0.84379 0.000 0.000 0.948 0.000 0.040 0.012
#> SRR1026930 4 0.5917 -0.29329 0.044 0.068 0.000 0.536 0.344 0.008
#> SRR1026931 2 0.4475 0.54554 0.000 0.700 0.000 0.000 0.200 0.100
#> SRR1026932 2 0.0922 0.70837 0.000 0.968 0.000 0.004 0.004 0.024
#> SRR1026933 2 0.0922 0.70837 0.000 0.968 0.000 0.004 0.004 0.024
#> SRR1026934 2 0.0653 0.70999 0.000 0.980 0.000 0.004 0.004 0.012
#> SRR1026935 2 0.0653 0.70999 0.000 0.980 0.000 0.004 0.004 0.012
#> SRR1026936 4 0.0551 0.58750 0.008 0.000 0.000 0.984 0.004 0.004
#> SRR1026937 4 0.0551 0.58750 0.008 0.000 0.000 0.984 0.004 0.004
#> SRR1026938 2 0.5587 0.54494 0.000 0.564 0.000 0.304 0.116 0.016
#> SRR1026939 2 0.5587 0.54494 0.000 0.564 0.000 0.304 0.116 0.016
#> SRR1026940 1 0.3276 0.65900 0.816 0.000 0.000 0.052 0.132 0.000
#> SRR1026941 3 0.0909 0.85528 0.000 0.000 0.968 0.000 0.020 0.012
#> SRR1026942 1 0.1426 0.73769 0.948 0.000 0.000 0.016 0.028 0.008
#> SRR1026943 1 0.3962 0.59788 0.772 0.000 0.000 0.096 0.128 0.004
#> SRR1026944 1 0.1850 0.73621 0.924 0.000 0.000 0.008 0.016 0.052
#> SRR1026945 3 0.2088 0.84450 0.000 0.000 0.904 0.000 0.028 0.068
#> SRR1026947 2 0.0291 0.71187 0.000 0.992 0.000 0.004 0.004 0.000
#> SRR1026946 2 0.0858 0.71297 0.000 0.968 0.000 0.004 0.028 0.000
#> SRR1026948 2 0.1003 0.70483 0.000 0.964 0.000 0.000 0.016 0.020
#> SRR1026949 4 0.6331 -0.64927 0.292 0.004 0.000 0.388 0.312 0.004
#> SRR1026950 1 0.2519 0.70986 0.884 0.000 0.000 0.044 0.068 0.004
#> SRR1026951 4 0.6176 -0.59144 0.344 0.000 0.000 0.392 0.260 0.004
#> SRR1026952 1 0.0692 0.74002 0.976 0.000 0.000 0.004 0.000 0.020
#> SRR1026953 3 0.1970 0.84401 0.000 0.000 0.912 0.000 0.028 0.060
#> SRR1026954 4 0.1528 0.58303 0.028 0.000 0.000 0.944 0.016 0.012
#> SRR1026955 2 0.0922 0.70837 0.000 0.968 0.000 0.004 0.004 0.024
#> SRR1026956 4 0.4679 0.07572 0.376 0.000 0.000 0.584 0.020 0.020
#> SRR1026957 4 0.5783 -0.14793 0.000 0.368 0.000 0.496 0.120 0.016
#> SRR1026958 1 0.4266 0.54647 0.736 0.000 0.000 0.088 0.172 0.004
#> SRR1026959 2 0.3956 0.57790 0.000 0.760 0.000 0.000 0.152 0.088
#> SRR1026960 4 0.1434 0.58683 0.020 0.000 0.000 0.948 0.024 0.008
#> SRR1026961 4 0.1194 0.58044 0.008 0.000 0.000 0.956 0.032 0.004
#> SRR1026962 1 0.1349 0.73237 0.940 0.000 0.000 0.004 0.000 0.056
#> SRR1026963 6 0.4389 0.27334 0.372 0.000 0.000 0.000 0.032 0.596
#> SRR1026964 4 0.0862 0.58605 0.008 0.000 0.000 0.972 0.016 0.004
#> SRR1026965 4 0.0862 0.58605 0.008 0.000 0.000 0.972 0.016 0.004
#> SRR1026966 3 0.0935 0.84967 0.000 0.000 0.964 0.000 0.032 0.004
#> SRR1026967 3 0.0935 0.84967 0.000 0.000 0.964 0.000 0.032 0.004
#> SRR1026968 4 0.0976 0.58818 0.008 0.000 0.000 0.968 0.016 0.008
#> SRR1026969 4 0.1821 0.57900 0.040 0.000 0.000 0.928 0.024 0.008
#> SRR1026970 4 0.2507 0.55018 0.060 0.000 0.000 0.892 0.028 0.020
#> SRR1026971 4 0.2507 0.55018 0.060 0.000 0.000 0.892 0.028 0.020
#> SRR1026972 4 0.1777 0.57724 0.032 0.000 0.000 0.932 0.024 0.012
#> SRR1026973 4 0.1777 0.57724 0.032 0.000 0.000 0.932 0.024 0.012
#> SRR1026974 1 0.5048 0.06108 0.504 0.000 0.000 0.440 0.020 0.036
#> SRR1026975 1 0.5048 0.06108 0.504 0.000 0.000 0.440 0.020 0.036
#> SRR1026976 4 0.1750 0.57692 0.040 0.000 0.000 0.932 0.016 0.012
#> SRR1026977 4 0.1750 0.57692 0.040 0.000 0.000 0.932 0.016 0.012
#> SRR1026978 4 0.6164 -0.54437 0.356 0.000 0.000 0.388 0.252 0.004
#> SRR1026979 3 0.1418 0.85324 0.000 0.000 0.944 0.000 0.024 0.032
#> SRR1026980 4 0.4389 -0.08159 0.036 0.000 0.000 0.668 0.288 0.008
#> SRR1026981 3 0.1480 0.84206 0.000 0.000 0.940 0.000 0.040 0.020
#> SRR1026982 4 0.0862 0.58633 0.008 0.000 0.000 0.972 0.016 0.004
#> SRR1026983 4 0.0862 0.58633 0.008 0.000 0.000 0.972 0.016 0.004
#> SRR1026984 4 0.2058 0.55051 0.008 0.000 0.000 0.908 0.072 0.012
#> SRR1026985 4 0.2058 0.55051 0.008 0.000 0.000 0.908 0.072 0.012
#> SRR1026986 4 0.6536 -0.69172 0.288 0.020 0.000 0.352 0.340 0.000
#> SRR1026987 1 0.5393 0.20415 0.596 0.000 0.000 0.160 0.240 0.004
#> SRR1026988 1 0.3547 0.50455 0.668 0.000 0.000 0.000 0.000 0.332
#> SRR1026989 3 0.1334 0.84589 0.000 0.000 0.948 0.000 0.032 0.020
#> SRR1026990 4 0.1887 0.57276 0.048 0.000 0.000 0.924 0.012 0.016
#> SRR1026991 3 0.1225 0.84715 0.000 0.000 0.952 0.000 0.036 0.012
#> SRR1026992 1 0.0146 0.74067 0.996 0.000 0.000 0.000 0.000 0.004
#> SRR1026993 1 0.1285 0.73383 0.944 0.000 0.000 0.004 0.052 0.000
#> SRR1026994 4 0.6165 -0.72040 0.232 0.000 0.000 0.436 0.324 0.008
#> SRR1026995 1 0.3969 0.64591 0.760 0.000 0.000 0.020 0.188 0.032
#> SRR1026996 4 0.1036 0.58573 0.024 0.000 0.000 0.964 0.008 0.004
#> SRR1026997 4 0.1036 0.58573 0.024 0.000 0.000 0.964 0.008 0.004
#> SRR1026998 3 0.0547 0.85210 0.000 0.000 0.980 0.000 0.020 0.000
#> SRR1026999 3 0.0547 0.85210 0.000 0.000 0.980 0.000 0.020 0.000
#> SRR1027000 1 0.3509 0.60576 0.744 0.000 0.000 0.000 0.240 0.016
#> SRR1027001 3 0.6098 -0.27910 0.168 0.000 0.452 0.000 0.016 0.364
#> SRR1027002 5 0.6083 0.67199 0.272 0.000 0.000 0.364 0.364 0.000
#> SRR1027003 5 0.6258 0.72833 0.220 0.000 0.000 0.384 0.384 0.012
#> SRR1027004 1 0.1765 0.74008 0.924 0.000 0.000 0.000 0.052 0.024
#> SRR1027005 3 0.1245 0.85279 0.000 0.000 0.952 0.000 0.016 0.032
#> SRR1027006 1 0.3288 0.57828 0.724 0.000 0.000 0.000 0.000 0.276
#> SRR1027007 4 0.5977 -0.49614 0.348 0.000 0.000 0.464 0.180 0.008
#> SRR1027008 1 0.1285 0.73302 0.944 0.000 0.000 0.004 0.052 0.000
#> SRR1027009 3 0.2046 0.84327 0.000 0.000 0.908 0.000 0.032 0.060
#> SRR1027010 1 0.3563 0.50021 0.664 0.000 0.000 0.000 0.000 0.336
#> SRR1027011 3 0.1908 0.84550 0.000 0.000 0.916 0.000 0.028 0.056
#> SRR1177668 1 0.4518 0.38166 0.604 0.000 0.044 0.000 0.000 0.352
#> SRR1177667 1 0.1863 0.71495 0.896 0.000 0.000 0.000 0.000 0.104
#> SRR1177669 1 0.3563 0.50021 0.664 0.000 0.000 0.000 0.000 0.336
#> SRR1177670 3 0.2784 0.80719 0.000 0.000 0.848 0.000 0.028 0.124
#> SRR1177671 2 0.4003 0.57675 0.000 0.756 0.000 0.000 0.152 0.092
#> SRR1177672 3 0.2510 0.82658 0.000 0.000 0.872 0.000 0.028 0.100
#> SRR1177673 1 0.3050 0.62232 0.764 0.000 0.000 0.000 0.000 0.236
#> SRR1177674 3 0.2309 0.83272 0.000 0.000 0.888 0.000 0.028 0.084
#> SRR1177675 1 0.1814 0.71634 0.900 0.000 0.000 0.000 0.000 0.100
#> SRR1177676 3 0.3409 0.71912 0.000 0.000 0.780 0.000 0.028 0.192
#> SRR1177677 1 0.1398 0.73583 0.940 0.000 0.000 0.000 0.052 0.008
#> SRR1177678 1 0.1814 0.71814 0.900 0.000 0.000 0.000 0.000 0.100
#> SRR1177679 2 0.3081 0.64310 0.000 0.776 0.000 0.000 0.220 0.004
#> SRR1177680 4 0.6521 -0.75158 0.204 0.032 0.000 0.404 0.360 0.000
#> SRR1177681 1 0.2309 0.73306 0.888 0.000 0.000 0.000 0.028 0.084
#> SRR1177682 1 0.3352 0.67864 0.792 0.000 0.000 0.000 0.176 0.032
#> SRR1177683 2 0.3714 0.63853 0.000 0.720 0.000 0.008 0.264 0.008
#> SRR1177684 2 0.4449 0.61962 0.000 0.664 0.000 0.048 0.284 0.004
#> SRR1177685 1 0.1714 0.72154 0.908 0.000 0.000 0.000 0.000 0.092
#> SRR1177686 3 0.1564 0.85033 0.000 0.000 0.936 0.000 0.024 0.040
#> SRR1177687 4 0.6121 -0.74854 0.236 0.004 0.000 0.404 0.356 0.000
#> SRR1177688 1 0.2432 0.72541 0.876 0.000 0.000 0.000 0.100 0.024
#> SRR1177689 1 0.5196 0.20186 0.604 0.000 0.000 0.144 0.252 0.000
#> SRR1177690 1 0.2302 0.70314 0.872 0.000 0.000 0.008 0.120 0.000
#> SRR1177691 2 0.5411 0.55177 0.048 0.616 0.000 0.048 0.284 0.004
#> SRR1177692 4 0.6211 -0.75831 0.224 0.004 0.000 0.408 0.360 0.004
#> SRR1177693 2 0.6530 0.55418 0.000 0.488 0.000 0.148 0.300 0.064
#> SRR1177694 2 0.6003 0.40747 0.000 0.452 0.000 0.392 0.136 0.020
#> SRR1177695 1 0.3649 0.58892 0.764 0.000 0.000 0.040 0.196 0.000
#> SRR1177697 1 0.3292 0.65580 0.824 0.000 0.000 0.052 0.120 0.004
#> SRR1177696 1 0.3624 0.67415 0.784 0.000 0.000 0.000 0.060 0.156
#> SRR1177698 3 0.1970 0.84401 0.000 0.000 0.912 0.000 0.028 0.060
#> SRR1177700 1 0.4549 0.57849 0.740 0.000 0.000 0.104 0.132 0.024
#> SRR1177701 1 0.4770 0.01082 0.560 0.000 0.000 0.396 0.032 0.012
#> SRR1177702 6 0.5537 0.61789 0.052 0.000 0.192 0.000 0.108 0.648
#> SRR1177703 1 0.4267 0.40465 0.688 0.000 0.000 0.272 0.028 0.012
#> SRR1177704 6 0.6330 0.47473 0.004 0.004 0.204 0.012 0.296 0.480
#> SRR1177705 1 0.3210 0.66223 0.836 0.000 0.000 0.072 0.088 0.004
#> SRR1177706 5 0.6052 0.72726 0.188 0.000 0.000 0.380 0.424 0.008
#> SRR1177707 4 0.4832 -0.20300 0.440 0.000 0.000 0.516 0.032 0.012
#> SRR1177708 1 0.2112 0.73721 0.916 0.000 0.000 0.036 0.028 0.020
#> SRR1177709 1 0.2793 0.65518 0.800 0.000 0.000 0.000 0.000 0.200
#> SRR1177710 1 0.6300 -0.29067 0.392 0.000 0.236 0.000 0.012 0.360
#> SRR1177711 1 0.1863 0.71476 0.896 0.000 0.000 0.000 0.000 0.104
#> SRR1177712 6 0.5771 0.62636 0.124 0.000 0.012 0.032 0.200 0.632
#> SRR1177714 2 0.4003 0.57675 0.000 0.756 0.000 0.000 0.152 0.092
#> SRR1177713 6 0.5637 0.60989 0.220 0.004 0.008 0.000 0.176 0.592
#> SRR1177715 4 0.6146 -0.75049 0.244 0.004 0.000 0.392 0.360 0.000
#> SRR1177716 3 0.1245 0.85279 0.000 0.000 0.952 0.000 0.016 0.032
#> SRR1177717 1 0.0291 0.74066 0.992 0.000 0.000 0.004 0.004 0.000
#> SRR1177718 1 0.1204 0.73348 0.944 0.000 0.000 0.000 0.000 0.056
#> SRR1177719 1 0.1585 0.74078 0.940 0.000 0.000 0.012 0.012 0.036
#> SRR1177720 3 0.1572 0.85333 0.000 0.000 0.936 0.000 0.036 0.028
#> SRR1177721 2 0.0909 0.70598 0.000 0.968 0.000 0.000 0.012 0.020
#> SRR1177722 2 0.0993 0.70413 0.000 0.964 0.000 0.000 0.012 0.024
#> SRR1177723 1 0.0405 0.74078 0.988 0.000 0.000 0.004 0.008 0.000
#> SRR1177725 1 0.0436 0.74111 0.988 0.000 0.000 0.004 0.004 0.004
#> SRR1177724 1 0.0405 0.74078 0.988 0.000 0.000 0.004 0.008 0.000
#> SRR1177726 3 0.1908 0.84550 0.000 0.000 0.916 0.000 0.028 0.056
#> SRR1177727 1 0.3198 0.59689 0.740 0.000 0.000 0.000 0.000 0.260
#> SRR1177728 3 0.2046 0.84327 0.000 0.000 0.908 0.000 0.032 0.060
#> SRR1177729 1 0.0405 0.74079 0.988 0.000 0.000 0.004 0.008 0.000
#> SRR1177730 3 0.2510 0.82658 0.000 0.000 0.872 0.000 0.028 0.100
#> SRR1177731 1 0.3050 0.62233 0.764 0.000 0.000 0.000 0.000 0.236
#> SRR1177732 1 0.3563 0.50021 0.664 0.000 0.000 0.000 0.000 0.336
#> SRR1177733 1 0.1528 0.73409 0.936 0.000 0.000 0.016 0.048 0.000
#> SRR1177734 1 0.1333 0.73599 0.944 0.000 0.000 0.008 0.048 0.000
#> SRR1177735 1 0.5774 -0.13495 0.532 0.000 0.000 0.248 0.216 0.004
#> SRR1177736 1 0.1297 0.74024 0.948 0.000 0.000 0.000 0.012 0.040
#> SRR1177737 2 0.6124 0.40154 0.000 0.436 0.000 0.388 0.156 0.020
#> SRR1177738 3 0.3397 0.75986 0.000 0.000 0.836 0.024 0.084 0.056
#> SRR1177739 1 0.2151 0.73942 0.912 0.000 0.000 0.016 0.048 0.024
#> SRR1177740 1 0.4790 0.43758 0.680 0.000 0.000 0.120 0.196 0.004
#> SRR1177741 1 0.2491 0.67924 0.836 0.000 0.000 0.000 0.000 0.164
#> SRR1177742 3 0.1644 0.85260 0.000 0.000 0.932 0.000 0.028 0.040
#> SRR1177743 1 0.3531 0.51075 0.672 0.000 0.000 0.000 0.000 0.328
#> SRR1177744 1 0.3563 0.50021 0.664 0.000 0.000 0.000 0.000 0.336
#> SRR1177745 4 0.6121 -0.74258 0.176 0.004 0.000 0.432 0.380 0.008
#> SRR1177746 4 0.6121 -0.74854 0.236 0.004 0.000 0.404 0.356 0.000
#> SRR1177747 1 0.4823 0.33997 0.584 0.000 0.068 0.000 0.000 0.348
#> SRR1177748 3 0.1644 0.84933 0.000 0.000 0.932 0.000 0.028 0.040
#> SRR1177749 1 0.1663 0.72167 0.912 0.000 0.000 0.000 0.000 0.088
#> SRR1177750 1 0.1462 0.73493 0.936 0.000 0.000 0.000 0.056 0.008
#> SRR1177751 1 0.3642 0.58288 0.760 0.000 0.000 0.036 0.204 0.000
#> SRR1177752 1 0.0363 0.74045 0.988 0.000 0.000 0.000 0.000 0.012
#> SRR1177753 1 0.1556 0.72827 0.920 0.000 0.000 0.000 0.000 0.080
#> SRR1177754 1 0.3547 0.50455 0.668 0.000 0.000 0.000 0.000 0.332
#> SRR1177755 1 0.3207 0.66366 0.828 0.000 0.000 0.044 0.124 0.004
#> SRR1177756 1 0.4459 0.48640 0.708 0.000 0.000 0.084 0.204 0.004
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["CV", "skmeans"]
# you can also extract it by
# res = res_list["CV:skmeans"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'CV' method.
#> Subgroups are detected by 'skmeans' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 4.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.982 0.955 0.981 0.5022 0.498 0.498
#> 3 3 0.903 0.930 0.969 0.3082 0.779 0.584
#> 4 4 0.928 0.904 0.961 0.1343 0.871 0.644
#> 5 5 0.749 0.655 0.817 0.0576 0.975 0.904
#> 6 6 0.722 0.518 0.744 0.0364 0.913 0.673
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 4
#> attr(,"optional")
#> [1] 2 3
There is also optional best \(k\) = 2 3 that is worth to check.
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.000 0.9850 0.000 1.000
#> SRR1026871 2 0.000 0.9850 0.000 1.000
#> SRR1026872 2 0.000 0.9850 0.000 1.000
#> SRR1026873 1 0.000 0.9765 1.000 0.000
#> SRR1026874 1 0.000 0.9765 1.000 0.000
#> SRR1026875 2 0.000 0.9850 0.000 1.000
#> SRR1026876 2 0.000 0.9850 0.000 1.000
#> SRR1026877 1 0.000 0.9765 1.000 0.000
#> SRR1026878 1 0.000 0.9765 1.000 0.000
#> SRR1026879 1 0.000 0.9765 1.000 0.000
#> SRR1026880 1 0.000 0.9765 1.000 0.000
#> SRR1026881 2 0.000 0.9850 0.000 1.000
#> SRR1026882 2 0.000 0.9850 0.000 1.000
#> SRR1026883 2 0.000 0.9850 0.000 1.000
#> SRR1026884 2 0.000 0.9850 0.000 1.000
#> SRR1026885 2 0.000 0.9850 0.000 1.000
#> SRR1026886 2 0.000 0.9850 0.000 1.000
#> SRR1026887 1 0.000 0.9765 1.000 0.000
#> SRR1026888 1 0.000 0.9765 1.000 0.000
#> SRR1026889 2 0.000 0.9850 0.000 1.000
#> SRR1026890 2 0.000 0.9850 0.000 1.000
#> SRR1026891 1 0.000 0.9765 1.000 0.000
#> SRR1026892 1 0.000 0.9765 1.000 0.000
#> SRR1026893 1 0.000 0.9765 1.000 0.000
#> SRR1026894 1 0.000 0.9765 1.000 0.000
#> SRR1026895 2 0.000 0.9850 0.000 1.000
#> SRR1026896 2 0.000 0.9850 0.000 1.000
#> SRR1026897 1 0.000 0.9765 1.000 0.000
#> SRR1026898 1 0.000 0.9765 1.000 0.000
#> SRR1026899 1 0.000 0.9765 1.000 0.000
#> SRR1026900 2 0.000 0.9850 0.000 1.000
#> SRR1026901 2 0.000 0.9850 0.000 1.000
#> SRR1026902 1 0.904 0.5527 0.680 0.320
#> SRR1026903 1 0.904 0.5527 0.680 0.320
#> SRR1026904 1 0.949 0.4469 0.632 0.368
#> SRR1026905 1 0.949 0.4469 0.632 0.368
#> SRR1026906 2 0.000 0.9850 0.000 1.000
#> SRR1026907 2 0.000 0.9850 0.000 1.000
#> SRR1026908 2 0.000 0.9850 0.000 1.000
#> SRR1026909 2 0.000 0.9850 0.000 1.000
#> SRR1026910 2 0.000 0.9850 0.000 1.000
#> SRR1026911 2 0.000 0.9850 0.000 1.000
#> SRR1026912 1 0.416 0.8960 0.916 0.084
#> SRR1026913 1 0.416 0.8960 0.916 0.084
#> SRR1026914 2 0.000 0.9850 0.000 1.000
#> SRR1026915 2 0.000 0.9850 0.000 1.000
#> SRR1026916 2 0.000 0.9850 0.000 1.000
#> SRR1026917 2 0.000 0.9850 0.000 1.000
#> SRR1026918 2 0.000 0.9850 0.000 1.000
#> SRR1026919 2 0.000 0.9850 0.000 1.000
#> SRR1026920 2 0.000 0.9850 0.000 1.000
#> SRR1026921 2 0.000 0.9850 0.000 1.000
#> SRR1026922 2 0.000 0.9850 0.000 1.000
#> SRR1026923 2 0.000 0.9850 0.000 1.000
#> SRR1026924 2 0.000 0.9850 0.000 1.000
#> SRR1026925 1 0.000 0.9765 1.000 0.000
#> SRR1026926 2 0.000 0.9850 0.000 1.000
#> SRR1026927 1 0.000 0.9765 1.000 0.000
#> SRR1026928 2 0.000 0.9850 0.000 1.000
#> SRR1026929 1 0.000 0.9765 1.000 0.000
#> SRR1026930 2 0.000 0.9850 0.000 1.000
#> SRR1026931 2 0.000 0.9850 0.000 1.000
#> SRR1026932 2 0.000 0.9850 0.000 1.000
#> SRR1026933 2 0.000 0.9850 0.000 1.000
#> SRR1026934 2 0.000 0.9850 0.000 1.000
#> SRR1026935 2 0.000 0.9850 0.000 1.000
#> SRR1026936 2 0.000 0.9850 0.000 1.000
#> SRR1026937 2 0.000 0.9850 0.000 1.000
#> SRR1026938 2 0.000 0.9850 0.000 1.000
#> SRR1026939 2 0.000 0.9850 0.000 1.000
#> SRR1026940 1 0.000 0.9765 1.000 0.000
#> SRR1026941 1 0.000 0.9765 1.000 0.000
#> SRR1026942 1 0.118 0.9624 0.984 0.016
#> SRR1026943 2 0.000 0.9850 0.000 1.000
#> SRR1026944 1 0.000 0.9765 1.000 0.000
#> SRR1026945 1 0.000 0.9765 1.000 0.000
#> SRR1026947 2 0.000 0.9850 0.000 1.000
#> SRR1026946 2 0.000 0.9850 0.000 1.000
#> SRR1026948 2 0.000 0.9850 0.000 1.000
#> SRR1026949 2 0.000 0.9850 0.000 1.000
#> SRR1026950 1 0.163 0.9551 0.976 0.024
#> SRR1026951 2 0.416 0.9073 0.084 0.916
#> SRR1026952 1 0.000 0.9765 1.000 0.000
#> SRR1026953 1 0.000 0.9765 1.000 0.000
#> SRR1026954 2 0.000 0.9850 0.000 1.000
#> SRR1026955 2 0.000 0.9850 0.000 1.000
#> SRR1026956 1 0.895 0.5683 0.688 0.312
#> SRR1026957 2 0.000 0.9850 0.000 1.000
#> SRR1026958 2 0.327 0.9314 0.060 0.940
#> SRR1026959 2 0.000 0.9850 0.000 1.000
#> SRR1026960 2 0.000 0.9850 0.000 1.000
#> SRR1026961 2 0.000 0.9850 0.000 1.000
#> SRR1026962 1 0.000 0.9765 1.000 0.000
#> SRR1026963 1 0.000 0.9765 1.000 0.000
#> SRR1026964 2 0.000 0.9850 0.000 1.000
#> SRR1026965 2 0.000 0.9850 0.000 1.000
#> SRR1026966 1 0.000 0.9765 1.000 0.000
#> SRR1026967 1 0.000 0.9765 1.000 0.000
#> SRR1026968 2 0.000 0.9850 0.000 1.000
#> SRR1026969 2 0.000 0.9850 0.000 1.000
#> SRR1026970 2 0.000 0.9850 0.000 1.000
#> SRR1026971 2 0.000 0.9850 0.000 1.000
#> SRR1026972 2 0.000 0.9850 0.000 1.000
#> SRR1026973 2 0.000 0.9850 0.000 1.000
#> SRR1026974 1 0.000 0.9765 1.000 0.000
#> SRR1026975 1 0.000 0.9765 1.000 0.000
#> SRR1026976 2 0.000 0.9850 0.000 1.000
#> SRR1026977 2 0.000 0.9850 0.000 1.000
#> SRR1026978 2 0.000 0.9850 0.000 1.000
#> SRR1026979 1 0.000 0.9765 1.000 0.000
#> SRR1026980 2 0.000 0.9850 0.000 1.000
#> SRR1026981 1 0.000 0.9765 1.000 0.000
#> SRR1026982 2 0.000 0.9850 0.000 1.000
#> SRR1026983 2 0.000 0.9850 0.000 1.000
#> SRR1026984 2 0.000 0.9850 0.000 1.000
#> SRR1026985 2 0.000 0.9850 0.000 1.000
#> SRR1026986 2 0.000 0.9850 0.000 1.000
#> SRR1026987 1 1.000 0.0380 0.508 0.492
#> SRR1026988 1 0.000 0.9765 1.000 0.000
#> SRR1026989 1 0.000 0.9765 1.000 0.000
#> SRR1026990 2 0.000 0.9850 0.000 1.000
#> SRR1026991 1 0.000 0.9765 1.000 0.000
#> SRR1026992 1 0.000 0.9765 1.000 0.000
#> SRR1026993 1 0.000 0.9765 1.000 0.000
#> SRR1026994 2 0.000 0.9850 0.000 1.000
#> SRR1026995 1 0.000 0.9765 1.000 0.000
#> SRR1026996 2 0.000 0.9850 0.000 1.000
#> SRR1026997 2 0.000 0.9850 0.000 1.000
#> SRR1026998 1 0.000 0.9765 1.000 0.000
#> SRR1026999 1 0.000 0.9765 1.000 0.000
#> SRR1027000 1 0.000 0.9765 1.000 0.000
#> SRR1027001 1 0.000 0.9765 1.000 0.000
#> SRR1027002 2 0.000 0.9850 0.000 1.000
#> SRR1027003 2 0.118 0.9718 0.016 0.984
#> SRR1027004 1 0.000 0.9765 1.000 0.000
#> SRR1027005 1 0.000 0.9765 1.000 0.000
#> SRR1027006 1 0.000 0.9765 1.000 0.000
#> SRR1027007 2 0.000 0.9850 0.000 1.000
#> SRR1027008 1 0.000 0.9765 1.000 0.000
#> SRR1027009 1 0.000 0.9765 1.000 0.000
#> SRR1027010 1 0.000 0.9765 1.000 0.000
#> SRR1027011 1 0.000 0.9765 1.000 0.000
#> SRR1177668 1 0.000 0.9765 1.000 0.000
#> SRR1177667 1 0.000 0.9765 1.000 0.000
#> SRR1177669 1 0.000 0.9765 1.000 0.000
#> SRR1177670 1 0.000 0.9765 1.000 0.000
#> SRR1177671 2 0.000 0.9850 0.000 1.000
#> SRR1177672 1 0.000 0.9765 1.000 0.000
#> SRR1177673 1 0.000 0.9765 1.000 0.000
#> SRR1177674 1 0.000 0.9765 1.000 0.000
#> SRR1177675 1 0.000 0.9765 1.000 0.000
#> SRR1177676 1 0.000 0.9765 1.000 0.000
#> SRR1177677 1 0.000 0.9765 1.000 0.000
#> SRR1177678 1 0.000 0.9765 1.000 0.000
#> SRR1177679 2 0.000 0.9850 0.000 1.000
#> SRR1177680 2 0.000 0.9850 0.000 1.000
#> SRR1177681 1 0.000 0.9765 1.000 0.000
#> SRR1177682 1 0.000 0.9765 1.000 0.000
#> SRR1177683 2 0.000 0.9850 0.000 1.000
#> SRR1177684 2 0.000 0.9850 0.000 1.000
#> SRR1177685 1 0.000 0.9765 1.000 0.000
#> SRR1177686 1 0.000 0.9765 1.000 0.000
#> SRR1177687 2 0.000 0.9850 0.000 1.000
#> SRR1177688 1 0.000 0.9765 1.000 0.000
#> SRR1177689 2 0.469 0.8889 0.100 0.900
#> SRR1177690 1 0.574 0.8325 0.864 0.136
#> SRR1177691 2 0.000 0.9850 0.000 1.000
#> SRR1177692 2 0.000 0.9850 0.000 1.000
#> SRR1177693 2 0.000 0.9850 0.000 1.000
#> SRR1177694 2 0.000 0.9850 0.000 1.000
#> SRR1177695 2 0.850 0.6260 0.276 0.724
#> SRR1177697 2 0.634 0.8132 0.160 0.840
#> SRR1177696 1 0.000 0.9765 1.000 0.000
#> SRR1177698 1 0.000 0.9765 1.000 0.000
#> SRR1177700 1 0.000 0.9765 1.000 0.000
#> SRR1177701 2 0.224 0.9537 0.036 0.964
#> SRR1177702 1 0.000 0.9765 1.000 0.000
#> SRR1177703 2 0.999 0.0621 0.484 0.516
#> SRR1177704 1 0.000 0.9765 1.000 0.000
#> SRR1177705 1 0.745 0.7321 0.788 0.212
#> SRR1177706 2 0.000 0.9850 0.000 1.000
#> SRR1177707 2 0.506 0.8752 0.112 0.888
#> SRR1177708 1 0.000 0.9765 1.000 0.000
#> SRR1177709 1 0.000 0.9765 1.000 0.000
#> SRR1177710 1 0.000 0.9765 1.000 0.000
#> SRR1177711 1 0.000 0.9765 1.000 0.000
#> SRR1177712 1 0.000 0.9765 1.000 0.000
#> SRR1177714 2 0.000 0.9850 0.000 1.000
#> SRR1177713 1 0.000 0.9765 1.000 0.000
#> SRR1177715 2 0.000 0.9850 0.000 1.000
#> SRR1177716 1 0.000 0.9765 1.000 0.000
#> SRR1177717 1 0.000 0.9765 1.000 0.000
#> SRR1177718 1 0.000 0.9765 1.000 0.000
#> SRR1177719 1 0.000 0.9765 1.000 0.000
#> SRR1177720 1 0.000 0.9765 1.000 0.000
#> SRR1177721 2 0.000 0.9850 0.000 1.000
#> SRR1177722 2 0.000 0.9850 0.000 1.000
#> SRR1177723 1 0.000 0.9765 1.000 0.000
#> SRR1177725 1 0.000 0.9765 1.000 0.000
#> SRR1177724 1 0.000 0.9765 1.000 0.000
#> SRR1177726 1 0.000 0.9765 1.000 0.000
#> SRR1177727 1 0.000 0.9765 1.000 0.000
#> SRR1177728 1 0.000 0.9765 1.000 0.000
#> SRR1177729 1 0.000 0.9765 1.000 0.000
#> SRR1177730 1 0.000 0.9765 1.000 0.000
#> SRR1177731 1 0.000 0.9765 1.000 0.000
#> SRR1177732 1 0.000 0.9765 1.000 0.000
#> SRR1177733 1 0.000 0.9765 1.000 0.000
#> SRR1177734 1 0.000 0.9765 1.000 0.000
#> SRR1177735 2 0.416 0.9065 0.084 0.916
#> SRR1177736 1 0.000 0.9765 1.000 0.000
#> SRR1177737 2 0.000 0.9850 0.000 1.000
#> SRR1177738 1 0.000 0.9765 1.000 0.000
#> SRR1177739 1 0.000 0.9765 1.000 0.000
#> SRR1177740 2 0.000 0.9850 0.000 1.000
#> SRR1177741 1 0.000 0.9765 1.000 0.000
#> SRR1177742 1 0.000 0.9765 1.000 0.000
#> SRR1177743 1 0.000 0.9765 1.000 0.000
#> SRR1177744 1 0.000 0.9765 1.000 0.000
#> SRR1177745 2 0.000 0.9850 0.000 1.000
#> SRR1177746 2 0.000 0.9850 0.000 1.000
#> SRR1177747 1 0.000 0.9765 1.000 0.000
#> SRR1177748 1 0.000 0.9765 1.000 0.000
#> SRR1177749 1 0.000 0.9765 1.000 0.000
#> SRR1177750 1 0.000 0.9765 1.000 0.000
#> SRR1177751 2 0.494 0.8797 0.108 0.892
#> SRR1177752 1 0.000 0.9765 1.000 0.000
#> SRR1177753 1 0.000 0.9765 1.000 0.000
#> SRR1177754 1 0.000 0.9765 1.000 0.000
#> SRR1177755 2 0.295 0.9390 0.052 0.948
#> SRR1177756 2 0.327 0.9311 0.060 0.940
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026874 3 0.4555 0.773 0.200 0.000 0.800
#> SRR1026875 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026879 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026880 3 0.4504 0.778 0.196 0.000 0.804
#> SRR1026881 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026883 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026884 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026885 2 0.6111 0.363 0.396 0.604 0.000
#> SRR1026886 2 0.6111 0.363 0.396 0.604 0.000
#> SRR1026887 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026889 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026890 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026891 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026892 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026893 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026895 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026896 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026897 3 0.4555 0.773 0.200 0.000 0.800
#> SRR1026898 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026899 1 0.0237 0.974 0.996 0.000 0.004
#> SRR1026900 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026901 2 0.4504 0.758 0.000 0.804 0.196
#> SRR1026902 1 0.3272 0.863 0.892 0.104 0.004
#> SRR1026903 1 0.3193 0.868 0.896 0.100 0.004
#> SRR1026904 3 0.3816 0.818 0.000 0.148 0.852
#> SRR1026905 3 0.3267 0.854 0.000 0.116 0.884
#> SRR1026906 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026910 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026911 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026912 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026914 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026918 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026919 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026920 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026924 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026925 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026926 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026927 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026928 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026929 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026930 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026931 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026936 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026937 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026938 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026940 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026941 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026942 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026945 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026947 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026949 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026950 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026951 2 0.5178 0.667 0.256 0.744 0.000
#> SRR1026952 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026954 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026955 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026957 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026958 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026960 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026961 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026962 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026963 3 0.5497 0.628 0.292 0.000 0.708
#> SRR1026964 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026965 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026966 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026968 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026969 2 0.3816 0.820 0.148 0.852 0.000
#> SRR1026970 1 0.4452 0.757 0.808 0.192 0.000
#> SRR1026971 1 0.4399 0.763 0.812 0.188 0.000
#> SRR1026972 2 0.0892 0.949 0.020 0.980 0.000
#> SRR1026973 2 0.0892 0.949 0.020 0.980 0.000
#> SRR1026974 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026976 2 0.4346 0.776 0.184 0.816 0.000
#> SRR1026977 2 0.4235 0.786 0.176 0.824 0.000
#> SRR1026978 2 0.5760 0.536 0.328 0.672 0.000
#> SRR1026979 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026980 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026981 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026982 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026983 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026984 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026985 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026986 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026987 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026988 3 0.0237 0.954 0.004 0.000 0.996
#> SRR1026989 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026990 2 0.6111 0.367 0.396 0.604 0.000
#> SRR1026991 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026994 2 0.2356 0.902 0.072 0.928 0.000
#> SRR1026995 3 0.3192 0.869 0.112 0.000 0.888
#> SRR1026996 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026997 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1026998 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1027000 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1027001 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1027002 2 0.2165 0.910 0.064 0.936 0.000
#> SRR1027003 2 0.4842 0.717 0.000 0.776 0.224
#> SRR1027004 1 0.4654 0.716 0.792 0.000 0.208
#> SRR1027005 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1027006 3 0.0747 0.946 0.016 0.000 0.984
#> SRR1027007 2 0.4974 0.699 0.236 0.764 0.000
#> SRR1027008 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1027010 3 0.6295 0.176 0.472 0.000 0.528
#> SRR1027011 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177668 3 0.4504 0.778 0.196 0.000 0.804
#> SRR1177667 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177669 3 0.3551 0.849 0.132 0.000 0.868
#> SRR1177670 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177671 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177672 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177673 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177674 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177676 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177677 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177679 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177680 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177681 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177682 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177683 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177687 2 0.1753 0.924 0.048 0.952 0.000
#> SRR1177688 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177689 1 0.2537 0.893 0.920 0.080 0.000
#> SRR1177690 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177692 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177693 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177695 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177697 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177696 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177698 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177700 1 0.6235 0.228 0.564 0.000 0.436
#> SRR1177701 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177702 3 0.0424 0.951 0.008 0.000 0.992
#> SRR1177703 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177704 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177705 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177706 2 0.0237 0.962 0.004 0.996 0.000
#> SRR1177707 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177708 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177709 1 0.1031 0.956 0.976 0.000 0.024
#> SRR1177710 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177711 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177712 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177714 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177713 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177715 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177716 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177720 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177727 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177728 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177730 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177731 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177732 1 0.1964 0.924 0.944 0.000 0.056
#> SRR1177733 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177735 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177736 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177737 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177738 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177739 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177741 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177742 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177743 1 0.1964 0.924 0.944 0.000 0.056
#> SRR1177744 3 0.0892 0.943 0.020 0.000 0.980
#> SRR1177745 2 0.0000 0.965 0.000 1.000 0.000
#> SRR1177746 2 0.0237 0.962 0.004 0.996 0.000
#> SRR1177747 3 0.4504 0.778 0.196 0.000 0.804
#> SRR1177748 3 0.0000 0.956 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177754 3 0.4346 0.793 0.184 0.000 0.816
#> SRR1177755 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.978 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0592 0.9517 0.000 0.984 0.000 0.016
#> SRR1026871 2 0.0592 0.9517 0.000 0.984 0.000 0.016
#> SRR1026872 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026873 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026874 3 0.3610 0.7765 0.200 0.000 0.800 0.000
#> SRR1026875 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026876 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026877 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026878 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026879 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026880 3 0.3726 0.7601 0.212 0.000 0.788 0.000
#> SRR1026881 2 0.0921 0.9426 0.000 0.972 0.000 0.028
#> SRR1026882 2 0.0921 0.9426 0.000 0.972 0.000 0.028
#> SRR1026883 4 0.4250 0.6149 0.000 0.276 0.000 0.724
#> SRR1026884 4 0.4250 0.6149 0.000 0.276 0.000 0.724
#> SRR1026885 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026886 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026887 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026888 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026889 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026890 2 0.4761 0.3644 0.000 0.628 0.000 0.372
#> SRR1026891 4 0.0469 0.9138 0.012 0.000 0.000 0.988
#> SRR1026892 4 0.0469 0.9138 0.012 0.000 0.000 0.988
#> SRR1026893 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026894 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026895 4 0.4977 0.1739 0.000 0.460 0.000 0.540
#> SRR1026896 4 0.4981 0.1605 0.000 0.464 0.000 0.536
#> SRR1026897 3 0.3610 0.7765 0.200 0.000 0.800 0.000
#> SRR1026898 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026899 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026900 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1026901 2 0.0592 0.9469 0.000 0.984 0.016 0.000
#> SRR1026902 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026903 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026904 4 0.0188 0.9186 0.000 0.000 0.004 0.996
#> SRR1026905 4 0.0336 0.9158 0.000 0.000 0.008 0.992
#> SRR1026906 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026907 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026908 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026909 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026910 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026911 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026912 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026913 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026914 2 0.0592 0.9517 0.000 0.984 0.000 0.016
#> SRR1026915 2 0.0592 0.9517 0.000 0.984 0.000 0.016
#> SRR1026916 2 0.0592 0.9517 0.000 0.984 0.000 0.016
#> SRR1026917 2 0.0592 0.9517 0.000 0.984 0.000 0.016
#> SRR1026918 4 0.3801 0.6991 0.000 0.220 0.000 0.780
#> SRR1026919 4 0.3801 0.6991 0.000 0.220 0.000 0.780
#> SRR1026920 2 0.0817 0.9459 0.000 0.976 0.000 0.024
#> SRR1026921 2 0.0817 0.9459 0.000 0.976 0.000 0.024
#> SRR1026922 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1026923 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1026924 4 0.0188 0.9190 0.000 0.004 0.000 0.996
#> SRR1026925 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026926 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026927 4 0.0707 0.9082 0.020 0.000 0.000 0.980
#> SRR1026928 2 0.2149 0.8808 0.000 0.912 0.000 0.088
#> SRR1026929 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026930 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1026931 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1026932 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026933 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026934 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026935 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026936 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026937 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026938 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026939 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026940 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026941 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026943 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026944 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026945 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026947 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026946 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026948 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1026949 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1026950 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026951 2 0.3873 0.6857 0.228 0.772 0.000 0.000
#> SRR1026952 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026953 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026955 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026956 4 0.0188 0.9183 0.004 0.000 0.000 0.996
#> SRR1026957 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026958 1 0.0188 0.9738 0.996 0.004 0.000 0.000
#> SRR1026959 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026961 2 0.4992 0.0433 0.000 0.524 0.000 0.476
#> SRR1026962 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026963 3 0.4356 0.6281 0.292 0.000 0.708 0.000
#> SRR1026964 4 0.0188 0.9191 0.000 0.004 0.000 0.996
#> SRR1026965 4 0.0188 0.9191 0.000 0.004 0.000 0.996
#> SRR1026966 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026969 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026970 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026971 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026972 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026973 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026974 4 0.0469 0.9137 0.012 0.000 0.000 0.988
#> SRR1026975 4 0.0592 0.9111 0.016 0.000 0.000 0.984
#> SRR1026976 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026977 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026978 2 0.4245 0.7159 0.196 0.784 0.000 0.020
#> SRR1026979 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026980 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1026981 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026982 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026983 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026984 2 0.5000 -0.0508 0.000 0.500 0.000 0.500
#> SRR1026985 4 0.5000 0.0301 0.000 0.496 0.000 0.504
#> SRR1026986 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1026987 1 0.0336 0.9703 0.992 0.008 0.000 0.000
#> SRR1026988 3 0.0592 0.9498 0.016 0.000 0.984 0.000
#> SRR1026989 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026990 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026991 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026992 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026993 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1026994 2 0.0336 0.9528 0.008 0.992 0.000 0.000
#> SRR1026995 3 0.3311 0.8110 0.172 0.000 0.828 0.000
#> SRR1026996 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026997 4 0.0000 0.9208 0.000 0.000 0.000 1.000
#> SRR1026998 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1027000 1 0.0188 0.9738 0.996 0.004 0.000 0.000
#> SRR1027001 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1027002 2 0.0188 0.9559 0.004 0.996 0.000 0.000
#> SRR1027003 2 0.0336 0.9535 0.000 0.992 0.008 0.000
#> SRR1027004 1 0.1474 0.9243 0.948 0.000 0.052 0.000
#> SRR1027005 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1027006 3 0.1302 0.9281 0.044 0.000 0.956 0.000
#> SRR1027007 2 0.5998 0.5548 0.248 0.664 0.000 0.088
#> SRR1027008 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1027009 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1027010 1 0.4996 -0.0224 0.516 0.000 0.484 0.000
#> SRR1027011 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177668 3 0.3649 0.7712 0.204 0.000 0.796 0.000
#> SRR1177667 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177669 3 0.3172 0.8237 0.160 0.000 0.840 0.000
#> SRR1177670 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177671 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177673 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177674 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177675 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177676 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177677 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177678 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177679 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177680 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177681 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177682 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177683 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177686 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177687 2 0.0188 0.9559 0.004 0.996 0.000 0.000
#> SRR1177688 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177689 1 0.0921 0.9498 0.972 0.028 0.000 0.000
#> SRR1177690 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177691 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177692 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177693 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1177694 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1177695 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177697 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177696 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177698 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177700 1 0.4643 0.4735 0.656 0.000 0.344 0.000
#> SRR1177701 4 0.4888 0.2696 0.412 0.000 0.000 0.588
#> SRR1177702 3 0.0707 0.9471 0.020 0.000 0.980 0.000
#> SRR1177703 1 0.4761 0.4046 0.628 0.000 0.000 0.372
#> SRR1177704 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177705 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177706 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177707 4 0.3975 0.6386 0.240 0.000 0.000 0.760
#> SRR1177708 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177709 1 0.0188 0.9736 0.996 0.000 0.004 0.000
#> SRR1177710 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177711 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177712 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177714 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177713 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177715 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177716 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177718 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177719 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177720 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177721 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177725 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177724 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177726 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177728 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177730 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177731 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177732 1 0.0469 0.9661 0.988 0.000 0.012 0.000
#> SRR1177733 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177734 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177735 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177736 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177737 2 0.0188 0.9582 0.000 0.996 0.000 0.004
#> SRR1177738 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177739 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177740 1 0.0188 0.9738 0.996 0.004 0.000 0.000
#> SRR1177741 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177742 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177744 3 0.0921 0.9409 0.028 0.000 0.972 0.000
#> SRR1177745 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177746 2 0.0000 0.9580 0.000 1.000 0.000 0.000
#> SRR1177747 3 0.3528 0.7867 0.192 0.000 0.808 0.000
#> SRR1177748 3 0.0000 0.9605 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177750 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177751 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177752 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177753 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177754 3 0.3610 0.7773 0.200 0.000 0.800 0.000
#> SRR1177755 1 0.0000 0.9771 1.000 0.000 0.000 0.000
#> SRR1177756 1 0.0000 0.9771 1.000 0.000 0.000 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.1894 0.7253 0.000 0.920 0.000 0.008 0.072
#> SRR1026871 2 0.1894 0.7253 0.000 0.920 0.000 0.008 0.072
#> SRR1026872 2 0.1557 0.7361 0.000 0.940 0.000 0.008 0.052
#> SRR1026873 1 0.3274 0.6903 0.780 0.000 0.000 0.000 0.220
#> SRR1026874 3 0.5590 0.6033 0.156 0.000 0.640 0.000 0.204
#> SRR1026875 2 0.0162 0.7541 0.000 0.996 0.000 0.000 0.004
#> SRR1026876 2 0.0162 0.7541 0.000 0.996 0.000 0.000 0.004
#> SRR1026877 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026878 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026879 1 0.3913 0.6446 0.676 0.000 0.000 0.000 0.324
#> SRR1026880 3 0.6728 0.1887 0.268 0.000 0.412 0.000 0.320
#> SRR1026881 2 0.3339 0.6601 0.000 0.836 0.000 0.040 0.124
#> SRR1026882 2 0.3339 0.6601 0.000 0.836 0.000 0.040 0.124
#> SRR1026883 4 0.6372 0.2904 0.000 0.376 0.000 0.456 0.168
#> SRR1026884 4 0.6372 0.2904 0.000 0.376 0.000 0.456 0.168
#> SRR1026885 4 0.1430 0.8351 0.000 0.004 0.000 0.944 0.052
#> SRR1026886 4 0.1430 0.8351 0.000 0.004 0.000 0.944 0.052
#> SRR1026887 3 0.0162 0.8727 0.000 0.000 0.996 0.000 0.004
#> SRR1026888 3 0.0162 0.8727 0.000 0.000 0.996 0.000 0.004
#> SRR1026889 2 0.0290 0.7534 0.000 0.992 0.000 0.000 0.008
#> SRR1026890 2 0.6200 0.2956 0.000 0.596 0.016 0.244 0.144
#> SRR1026891 4 0.1992 0.8078 0.032 0.000 0.000 0.924 0.044
#> SRR1026892 4 0.1818 0.8133 0.024 0.000 0.000 0.932 0.044
#> SRR1026893 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026894 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026895 2 0.6318 0.0760 0.000 0.488 0.000 0.344 0.168
#> SRR1026896 2 0.6309 0.0913 0.000 0.492 0.000 0.340 0.168
#> SRR1026897 3 0.5590 0.6033 0.156 0.000 0.640 0.000 0.204
#> SRR1026898 1 0.3857 0.6505 0.688 0.000 0.000 0.000 0.312
#> SRR1026899 1 0.3895 0.6458 0.680 0.000 0.000 0.000 0.320
#> SRR1026900 2 0.0609 0.7499 0.000 0.980 0.000 0.000 0.020
#> SRR1026901 2 0.2592 0.7039 0.000 0.892 0.056 0.000 0.052
#> SRR1026902 4 0.1608 0.8297 0.000 0.000 0.000 0.928 0.072
#> SRR1026903 4 0.1608 0.8297 0.000 0.000 0.000 0.928 0.072
#> SRR1026904 4 0.3023 0.8210 0.000 0.012 0.028 0.872 0.088
#> SRR1026905 4 0.3023 0.8210 0.000 0.012 0.028 0.872 0.088
#> SRR1026906 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026907 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026908 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026909 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026910 4 0.1792 0.8376 0.000 0.000 0.000 0.916 0.084
#> SRR1026911 4 0.1792 0.8376 0.000 0.000 0.000 0.916 0.084
#> SRR1026912 3 0.0404 0.8688 0.000 0.000 0.988 0.000 0.012
#> SRR1026913 3 0.0404 0.8688 0.000 0.000 0.988 0.000 0.012
#> SRR1026914 2 0.2813 0.6866 0.000 0.868 0.000 0.024 0.108
#> SRR1026915 2 0.2813 0.6866 0.000 0.868 0.000 0.024 0.108
#> SRR1026916 2 0.2813 0.6866 0.000 0.868 0.000 0.024 0.108
#> SRR1026917 2 0.2813 0.6866 0.000 0.868 0.000 0.024 0.108
#> SRR1026918 4 0.6185 0.5078 0.000 0.264 0.000 0.548 0.188
#> SRR1026919 4 0.6203 0.5010 0.000 0.268 0.000 0.544 0.188
#> SRR1026920 2 0.3370 0.6469 0.000 0.824 0.000 0.028 0.148
#> SRR1026921 2 0.3284 0.6513 0.000 0.828 0.000 0.024 0.148
#> SRR1026922 2 0.0404 0.7521 0.000 0.988 0.000 0.000 0.012
#> SRR1026923 2 0.1792 0.7220 0.000 0.916 0.000 0.000 0.084
#> SRR1026924 4 0.5510 0.6602 0.000 0.184 0.000 0.652 0.164
#> SRR1026925 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026926 4 0.3061 0.8230 0.000 0.020 0.000 0.844 0.136
#> SRR1026927 4 0.4098 0.6707 0.064 0.000 0.000 0.780 0.156
#> SRR1026928 2 0.3741 0.6317 0.000 0.816 0.000 0.076 0.108
#> SRR1026929 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026930 2 0.1792 0.7202 0.000 0.916 0.000 0.000 0.084
#> SRR1026931 2 0.2329 0.6885 0.000 0.876 0.000 0.000 0.124
#> SRR1026932 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026933 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026934 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026935 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026936 4 0.3370 0.8191 0.000 0.028 0.000 0.824 0.148
#> SRR1026937 4 0.3370 0.8191 0.000 0.028 0.000 0.824 0.148
#> SRR1026938 2 0.1168 0.7451 0.000 0.960 0.000 0.008 0.032
#> SRR1026939 2 0.1168 0.7451 0.000 0.960 0.000 0.008 0.032
#> SRR1026940 1 0.3932 0.6397 0.672 0.000 0.000 0.000 0.328
#> SRR1026941 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026942 1 0.3681 0.5907 0.808 0.000 0.000 0.044 0.148
#> SRR1026943 1 0.3921 0.5665 0.784 0.000 0.000 0.044 0.172
#> SRR1026944 1 0.2966 0.6499 0.848 0.000 0.000 0.016 0.136
#> SRR1026945 3 0.0290 0.8739 0.000 0.000 0.992 0.000 0.008
#> SRR1026947 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026946 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026948 2 0.1544 0.7271 0.000 0.932 0.000 0.000 0.068
#> SRR1026949 2 0.3774 0.4219 0.000 0.704 0.000 0.000 0.296
#> SRR1026950 1 0.3264 0.6008 0.820 0.000 0.000 0.016 0.164
#> SRR1026951 5 0.6584 0.5147 0.160 0.388 0.000 0.008 0.444
#> SRR1026952 1 0.1792 0.6823 0.916 0.000 0.000 0.000 0.084
#> SRR1026953 3 0.0290 0.8739 0.000 0.000 0.992 0.000 0.008
#> SRR1026954 4 0.3090 0.8198 0.000 0.040 0.000 0.856 0.104
#> SRR1026955 2 0.0000 0.7543 0.000 1.000 0.000 0.000 0.000
#> SRR1026956 4 0.1485 0.8226 0.020 0.000 0.000 0.948 0.032
#> SRR1026957 2 0.0162 0.7541 0.000 0.996 0.000 0.000 0.004
#> SRR1026958 1 0.3895 0.4202 0.680 0.000 0.000 0.000 0.320
#> SRR1026959 2 0.2179 0.6981 0.000 0.888 0.000 0.000 0.112
#> SRR1026960 4 0.5224 0.7261 0.012 0.128 0.000 0.712 0.148
#> SRR1026961 2 0.6196 0.1492 0.000 0.508 0.000 0.340 0.152
#> SRR1026962 1 0.1197 0.6971 0.952 0.000 0.000 0.000 0.048
#> SRR1026963 3 0.6821 -0.0148 0.324 0.000 0.352 0.000 0.324
#> SRR1026964 4 0.4158 0.7805 0.000 0.092 0.000 0.784 0.124
#> SRR1026965 4 0.4158 0.7805 0.000 0.092 0.000 0.784 0.124
#> SRR1026966 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026967 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026968 4 0.3551 0.8083 0.000 0.044 0.000 0.820 0.136
#> SRR1026969 4 0.3078 0.8192 0.004 0.016 0.000 0.848 0.132
#> SRR1026970 4 0.0703 0.8330 0.000 0.000 0.000 0.976 0.024
#> SRR1026971 4 0.0703 0.8330 0.000 0.000 0.000 0.976 0.024
#> SRR1026972 4 0.1121 0.8331 0.000 0.000 0.000 0.956 0.044
#> SRR1026973 4 0.1121 0.8331 0.000 0.000 0.000 0.956 0.044
#> SRR1026974 4 0.3493 0.7392 0.108 0.000 0.000 0.832 0.060
#> SRR1026975 4 0.3543 0.7344 0.112 0.000 0.000 0.828 0.060
#> SRR1026976 4 0.1043 0.8329 0.000 0.000 0.000 0.960 0.040
#> SRR1026977 4 0.1043 0.8329 0.000 0.000 0.000 0.960 0.040
#> SRR1026978 5 0.7561 0.5738 0.352 0.244 0.000 0.044 0.360
#> SRR1026979 3 0.0290 0.8739 0.000 0.000 0.992 0.000 0.008
#> SRR1026980 2 0.3183 0.6909 0.000 0.828 0.000 0.016 0.156
#> SRR1026981 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026982 4 0.4096 0.7856 0.000 0.072 0.000 0.784 0.144
#> SRR1026983 4 0.4096 0.7856 0.000 0.072 0.000 0.784 0.144
#> SRR1026984 2 0.6292 -0.0727 0.000 0.448 0.000 0.400 0.152
#> SRR1026985 2 0.6294 -0.0887 0.000 0.444 0.000 0.404 0.152
#> SRR1026986 2 0.5652 -0.1623 0.092 0.564 0.000 0.000 0.344
#> SRR1026987 1 0.4341 0.4587 0.628 0.008 0.000 0.000 0.364
#> SRR1026988 3 0.5885 0.5259 0.132 0.000 0.572 0.000 0.296
#> SRR1026989 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026990 4 0.0794 0.8330 0.000 0.000 0.000 0.972 0.028
#> SRR1026991 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026992 1 0.2329 0.7119 0.876 0.000 0.000 0.000 0.124
#> SRR1026993 1 0.2516 0.6392 0.860 0.000 0.000 0.000 0.140
#> SRR1026994 2 0.5255 0.1447 0.060 0.628 0.000 0.004 0.308
#> SRR1026995 3 0.5398 0.5836 0.112 0.000 0.648 0.000 0.240
#> SRR1026996 4 0.1671 0.8378 0.000 0.000 0.000 0.924 0.076
#> SRR1026997 4 0.1671 0.8378 0.000 0.000 0.000 0.924 0.076
#> SRR1026998 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1026999 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1027000 1 0.4192 0.5949 0.596 0.000 0.000 0.000 0.404
#> SRR1027001 3 0.2280 0.8185 0.000 0.000 0.880 0.000 0.120
#> SRR1027002 2 0.5876 -0.4103 0.104 0.512 0.000 0.000 0.384
#> SRR1027003 2 0.5104 0.2203 0.044 0.644 0.008 0.000 0.304
#> SRR1027004 1 0.4891 0.6340 0.640 0.000 0.044 0.000 0.316
#> SRR1027005 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1027006 3 0.5739 0.5600 0.124 0.000 0.596 0.000 0.280
#> SRR1027007 1 0.8061 -0.5730 0.352 0.236 0.000 0.096 0.316
#> SRR1027008 1 0.1908 0.7032 0.908 0.000 0.000 0.000 0.092
#> SRR1027009 3 0.0404 0.8731 0.000 0.000 0.988 0.000 0.012
#> SRR1027010 1 0.6712 0.2882 0.416 0.000 0.260 0.000 0.324
#> SRR1027011 3 0.0290 0.8739 0.000 0.000 0.992 0.000 0.008
#> SRR1177668 3 0.6653 0.2547 0.244 0.000 0.436 0.000 0.320
#> SRR1177667 1 0.2605 0.7066 0.852 0.000 0.000 0.000 0.148
#> SRR1177669 3 0.6007 0.5089 0.152 0.000 0.564 0.000 0.284
#> SRR1177670 3 0.0609 0.8711 0.000 0.000 0.980 0.000 0.020
#> SRR1177671 2 0.2377 0.6828 0.000 0.872 0.000 0.000 0.128
#> SRR1177672 3 0.0609 0.8711 0.000 0.000 0.980 0.000 0.020
#> SRR1177673 1 0.3876 0.6496 0.684 0.000 0.000 0.000 0.316
#> SRR1177674 3 0.0609 0.8711 0.000 0.000 0.980 0.000 0.020
#> SRR1177675 1 0.1965 0.7096 0.904 0.000 0.000 0.000 0.096
#> SRR1177676 3 0.0703 0.8697 0.000 0.000 0.976 0.000 0.024
#> SRR1177677 1 0.2732 0.7085 0.840 0.000 0.000 0.000 0.160
#> SRR1177678 1 0.2966 0.7008 0.816 0.000 0.000 0.000 0.184
#> SRR1177679 2 0.3586 0.4912 0.000 0.736 0.000 0.000 0.264
#> SRR1177680 2 0.3661 0.4689 0.000 0.724 0.000 0.000 0.276
#> SRR1177681 1 0.3876 0.6501 0.684 0.000 0.000 0.000 0.316
#> SRR1177682 1 0.4300 0.5525 0.524 0.000 0.000 0.000 0.476
#> SRR1177683 2 0.2127 0.7024 0.000 0.892 0.000 0.000 0.108
#> SRR1177684 2 0.2127 0.7024 0.000 0.892 0.000 0.000 0.108
#> SRR1177685 1 0.3039 0.6987 0.808 0.000 0.000 0.000 0.192
#> SRR1177686 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1177687 2 0.4891 0.2215 0.044 0.640 0.000 0.000 0.316
#> SRR1177688 1 0.4060 0.6450 0.640 0.000 0.000 0.000 0.360
#> SRR1177689 1 0.5174 0.0911 0.604 0.056 0.000 0.000 0.340
#> SRR1177690 1 0.2690 0.6256 0.844 0.000 0.000 0.000 0.156
#> SRR1177691 2 0.3424 0.5318 0.000 0.760 0.000 0.000 0.240
#> SRR1177692 2 0.3816 0.4072 0.000 0.696 0.000 0.000 0.304
#> SRR1177693 2 0.0404 0.7535 0.000 0.988 0.000 0.000 0.012
#> SRR1177694 2 0.1282 0.7419 0.000 0.952 0.000 0.004 0.044
#> SRR1177695 1 0.3274 0.5452 0.780 0.000 0.000 0.000 0.220
#> SRR1177697 1 0.3210 0.5697 0.788 0.000 0.000 0.000 0.212
#> SRR1177696 3 0.0609 0.8711 0.000 0.000 0.980 0.000 0.020
#> SRR1177698 3 0.0609 0.8711 0.000 0.000 0.980 0.000 0.020
#> SRR1177700 1 0.6248 0.3213 0.520 0.000 0.308 0.000 0.172
#> SRR1177701 1 0.5821 0.0744 0.504 0.000 0.000 0.400 0.096
#> SRR1177702 3 0.4581 0.7071 0.072 0.000 0.732 0.000 0.196
#> SRR1177703 1 0.5331 0.2104 0.568 0.000 0.000 0.372 0.060
#> SRR1177704 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1177705 1 0.2189 0.6673 0.904 0.000 0.000 0.012 0.084
#> SRR1177706 2 0.3039 0.6057 0.000 0.808 0.000 0.000 0.192
#> SRR1177707 4 0.6241 0.2669 0.324 0.000 0.000 0.512 0.164
#> SRR1177708 1 0.4251 0.6345 0.624 0.000 0.000 0.004 0.372
#> SRR1177709 1 0.4047 0.6434 0.676 0.000 0.004 0.000 0.320
#> SRR1177710 3 0.3086 0.7763 0.004 0.000 0.816 0.000 0.180
#> SRR1177711 1 0.2732 0.7055 0.840 0.000 0.000 0.000 0.160
#> SRR1177712 3 0.2583 0.8093 0.004 0.000 0.864 0.000 0.132
#> SRR1177714 2 0.2179 0.6980 0.000 0.888 0.000 0.000 0.112
#> SRR1177713 3 0.3365 0.7899 0.044 0.000 0.836 0.000 0.120
#> SRR1177715 2 0.3730 0.4415 0.000 0.712 0.000 0.000 0.288
#> SRR1177716 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1177717 1 0.0794 0.6898 0.972 0.000 0.000 0.000 0.028
#> SRR1177718 1 0.0609 0.6950 0.980 0.000 0.000 0.000 0.020
#> SRR1177719 1 0.2595 0.6984 0.888 0.000 0.000 0.032 0.080
#> SRR1177720 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1177721 2 0.1544 0.7271 0.000 0.932 0.000 0.000 0.068
#> SRR1177722 2 0.0703 0.7479 0.000 0.976 0.000 0.000 0.024
#> SRR1177723 1 0.1410 0.6774 0.940 0.000 0.000 0.000 0.060
#> SRR1177725 1 0.1121 0.7007 0.956 0.000 0.000 0.000 0.044
#> SRR1177724 1 0.2516 0.6325 0.860 0.000 0.000 0.000 0.140
#> SRR1177726 3 0.0290 0.8739 0.000 0.000 0.992 0.000 0.008
#> SRR1177727 1 0.3774 0.6597 0.704 0.000 0.000 0.000 0.296
#> SRR1177728 3 0.0290 0.8739 0.000 0.000 0.992 0.000 0.008
#> SRR1177729 1 0.1908 0.6634 0.908 0.000 0.000 0.000 0.092
#> SRR1177730 3 0.0703 0.8697 0.000 0.000 0.976 0.000 0.024
#> SRR1177731 1 0.3913 0.6446 0.676 0.000 0.000 0.000 0.324
#> SRR1177732 1 0.3913 0.6446 0.676 0.000 0.000 0.000 0.324
#> SRR1177733 1 0.2424 0.7018 0.868 0.000 0.000 0.000 0.132
#> SRR1177734 1 0.2561 0.6752 0.856 0.000 0.000 0.000 0.144
#> SRR1177735 1 0.4341 0.2184 0.592 0.004 0.000 0.000 0.404
#> SRR1177736 1 0.3983 0.6590 0.660 0.000 0.000 0.000 0.340
#> SRR1177737 2 0.1331 0.7450 0.000 0.952 0.000 0.008 0.040
#> SRR1177738 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1177739 1 0.4114 0.6461 0.624 0.000 0.000 0.000 0.376
#> SRR1177740 1 0.3857 0.4176 0.688 0.000 0.000 0.000 0.312
#> SRR1177741 1 0.3274 0.6909 0.780 0.000 0.000 0.000 0.220
#> SRR1177742 3 0.0290 0.8739 0.000 0.000 0.992 0.000 0.008
#> SRR1177743 1 0.3913 0.6446 0.676 0.000 0.000 0.000 0.324
#> SRR1177744 3 0.6311 0.4058 0.176 0.000 0.504 0.000 0.320
#> SRR1177745 2 0.3336 0.5633 0.000 0.772 0.000 0.000 0.228
#> SRR1177746 2 0.3928 0.4136 0.004 0.700 0.000 0.000 0.296
#> SRR1177747 3 0.6287 0.4321 0.184 0.000 0.520 0.000 0.296
#> SRR1177748 3 0.0000 0.8742 0.000 0.000 1.000 0.000 0.000
#> SRR1177749 1 0.2127 0.7098 0.892 0.000 0.000 0.000 0.108
#> SRR1177750 1 0.2230 0.7026 0.884 0.000 0.000 0.000 0.116
#> SRR1177751 1 0.3143 0.5688 0.796 0.000 0.000 0.000 0.204
#> SRR1177752 1 0.1121 0.7023 0.956 0.000 0.000 0.000 0.044
#> SRR1177753 1 0.3774 0.6591 0.704 0.000 0.000 0.000 0.296
#> SRR1177754 3 0.6744 0.1690 0.272 0.000 0.404 0.000 0.324
#> SRR1177755 1 0.3266 0.5787 0.796 0.000 0.000 0.004 0.200
#> SRR1177756 1 0.3837 0.4290 0.692 0.000 0.000 0.000 0.308
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.2234 0.6357 0.000 0.872 0.000 0.000 0.124 0.004
#> SRR1026871 2 0.2234 0.6357 0.000 0.872 0.000 0.000 0.124 0.004
#> SRR1026872 2 0.1411 0.6897 0.000 0.936 0.000 0.000 0.060 0.004
#> SRR1026873 1 0.3409 0.1396 0.700 0.000 0.000 0.000 0.000 0.300
#> SRR1026874 1 0.3851 -0.0255 0.540 0.000 0.460 0.000 0.000 0.000
#> SRR1026875 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026876 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026877 3 0.0146 0.9208 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026878 3 0.0146 0.9208 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026879 1 0.0260 0.5352 0.992 0.000 0.000 0.000 0.000 0.008
#> SRR1026880 1 0.2730 0.4991 0.808 0.000 0.192 0.000 0.000 0.000
#> SRR1026881 2 0.4219 0.3927 0.000 0.720 0.000 0.048 0.224 0.008
#> SRR1026882 2 0.4219 0.3927 0.000 0.720 0.000 0.048 0.224 0.008
#> SRR1026883 5 0.6329 0.5763 0.000 0.336 0.000 0.300 0.356 0.008
#> SRR1026884 5 0.6329 0.5750 0.000 0.336 0.000 0.300 0.356 0.008
#> SRR1026885 4 0.3858 0.5635 0.000 0.004 0.000 0.732 0.236 0.028
#> SRR1026886 4 0.3858 0.5635 0.000 0.004 0.000 0.732 0.236 0.028
#> SRR1026887 3 0.0891 0.9077 0.000 0.000 0.968 0.000 0.024 0.008
#> SRR1026888 3 0.0891 0.9077 0.000 0.000 0.968 0.000 0.024 0.008
#> SRR1026889 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026890 2 0.7326 -0.3934 0.000 0.420 0.060 0.228 0.268 0.024
#> SRR1026891 4 0.3034 0.5802 0.032 0.000 0.000 0.864 0.056 0.048
#> SRR1026892 4 0.3034 0.5802 0.032 0.000 0.000 0.864 0.056 0.048
#> SRR1026893 3 0.0146 0.9208 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026894 3 0.0146 0.9208 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026895 2 0.6324 -0.5831 0.000 0.424 0.000 0.228 0.332 0.016
#> SRR1026896 2 0.6280 -0.5549 0.000 0.436 0.000 0.216 0.332 0.016
#> SRR1026897 1 0.3851 -0.0255 0.540 0.000 0.460 0.000 0.000 0.000
#> SRR1026898 1 0.0777 0.5285 0.972 0.000 0.000 0.000 0.004 0.024
#> SRR1026899 1 0.0146 0.5365 0.996 0.000 0.000 0.000 0.000 0.004
#> SRR1026900 2 0.1049 0.7260 0.000 0.960 0.000 0.000 0.032 0.008
#> SRR1026901 2 0.2302 0.7154 0.000 0.900 0.008 0.000 0.060 0.032
#> SRR1026902 4 0.3088 0.5590 0.000 0.000 0.000 0.808 0.172 0.020
#> SRR1026903 4 0.3053 0.5608 0.000 0.000 0.000 0.812 0.168 0.020
#> SRR1026904 4 0.4896 0.4539 0.000 0.000 0.064 0.660 0.256 0.020
#> SRR1026905 4 0.4896 0.4539 0.000 0.000 0.064 0.660 0.256 0.020
#> SRR1026906 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026907 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026908 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026909 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026910 4 0.3606 0.5405 0.000 0.004 0.000 0.724 0.264 0.008
#> SRR1026911 4 0.3606 0.5356 0.000 0.004 0.000 0.724 0.264 0.008
#> SRR1026912 3 0.1225 0.8996 0.000 0.000 0.952 0.000 0.036 0.012
#> SRR1026913 3 0.1225 0.8996 0.000 0.000 0.952 0.000 0.036 0.012
#> SRR1026914 2 0.3230 0.5061 0.000 0.776 0.000 0.012 0.212 0.000
#> SRR1026915 2 0.3230 0.5061 0.000 0.776 0.000 0.012 0.212 0.000
#> SRR1026916 2 0.3230 0.5061 0.000 0.776 0.000 0.012 0.212 0.000
#> SRR1026917 2 0.3230 0.5061 0.000 0.776 0.000 0.012 0.212 0.000
#> SRR1026918 4 0.6314 -0.6384 0.000 0.284 0.000 0.360 0.348 0.008
#> SRR1026919 5 0.6326 0.5908 0.000 0.296 0.000 0.340 0.356 0.008
#> SRR1026920 2 0.4123 0.3548 0.000 0.696 0.000 0.016 0.272 0.016
#> SRR1026921 2 0.4102 0.3638 0.000 0.700 0.000 0.016 0.268 0.016
#> SRR1026922 2 0.0858 0.7245 0.000 0.968 0.000 0.000 0.028 0.004
#> SRR1026923 2 0.2365 0.7109 0.000 0.888 0.000 0.000 0.072 0.040
#> SRR1026924 4 0.6026 -0.4355 0.000 0.204 0.000 0.408 0.384 0.004
#> SRR1026925 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026926 4 0.4235 0.4363 0.000 0.032 0.000 0.672 0.292 0.004
#> SRR1026927 4 0.4264 0.4516 0.188 0.000 0.000 0.744 0.032 0.036
#> SRR1026928 2 0.3854 0.4697 0.000 0.760 0.000 0.048 0.188 0.004
#> SRR1026929 3 0.0146 0.9208 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026930 2 0.2221 0.7127 0.000 0.896 0.000 0.000 0.072 0.032
#> SRR1026931 2 0.2897 0.6950 0.000 0.852 0.000 0.000 0.088 0.060
#> SRR1026932 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026933 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026934 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026935 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026936 4 0.4315 0.3838 0.000 0.036 0.000 0.636 0.328 0.000
#> SRR1026937 4 0.4300 0.3872 0.000 0.036 0.000 0.640 0.324 0.000
#> SRR1026938 2 0.1010 0.7076 0.000 0.960 0.000 0.004 0.036 0.000
#> SRR1026939 2 0.1010 0.7076 0.000 0.960 0.000 0.004 0.036 0.000
#> SRR1026940 6 0.5142 0.2274 0.428 0.000 0.000 0.000 0.084 0.488
#> SRR1026941 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026942 6 0.4307 0.5928 0.224 0.000 0.000 0.072 0.000 0.704
#> SRR1026943 6 0.4136 0.5952 0.192 0.000 0.000 0.076 0.000 0.732
#> SRR1026944 6 0.4186 0.5729 0.312 0.000 0.000 0.032 0.000 0.656
#> SRR1026945 3 0.1141 0.9125 0.052 0.000 0.948 0.000 0.000 0.000
#> SRR1026947 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026946 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026948 2 0.2006 0.7117 0.000 0.904 0.000 0.000 0.080 0.016
#> SRR1026949 2 0.5851 0.3892 0.000 0.476 0.000 0.000 0.304 0.220
#> SRR1026950 6 0.3509 0.6014 0.240 0.000 0.000 0.016 0.000 0.744
#> SRR1026951 6 0.6300 0.0223 0.012 0.252 0.000 0.008 0.236 0.492
#> SRR1026952 6 0.3807 0.5497 0.368 0.000 0.000 0.004 0.000 0.628
#> SRR1026953 3 0.1141 0.9125 0.052 0.000 0.948 0.000 0.000 0.000
#> SRR1026954 4 0.4716 0.2811 0.000 0.040 0.000 0.552 0.404 0.004
#> SRR1026955 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026956 4 0.2011 0.5859 0.004 0.000 0.000 0.912 0.020 0.064
#> SRR1026957 2 0.0000 0.7246 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026958 6 0.3790 0.5453 0.104 0.000 0.000 0.000 0.116 0.780
#> SRR1026959 2 0.2579 0.7025 0.000 0.872 0.000 0.000 0.088 0.040
#> SRR1026960 4 0.5670 -0.1279 0.000 0.108 0.000 0.444 0.436 0.012
#> SRR1026961 5 0.6061 0.6290 0.000 0.312 0.000 0.236 0.448 0.004
#> SRR1026962 6 0.4032 0.5007 0.420 0.000 0.000 0.008 0.000 0.572
#> SRR1026963 1 0.2597 0.5058 0.824 0.000 0.176 0.000 0.000 0.000
#> SRR1026964 4 0.5020 0.1896 0.000 0.080 0.000 0.548 0.372 0.000
#> SRR1026965 4 0.5020 0.1896 0.000 0.080 0.000 0.548 0.372 0.000
#> SRR1026966 3 0.0146 0.9208 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026967 3 0.0146 0.9208 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026968 5 0.4808 -0.2319 0.000 0.052 0.000 0.468 0.480 0.000
#> SRR1026969 4 0.4542 0.3600 0.000 0.004 0.000 0.556 0.412 0.028
#> SRR1026970 4 0.1225 0.5993 0.000 0.000 0.000 0.952 0.036 0.012
#> SRR1026971 4 0.1225 0.5993 0.000 0.000 0.000 0.952 0.036 0.012
#> SRR1026972 4 0.1951 0.5906 0.000 0.000 0.000 0.908 0.076 0.016
#> SRR1026973 4 0.1895 0.5918 0.000 0.000 0.000 0.912 0.072 0.016
#> SRR1026974 4 0.4596 0.5129 0.016 0.000 0.000 0.728 0.124 0.132
#> SRR1026975 4 0.4830 0.4989 0.024 0.000 0.000 0.712 0.124 0.140
#> SRR1026976 4 0.2762 0.5713 0.000 0.000 0.000 0.804 0.196 0.000
#> SRR1026977 4 0.2697 0.5758 0.000 0.000 0.000 0.812 0.188 0.000
#> SRR1026978 6 0.4996 0.4672 0.020 0.116 0.000 0.056 0.068 0.740
#> SRR1026979 3 0.1204 0.9110 0.056 0.000 0.944 0.000 0.000 0.000
#> SRR1026980 2 0.4384 0.5546 0.000 0.692 0.000 0.012 0.256 0.040
#> SRR1026981 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026982 4 0.4974 0.1571 0.000 0.056 0.000 0.500 0.440 0.004
#> SRR1026983 4 0.4974 0.1571 0.000 0.056 0.000 0.500 0.440 0.004
#> SRR1026984 5 0.6122 0.6102 0.000 0.280 0.000 0.280 0.436 0.004
#> SRR1026985 5 0.6122 0.6102 0.000 0.280 0.000 0.280 0.436 0.004
#> SRR1026986 2 0.6047 0.3002 0.000 0.400 0.000 0.000 0.340 0.260
#> SRR1026987 6 0.5950 0.3365 0.196 0.004 0.000 0.004 0.288 0.508
#> SRR1026988 1 0.3756 0.2872 0.644 0.000 0.352 0.000 0.004 0.000
#> SRR1026989 3 0.0405 0.9212 0.008 0.000 0.988 0.000 0.004 0.000
#> SRR1026990 4 0.2212 0.6016 0.000 0.000 0.000 0.880 0.112 0.008
#> SRR1026991 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026992 1 0.4250 -0.3067 0.528 0.000 0.000 0.000 0.016 0.456
#> SRR1026993 6 0.3531 0.5697 0.328 0.000 0.000 0.000 0.000 0.672
#> SRR1026994 2 0.6086 0.4236 0.000 0.524 0.000 0.020 0.216 0.240
#> SRR1026995 3 0.6703 0.2687 0.216 0.000 0.476 0.004 0.048 0.256
#> SRR1026996 4 0.3351 0.5226 0.000 0.000 0.000 0.712 0.288 0.000
#> SRR1026997 4 0.3351 0.5226 0.000 0.000 0.000 0.712 0.288 0.000
#> SRR1026998 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026999 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1027000 1 0.5630 0.0857 0.536 0.000 0.000 0.000 0.204 0.260
#> SRR1027001 3 0.3360 0.6986 0.264 0.000 0.732 0.000 0.004 0.000
#> SRR1027002 2 0.5937 0.3052 0.000 0.416 0.000 0.000 0.216 0.368
#> SRR1027003 2 0.5327 0.5278 0.000 0.624 0.008 0.000 0.168 0.200
#> SRR1027004 1 0.3946 0.2575 0.680 0.000 0.004 0.004 0.008 0.304
#> SRR1027005 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1027006 1 0.4015 0.1736 0.596 0.000 0.396 0.000 0.004 0.004
#> SRR1027007 6 0.7364 0.2117 0.052 0.168 0.000 0.064 0.232 0.484
#> SRR1027008 6 0.3998 0.3782 0.492 0.000 0.000 0.000 0.004 0.504
#> SRR1027009 3 0.1204 0.9110 0.056 0.000 0.944 0.000 0.000 0.000
#> SRR1027010 1 0.1765 0.5275 0.904 0.000 0.096 0.000 0.000 0.000
#> SRR1027011 3 0.1141 0.9125 0.052 0.000 0.948 0.000 0.000 0.000
#> SRR1177668 1 0.2933 0.4953 0.796 0.000 0.200 0.000 0.000 0.004
#> SRR1177667 1 0.3634 -0.0162 0.644 0.000 0.000 0.000 0.000 0.356
#> SRR1177669 1 0.3634 0.2840 0.644 0.000 0.356 0.000 0.000 0.000
#> SRR1177670 3 0.1863 0.8828 0.104 0.000 0.896 0.000 0.000 0.000
#> SRR1177671 2 0.3396 0.6731 0.000 0.812 0.000 0.000 0.116 0.072
#> SRR1177672 3 0.1765 0.8886 0.096 0.000 0.904 0.000 0.000 0.000
#> SRR1177673 1 0.0363 0.5340 0.988 0.000 0.000 0.000 0.000 0.012
#> SRR1177674 3 0.1663 0.8940 0.088 0.000 0.912 0.000 0.000 0.000
#> SRR1177675 1 0.3833 -0.2607 0.556 0.000 0.000 0.000 0.000 0.444
#> SRR1177676 3 0.2048 0.8693 0.120 0.000 0.880 0.000 0.000 0.000
#> SRR1177677 1 0.4660 -0.2358 0.540 0.000 0.000 0.000 0.044 0.416
#> SRR1177678 1 0.3565 0.1239 0.692 0.000 0.000 0.000 0.004 0.304
#> SRR1177679 2 0.5454 0.4656 0.000 0.548 0.000 0.000 0.300 0.152
#> SRR1177680 2 0.5694 0.4253 0.000 0.504 0.000 0.000 0.312 0.184
#> SRR1177681 1 0.1297 0.5275 0.948 0.000 0.000 0.000 0.012 0.040
#> SRR1177682 1 0.5409 0.2231 0.580 0.000 0.000 0.000 0.188 0.232
#> SRR1177683 2 0.2911 0.6837 0.000 0.832 0.000 0.000 0.144 0.024
#> SRR1177684 2 0.2667 0.6943 0.000 0.852 0.000 0.000 0.128 0.020
#> SRR1177685 1 0.3607 0.0121 0.652 0.000 0.000 0.000 0.000 0.348
#> SRR1177686 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177687 2 0.6250 0.3487 0.012 0.436 0.000 0.000 0.316 0.236
#> SRR1177688 1 0.5217 0.2507 0.608 0.000 0.000 0.000 0.160 0.232
#> SRR1177689 6 0.6143 0.3554 0.128 0.052 0.000 0.000 0.272 0.548
#> SRR1177690 6 0.5027 0.5222 0.304 0.000 0.000 0.000 0.100 0.596
#> SRR1177691 2 0.5173 0.5081 0.000 0.596 0.000 0.000 0.276 0.128
#> SRR1177692 2 0.5775 0.4044 0.000 0.480 0.000 0.000 0.328 0.192
#> SRR1177693 2 0.0508 0.7223 0.000 0.984 0.000 0.004 0.012 0.000
#> SRR1177694 2 0.1700 0.6772 0.000 0.916 0.000 0.004 0.080 0.000
#> SRR1177695 6 0.5300 0.4994 0.212 0.000 0.000 0.000 0.188 0.600
#> SRR1177697 6 0.3154 0.6063 0.184 0.000 0.000 0.004 0.012 0.800
#> SRR1177696 3 0.1556 0.9000 0.080 0.000 0.920 0.000 0.000 0.000
#> SRR1177698 3 0.1387 0.9056 0.068 0.000 0.932 0.000 0.000 0.000
#> SRR1177700 6 0.7791 0.0351 0.276 0.000 0.264 0.020 0.112 0.328
#> SRR1177701 6 0.6681 0.3595 0.112 0.000 0.000 0.296 0.108 0.484
#> SRR1177702 3 0.3828 0.3294 0.440 0.000 0.560 0.000 0.000 0.000
#> SRR1177703 6 0.6139 0.4106 0.188 0.000 0.000 0.324 0.016 0.472
#> SRR1177704 3 0.0725 0.9132 0.000 0.000 0.976 0.000 0.012 0.012
#> SRR1177705 6 0.4701 0.5720 0.344 0.000 0.000 0.036 0.012 0.608
#> SRR1177706 2 0.4414 0.6009 0.000 0.704 0.000 0.000 0.204 0.092
#> SRR1177707 4 0.6771 0.2179 0.048 0.000 0.000 0.388 0.220 0.344
#> SRR1177708 1 0.4533 0.3876 0.720 0.000 0.000 0.012 0.088 0.180
#> SRR1177709 1 0.0363 0.5347 0.988 0.000 0.000 0.000 0.000 0.012
#> SRR1177710 3 0.3714 0.5742 0.340 0.000 0.656 0.000 0.004 0.000
#> SRR1177711 1 0.3684 -0.0647 0.628 0.000 0.000 0.000 0.000 0.372
#> SRR1177712 3 0.3761 0.7046 0.228 0.000 0.744 0.020 0.008 0.000
#> SRR1177714 2 0.2579 0.7025 0.000 0.872 0.000 0.000 0.088 0.040
#> SRR1177713 3 0.4029 0.6266 0.288 0.000 0.688 0.000 0.012 0.012
#> SRR1177715 2 0.5612 0.4440 0.000 0.524 0.000 0.000 0.300 0.176
#> SRR1177716 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177717 6 0.3923 0.5065 0.416 0.000 0.000 0.000 0.004 0.580
#> SRR1177718 6 0.3817 0.4879 0.432 0.000 0.000 0.000 0.000 0.568
#> SRR1177719 6 0.4945 0.3990 0.452 0.000 0.000 0.064 0.000 0.484
#> SRR1177720 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177721 2 0.1745 0.7162 0.000 0.920 0.000 0.000 0.068 0.012
#> SRR1177722 2 0.0713 0.7244 0.000 0.972 0.000 0.000 0.028 0.000
#> SRR1177723 6 0.3747 0.5299 0.396 0.000 0.000 0.000 0.000 0.604
#> SRR1177725 6 0.4372 0.4791 0.432 0.000 0.000 0.000 0.024 0.544
#> SRR1177724 6 0.3409 0.5917 0.300 0.000 0.000 0.000 0.000 0.700
#> SRR1177726 3 0.1075 0.9136 0.048 0.000 0.952 0.000 0.000 0.000
#> SRR1177727 1 0.1610 0.4858 0.916 0.000 0.000 0.000 0.000 0.084
#> SRR1177728 3 0.1204 0.9110 0.056 0.000 0.944 0.000 0.000 0.000
#> SRR1177729 6 0.4218 0.5552 0.360 0.000 0.000 0.000 0.024 0.616
#> SRR1177730 3 0.1765 0.8886 0.096 0.000 0.904 0.000 0.000 0.000
#> SRR1177731 1 0.0146 0.5365 0.996 0.000 0.000 0.000 0.000 0.004
#> SRR1177732 1 0.0146 0.5375 0.996 0.000 0.004 0.000 0.000 0.000
#> SRR1177733 1 0.4757 -0.3336 0.480 0.000 0.000 0.000 0.048 0.472
#> SRR1177734 6 0.4482 0.4958 0.360 0.000 0.000 0.000 0.040 0.600
#> SRR1177735 6 0.3978 0.4804 0.060 0.000 0.000 0.008 0.168 0.764
#> SRR1177736 1 0.4095 0.3704 0.724 0.000 0.000 0.000 0.060 0.216
#> SRR1177737 2 0.2165 0.6547 0.000 0.884 0.000 0.008 0.108 0.000
#> SRR1177738 3 0.0405 0.9169 0.000 0.000 0.988 0.000 0.004 0.008
#> SRR1177739 1 0.4809 0.3009 0.652 0.000 0.000 0.000 0.108 0.240
#> SRR1177740 6 0.5219 0.4430 0.136 0.000 0.000 0.008 0.224 0.632
#> SRR1177741 1 0.3198 0.2271 0.740 0.000 0.000 0.000 0.000 0.260
#> SRR1177742 3 0.1204 0.9110 0.056 0.000 0.944 0.000 0.000 0.000
#> SRR1177743 1 0.0000 0.5367 1.000 0.000 0.000 0.000 0.000 0.000
#> SRR1177744 1 0.3221 0.4597 0.736 0.000 0.264 0.000 0.000 0.000
#> SRR1177745 2 0.4834 0.5702 0.000 0.660 0.000 0.000 0.212 0.128
#> SRR1177746 2 0.5648 0.4374 0.000 0.516 0.000 0.000 0.304 0.180
#> SRR1177747 1 0.3515 0.3596 0.676 0.000 0.324 0.000 0.000 0.000
#> SRR1177748 3 0.0000 0.9212 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177749 1 0.3765 -0.1550 0.596 0.000 0.000 0.000 0.000 0.404
#> SRR1177750 1 0.4644 -0.3287 0.504 0.000 0.000 0.000 0.040 0.456
#> SRR1177751 6 0.5008 0.5241 0.212 0.000 0.000 0.000 0.148 0.640
#> SRR1177752 6 0.3862 0.4107 0.476 0.000 0.000 0.000 0.000 0.524
#> SRR1177753 1 0.1806 0.4761 0.908 0.000 0.000 0.000 0.004 0.088
#> SRR1177754 1 0.2664 0.5024 0.816 0.000 0.184 0.000 0.000 0.000
#> SRR1177755 6 0.3398 0.6070 0.216 0.000 0.000 0.012 0.004 0.768
#> SRR1177756 6 0.2473 0.5930 0.136 0.000 0.000 0.000 0.008 0.856
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["CV", "pam"]
# you can also extract it by
# res = res_list["CV:pam"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'CV' method.
#> Subgroups are detected by 'pam' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.544 0.809 0.903 0.4083 0.622 0.622
#> 3 3 0.623 0.768 0.901 0.4307 0.751 0.616
#> 4 4 0.566 0.713 0.844 0.1901 0.755 0.499
#> 5 5 0.582 0.554 0.749 0.0836 0.866 0.604
#> 6 6 0.606 0.445 0.666 0.0474 0.908 0.663
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0376 0.9294 0.004 0.996
#> SRR1026871 2 0.0376 0.9294 0.004 0.996
#> SRR1026872 2 0.0000 0.9295 0.000 1.000
#> SRR1026873 1 0.0000 0.8747 1.000 0.000
#> SRR1026874 1 0.0000 0.8747 1.000 0.000
#> SRR1026875 2 0.0000 0.9295 0.000 1.000
#> SRR1026876 2 0.0000 0.9295 0.000 1.000
#> SRR1026877 1 0.0000 0.8747 1.000 0.000
#> SRR1026878 1 0.0000 0.8747 1.000 0.000
#> SRR1026879 1 0.0000 0.8747 1.000 0.000
#> SRR1026880 1 0.0000 0.8747 1.000 0.000
#> SRR1026881 2 0.1184 0.9232 0.016 0.984
#> SRR1026882 2 0.0672 0.9277 0.008 0.992
#> SRR1026883 1 0.9881 0.4246 0.564 0.436
#> SRR1026884 1 0.9909 0.4059 0.556 0.444
#> SRR1026885 1 0.8661 0.6989 0.712 0.288
#> SRR1026886 1 0.8608 0.7034 0.716 0.284
#> SRR1026887 1 0.0000 0.8747 1.000 0.000
#> SRR1026888 1 0.0000 0.8747 1.000 0.000
#> SRR1026889 2 0.0000 0.9295 0.000 1.000
#> SRR1026890 1 0.8661 0.6989 0.712 0.288
#> SRR1026891 1 0.6887 0.7914 0.816 0.184
#> SRR1026892 1 0.7139 0.7837 0.804 0.196
#> SRR1026893 1 0.0000 0.8747 1.000 0.000
#> SRR1026894 1 0.0000 0.8747 1.000 0.000
#> SRR1026895 1 0.8861 0.6788 0.696 0.304
#> SRR1026896 1 0.8813 0.6840 0.700 0.300
#> SRR1026897 1 0.0000 0.8747 1.000 0.000
#> SRR1026898 1 0.0376 0.8733 0.996 0.004
#> SRR1026899 1 0.0000 0.8747 1.000 0.000
#> SRR1026900 1 0.8207 0.7333 0.744 0.256
#> SRR1026901 1 0.8661 0.6999 0.712 0.288
#> SRR1026902 1 0.8499 0.7129 0.724 0.276
#> SRR1026903 1 0.8267 0.7294 0.740 0.260
#> SRR1026904 1 0.8763 0.6894 0.704 0.296
#> SRR1026905 1 0.8608 0.7039 0.716 0.284
#> SRR1026906 2 0.0000 0.9295 0.000 1.000
#> SRR1026907 2 0.0000 0.9295 0.000 1.000
#> SRR1026908 2 0.0000 0.9295 0.000 1.000
#> SRR1026909 2 0.0000 0.9295 0.000 1.000
#> SRR1026910 1 0.9833 0.4530 0.576 0.424
#> SRR1026911 1 0.9850 0.4435 0.572 0.428
#> SRR1026912 1 0.3114 0.8528 0.944 0.056
#> SRR1026913 1 0.1184 0.8701 0.984 0.016
#> SRR1026914 2 0.0376 0.9294 0.004 0.996
#> SRR1026915 2 0.0376 0.9294 0.004 0.996
#> SRR1026916 2 0.0376 0.9294 0.004 0.996
#> SRR1026917 2 0.0376 0.9294 0.004 0.996
#> SRR1026918 2 0.9795 0.1006 0.416 0.584
#> SRR1026919 2 0.9522 0.2656 0.372 0.628
#> SRR1026920 2 0.3733 0.8727 0.072 0.928
#> SRR1026921 2 0.3584 0.8771 0.068 0.932
#> SRR1026922 2 0.0000 0.9295 0.000 1.000
#> SRR1026923 2 0.0672 0.9278 0.008 0.992
#> SRR1026924 2 0.9954 -0.0940 0.460 0.540
#> SRR1026925 1 0.6712 0.7961 0.824 0.176
#> SRR1026926 1 0.9850 0.4427 0.572 0.428
#> SRR1026927 1 0.0000 0.8747 1.000 0.000
#> SRR1026928 2 0.2236 0.9081 0.036 0.964
#> SRR1026929 1 0.0000 0.8747 1.000 0.000
#> SRR1026930 2 0.1414 0.9207 0.020 0.980
#> SRR1026931 2 0.0000 0.9295 0.000 1.000
#> SRR1026932 2 0.0000 0.9295 0.000 1.000
#> SRR1026933 2 0.0000 0.9295 0.000 1.000
#> SRR1026934 2 0.0000 0.9295 0.000 1.000
#> SRR1026935 2 0.0000 0.9295 0.000 1.000
#> SRR1026936 1 0.9850 0.4461 0.572 0.428
#> SRR1026937 1 0.9881 0.4260 0.564 0.436
#> SRR1026938 2 0.0376 0.9294 0.004 0.996
#> SRR1026939 2 0.0000 0.9295 0.000 1.000
#> SRR1026940 1 0.0000 0.8747 1.000 0.000
#> SRR1026941 1 0.0000 0.8747 1.000 0.000
#> SRR1026942 1 0.1414 0.8691 0.980 0.020
#> SRR1026943 1 0.7602 0.7662 0.780 0.220
#> SRR1026944 1 0.0672 0.8728 0.992 0.008
#> SRR1026945 1 0.0000 0.8747 1.000 0.000
#> SRR1026947 2 0.0000 0.9295 0.000 1.000
#> SRR1026946 2 0.0000 0.9295 0.000 1.000
#> SRR1026948 2 0.0000 0.9295 0.000 1.000
#> SRR1026949 1 0.7674 0.7641 0.776 0.224
#> SRR1026950 1 0.6623 0.7974 0.828 0.172
#> SRR1026951 1 0.7950 0.7468 0.760 0.240
#> SRR1026952 1 0.0672 0.8728 0.992 0.008
#> SRR1026953 1 0.0000 0.8747 1.000 0.000
#> SRR1026954 1 0.7950 0.7473 0.760 0.240
#> SRR1026955 2 0.0000 0.9295 0.000 1.000
#> SRR1026956 1 0.7453 0.7725 0.788 0.212
#> SRR1026957 2 0.2778 0.8957 0.048 0.952
#> SRR1026958 1 0.6623 0.7974 0.828 0.172
#> SRR1026959 2 0.0000 0.9295 0.000 1.000
#> SRR1026960 1 0.9922 0.3919 0.552 0.448
#> SRR1026961 1 0.9909 0.4021 0.556 0.444
#> SRR1026962 1 0.0000 0.8747 1.000 0.000
#> SRR1026963 1 0.0000 0.8747 1.000 0.000
#> SRR1026964 1 0.9393 0.6018 0.644 0.356
#> SRR1026965 1 0.9170 0.6398 0.668 0.332
#> SRR1026966 1 0.0000 0.8747 1.000 0.000
#> SRR1026967 1 0.0000 0.8747 1.000 0.000
#> SRR1026968 2 0.1414 0.9207 0.020 0.980
#> SRR1026969 1 0.9427 0.5892 0.640 0.360
#> SRR1026970 1 0.8608 0.7034 0.716 0.284
#> SRR1026971 1 0.8763 0.6893 0.704 0.296
#> SRR1026972 1 0.8608 0.7034 0.716 0.284
#> SRR1026973 1 0.8661 0.6990 0.712 0.288
#> SRR1026974 1 0.7219 0.7805 0.800 0.200
#> SRR1026975 1 0.5842 0.8159 0.860 0.140
#> SRR1026976 1 0.8267 0.7289 0.740 0.260
#> SRR1026977 1 0.8499 0.7125 0.724 0.276
#> SRR1026978 1 0.8861 0.6788 0.696 0.304
#> SRR1026979 1 0.0000 0.8747 1.000 0.000
#> SRR1026980 1 0.9000 0.6470 0.684 0.316
#> SRR1026981 1 0.0000 0.8747 1.000 0.000
#> SRR1026982 1 0.9933 0.3847 0.548 0.452
#> SRR1026983 1 0.9933 0.3835 0.548 0.452
#> SRR1026984 2 0.1414 0.9207 0.020 0.980
#> SRR1026985 2 0.1414 0.9207 0.020 0.980
#> SRR1026986 1 0.9460 0.5872 0.636 0.364
#> SRR1026987 1 0.1184 0.8707 0.984 0.016
#> SRR1026988 1 0.0000 0.8747 1.000 0.000
#> SRR1026989 1 0.0000 0.8747 1.000 0.000
#> SRR1026990 1 0.8861 0.6788 0.696 0.304
#> SRR1026991 1 0.0000 0.8747 1.000 0.000
#> SRR1026992 1 0.0000 0.8747 1.000 0.000
#> SRR1026993 1 0.0938 0.8719 0.988 0.012
#> SRR1026994 1 0.8813 0.6848 0.700 0.300
#> SRR1026995 1 0.1633 0.8669 0.976 0.024
#> SRR1026996 1 0.8555 0.7080 0.720 0.280
#> SRR1026997 1 0.8608 0.7034 0.716 0.284
#> SRR1026998 1 0.0000 0.8747 1.000 0.000
#> SRR1026999 1 0.0000 0.8747 1.000 0.000
#> SRR1027000 1 0.0000 0.8747 1.000 0.000
#> SRR1027001 1 0.0000 0.8747 1.000 0.000
#> SRR1027002 2 0.9209 0.4066 0.336 0.664
#> SRR1027003 1 0.7602 0.7669 0.780 0.220
#> SRR1027004 1 0.1184 0.8707 0.984 0.016
#> SRR1027005 1 0.0000 0.8747 1.000 0.000
#> SRR1027006 1 0.0000 0.8747 1.000 0.000
#> SRR1027007 1 0.8081 0.7405 0.752 0.248
#> SRR1027008 1 0.4815 0.8344 0.896 0.104
#> SRR1027009 1 0.0000 0.8747 1.000 0.000
#> SRR1027010 1 0.0000 0.8747 1.000 0.000
#> SRR1027011 1 0.0000 0.8747 1.000 0.000
#> SRR1177668 1 0.0000 0.8747 1.000 0.000
#> SRR1177667 1 0.0000 0.8747 1.000 0.000
#> SRR1177669 1 0.0000 0.8747 1.000 0.000
#> SRR1177670 1 0.0000 0.8747 1.000 0.000
#> SRR1177671 2 0.0000 0.9295 0.000 1.000
#> SRR1177672 1 0.0000 0.8747 1.000 0.000
#> SRR1177673 1 0.0000 0.8747 1.000 0.000
#> SRR1177674 1 0.0000 0.8747 1.000 0.000
#> SRR1177675 1 0.0000 0.8747 1.000 0.000
#> SRR1177676 1 0.0000 0.8747 1.000 0.000
#> SRR1177677 1 0.0000 0.8747 1.000 0.000
#> SRR1177678 1 0.0000 0.8747 1.000 0.000
#> SRR1177679 2 0.0672 0.9268 0.008 0.992
#> SRR1177680 2 0.9000 0.4859 0.316 0.684
#> SRR1177681 1 0.0672 0.8718 0.992 0.008
#> SRR1177682 1 0.0000 0.8747 1.000 0.000
#> SRR1177683 2 0.0000 0.9295 0.000 1.000
#> SRR1177684 2 0.0000 0.9295 0.000 1.000
#> SRR1177685 1 0.0000 0.8747 1.000 0.000
#> SRR1177686 1 0.0000 0.8747 1.000 0.000
#> SRR1177687 2 0.9963 -0.0268 0.464 0.536
#> SRR1177688 1 0.0000 0.8747 1.000 0.000
#> SRR1177689 1 0.4562 0.8388 0.904 0.096
#> SRR1177690 1 0.0000 0.8747 1.000 0.000
#> SRR1177691 2 0.0376 0.9294 0.004 0.996
#> SRR1177692 1 0.8443 0.7190 0.728 0.272
#> SRR1177693 2 0.0376 0.9290 0.004 0.996
#> SRR1177694 2 0.1633 0.9176 0.024 0.976
#> SRR1177695 1 0.6801 0.7932 0.820 0.180
#> SRR1177697 1 0.7602 0.7670 0.780 0.220
#> SRR1177696 1 0.0000 0.8747 1.000 0.000
#> SRR1177698 1 0.0000 0.8747 1.000 0.000
#> SRR1177700 1 0.2603 0.8607 0.956 0.044
#> SRR1177701 1 0.8555 0.7083 0.720 0.280
#> SRR1177702 1 0.0000 0.8747 1.000 0.000
#> SRR1177703 1 0.7056 0.7853 0.808 0.192
#> SRR1177704 1 0.2778 0.8591 0.952 0.048
#> SRR1177705 1 0.6438 0.8024 0.836 0.164
#> SRR1177706 1 0.8499 0.7140 0.724 0.276
#> SRR1177707 1 0.7950 0.7477 0.760 0.240
#> SRR1177708 1 0.0000 0.8747 1.000 0.000
#> SRR1177709 1 0.0000 0.8747 1.000 0.000
#> SRR1177710 1 0.0000 0.8747 1.000 0.000
#> SRR1177711 1 0.0000 0.8747 1.000 0.000
#> SRR1177712 1 0.0000 0.8747 1.000 0.000
#> SRR1177714 2 0.0000 0.9295 0.000 1.000
#> SRR1177713 1 0.0000 0.8747 1.000 0.000
#> SRR1177715 2 0.7602 0.6859 0.220 0.780
#> SRR1177716 1 0.0000 0.8747 1.000 0.000
#> SRR1177717 1 0.0376 0.8738 0.996 0.004
#> SRR1177718 1 0.0000 0.8747 1.000 0.000
#> SRR1177719 1 0.0376 0.8739 0.996 0.004
#> SRR1177720 1 0.0376 0.8734 0.996 0.004
#> SRR1177721 2 0.0000 0.9295 0.000 1.000
#> SRR1177722 2 0.0000 0.9295 0.000 1.000
#> SRR1177723 1 0.0938 0.8702 0.988 0.012
#> SRR1177725 1 0.0000 0.8747 1.000 0.000
#> SRR1177724 1 0.0000 0.8747 1.000 0.000
#> SRR1177726 1 0.0000 0.8747 1.000 0.000
#> SRR1177727 1 0.0000 0.8747 1.000 0.000
#> SRR1177728 1 0.0000 0.8747 1.000 0.000
#> SRR1177729 1 0.0000 0.8747 1.000 0.000
#> SRR1177730 1 0.0000 0.8747 1.000 0.000
#> SRR1177731 1 0.0000 0.8747 1.000 0.000
#> SRR1177732 1 0.0000 0.8747 1.000 0.000
#> SRR1177733 1 0.2423 0.8621 0.960 0.040
#> SRR1177734 1 0.0000 0.8747 1.000 0.000
#> SRR1177735 1 0.7453 0.7716 0.788 0.212
#> SRR1177736 1 0.0000 0.8747 1.000 0.000
#> SRR1177737 2 0.0376 0.9294 0.004 0.996
#> SRR1177738 1 0.8386 0.7211 0.732 0.268
#> SRR1177739 1 0.0000 0.8747 1.000 0.000
#> SRR1177740 1 0.0000 0.8747 1.000 0.000
#> SRR1177741 1 0.0000 0.8747 1.000 0.000
#> SRR1177742 1 0.0000 0.8747 1.000 0.000
#> SRR1177743 1 0.0000 0.8747 1.000 0.000
#> SRR1177744 1 0.0000 0.8747 1.000 0.000
#> SRR1177745 2 0.5408 0.8250 0.124 0.876
#> SRR1177746 2 0.7376 0.6998 0.208 0.792
#> SRR1177747 1 0.0000 0.8747 1.000 0.000
#> SRR1177748 1 0.0000 0.8747 1.000 0.000
#> SRR1177749 1 0.0000 0.8747 1.000 0.000
#> SRR1177750 1 0.0000 0.8747 1.000 0.000
#> SRR1177751 1 0.6531 0.8012 0.832 0.168
#> SRR1177752 1 0.0000 0.8747 1.000 0.000
#> SRR1177753 1 0.0000 0.8747 1.000 0.000
#> SRR1177754 1 0.0000 0.8747 1.000 0.000
#> SRR1177755 1 0.7056 0.7873 0.808 0.192
#> SRR1177756 1 0.7219 0.7814 0.800 0.200
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0237 0.8791 0.004 0.996 0.000
#> SRR1026871 2 0.0237 0.8791 0.004 0.996 0.000
#> SRR1026872 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026874 3 0.5016 0.6890 0.240 0.000 0.760
#> SRR1026875 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1026878 3 0.0237 0.9104 0.004 0.000 0.996
#> SRR1026879 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026880 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026881 2 0.0747 0.8733 0.016 0.984 0.000
#> SRR1026882 2 0.0424 0.8775 0.008 0.992 0.000
#> SRR1026883 2 0.6308 -0.1043 0.492 0.508 0.000
#> SRR1026884 2 0.6307 -0.0904 0.488 0.512 0.000
#> SRR1026885 1 0.4555 0.7662 0.800 0.200 0.000
#> SRR1026886 1 0.4504 0.7697 0.804 0.196 0.000
#> SRR1026887 3 0.6286 0.0592 0.464 0.000 0.536
#> SRR1026888 3 0.6274 0.0844 0.456 0.000 0.544
#> SRR1026889 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026890 1 0.8016 0.6390 0.656 0.188 0.156
#> SRR1026891 1 0.6361 0.6639 0.728 0.040 0.232
#> SRR1026892 1 0.4397 0.8094 0.856 0.028 0.116
#> SRR1026893 3 0.0237 0.9104 0.004 0.000 0.996
#> SRR1026894 3 0.0237 0.9104 0.004 0.000 0.996
#> SRR1026895 1 0.5967 0.7315 0.752 0.216 0.032
#> SRR1026896 1 0.7474 0.6681 0.684 0.216 0.100
#> SRR1026897 3 0.5216 0.6556 0.260 0.000 0.740
#> SRR1026898 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026899 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026900 1 0.2796 0.8429 0.908 0.092 0.000
#> SRR1026901 1 0.4805 0.7862 0.812 0.176 0.012
#> SRR1026902 1 0.4291 0.7844 0.820 0.180 0.000
#> SRR1026903 1 0.4002 0.8004 0.840 0.160 0.000
#> SRR1026904 1 0.5012 0.7588 0.788 0.204 0.008
#> SRR1026905 1 0.4733 0.7689 0.800 0.196 0.004
#> SRR1026906 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026910 1 0.6305 0.1645 0.516 0.484 0.000
#> SRR1026911 1 0.6308 0.1366 0.508 0.492 0.000
#> SRR1026912 1 0.8509 0.2837 0.512 0.096 0.392
#> SRR1026913 1 0.8362 0.3121 0.528 0.088 0.384
#> SRR1026914 2 0.0237 0.8791 0.004 0.996 0.000
#> SRR1026915 2 0.0237 0.8791 0.004 0.996 0.000
#> SRR1026916 2 0.0237 0.8791 0.004 0.996 0.000
#> SRR1026917 2 0.0237 0.8791 0.004 0.996 0.000
#> SRR1026918 2 0.6225 0.1261 0.432 0.568 0.000
#> SRR1026919 2 0.6026 0.3009 0.376 0.624 0.000
#> SRR1026920 2 0.2356 0.8254 0.072 0.928 0.000
#> SRR1026921 2 0.2165 0.8335 0.064 0.936 0.000
#> SRR1026922 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026923 2 0.0424 0.8776 0.008 0.992 0.000
#> SRR1026924 2 0.6215 0.1390 0.428 0.572 0.000
#> SRR1026925 3 0.6286 0.6884 0.136 0.092 0.772
#> SRR1026926 1 0.6309 0.1228 0.504 0.496 0.000
#> SRR1026927 1 0.0592 0.8729 0.988 0.012 0.000
#> SRR1026928 2 0.1529 0.8553 0.040 0.960 0.000
#> SRR1026929 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1026930 2 0.0892 0.8709 0.020 0.980 0.000
#> SRR1026931 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026936 1 0.6302 0.1816 0.520 0.480 0.000
#> SRR1026937 1 0.6308 0.1398 0.508 0.492 0.000
#> SRR1026938 2 0.0237 0.8791 0.004 0.996 0.000
#> SRR1026939 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026940 1 0.0237 0.8734 0.996 0.004 0.000
#> SRR1026941 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1026942 1 0.0424 0.8732 0.992 0.008 0.000
#> SRR1026943 1 0.1643 0.8630 0.956 0.044 0.000
#> SRR1026944 1 0.0237 0.8735 0.996 0.004 0.000
#> SRR1026945 3 0.4452 0.7481 0.192 0.000 0.808
#> SRR1026947 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026949 1 0.4062 0.8010 0.836 0.164 0.000
#> SRR1026950 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026951 1 0.1753 0.8617 0.952 0.048 0.000
#> SRR1026952 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1026954 1 0.4002 0.7996 0.840 0.160 0.000
#> SRR1026955 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026956 1 0.1753 0.8625 0.952 0.048 0.000
#> SRR1026957 2 0.1753 0.8460 0.048 0.952 0.000
#> SRR1026958 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1026960 2 0.6295 -0.0256 0.472 0.528 0.000
#> SRR1026961 1 0.6309 0.1245 0.504 0.496 0.000
#> SRR1026962 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026964 1 0.5397 0.6736 0.720 0.280 0.000
#> SRR1026965 1 0.5098 0.7148 0.752 0.248 0.000
#> SRR1026966 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1026968 2 0.0892 0.8709 0.020 0.980 0.000
#> SRR1026969 1 0.5733 0.5805 0.676 0.324 0.000
#> SRR1026970 1 0.4504 0.7697 0.804 0.196 0.000
#> SRR1026971 1 0.4504 0.7704 0.804 0.196 0.000
#> SRR1026972 1 0.4346 0.7809 0.816 0.184 0.000
#> SRR1026973 1 0.4346 0.7815 0.816 0.184 0.000
#> SRR1026974 1 0.1163 0.8683 0.972 0.028 0.000
#> SRR1026975 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026976 1 0.4002 0.8005 0.840 0.160 0.000
#> SRR1026977 1 0.4121 0.7944 0.832 0.168 0.000
#> SRR1026978 1 0.4346 0.7833 0.816 0.184 0.000
#> SRR1026979 3 0.0237 0.9104 0.004 0.000 0.996
#> SRR1026980 1 0.4452 0.7774 0.808 0.192 0.000
#> SRR1026981 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1026982 2 0.6302 -0.0609 0.480 0.520 0.000
#> SRR1026983 2 0.6305 -0.0760 0.484 0.516 0.000
#> SRR1026984 2 0.0892 0.8709 0.020 0.980 0.000
#> SRR1026985 2 0.0892 0.8709 0.020 0.980 0.000
#> SRR1026986 1 0.4291 0.7837 0.820 0.180 0.000
#> SRR1026987 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026988 1 0.0747 0.8673 0.984 0.000 0.016
#> SRR1026989 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1026990 1 0.4750 0.7503 0.784 0.216 0.000
#> SRR1026991 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1026994 1 0.4702 0.7549 0.788 0.212 0.000
#> SRR1026995 1 0.1529 0.8649 0.960 0.040 0.000
#> SRR1026996 1 0.4504 0.7697 0.804 0.196 0.000
#> SRR1026997 1 0.4504 0.7697 0.804 0.196 0.000
#> SRR1026998 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1027000 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1027001 1 0.6305 0.1012 0.516 0.000 0.484
#> SRR1027002 1 0.6225 0.2652 0.568 0.432 0.000
#> SRR1027003 1 0.2625 0.8472 0.916 0.084 0.000
#> SRR1027004 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1027006 1 0.0424 0.8704 0.992 0.000 0.008
#> SRR1027007 1 0.2711 0.8449 0.912 0.088 0.000
#> SRR1027008 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1027010 1 0.6095 0.3055 0.608 0.000 0.392
#> SRR1027011 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177668 1 0.4399 0.7258 0.812 0.000 0.188
#> SRR1177667 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177669 1 0.0237 0.8726 0.996 0.000 0.004
#> SRR1177670 3 0.1411 0.8863 0.036 0.000 0.964
#> SRR1177671 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1177672 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177673 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177674 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177676 3 0.4974 0.7066 0.236 0.000 0.764
#> SRR1177677 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177679 2 0.0424 0.8758 0.008 0.992 0.000
#> SRR1177680 1 0.6274 0.1487 0.544 0.456 0.000
#> SRR1177681 1 0.0424 0.8733 0.992 0.008 0.000
#> SRR1177682 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177683 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177687 1 0.5988 0.4591 0.632 0.368 0.000
#> SRR1177688 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177689 1 0.0592 0.8724 0.988 0.012 0.000
#> SRR1177690 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177691 2 0.0237 0.8791 0.004 0.996 0.000
#> SRR1177692 1 0.3686 0.8156 0.860 0.140 0.000
#> SRR1177693 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1177694 2 0.0892 0.8705 0.020 0.980 0.000
#> SRR1177695 1 0.0424 0.8725 0.992 0.008 0.000
#> SRR1177697 1 0.1411 0.8667 0.964 0.036 0.000
#> SRR1177696 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177698 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177700 1 0.0592 0.8729 0.988 0.012 0.000
#> SRR1177701 1 0.3619 0.8179 0.864 0.136 0.000
#> SRR1177702 1 0.6045 0.3901 0.620 0.000 0.380
#> SRR1177703 1 0.0892 0.8704 0.980 0.020 0.000
#> SRR1177704 1 0.5553 0.6117 0.724 0.004 0.272
#> SRR1177705 1 0.0237 0.8736 0.996 0.004 0.000
#> SRR1177706 1 0.3686 0.8170 0.860 0.140 0.000
#> SRR1177707 1 0.1411 0.8662 0.964 0.036 0.000
#> SRR1177708 1 0.0424 0.8734 0.992 0.008 0.000
#> SRR1177709 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177710 3 0.6126 0.3486 0.400 0.000 0.600
#> SRR1177711 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177712 1 0.2096 0.8535 0.944 0.004 0.052
#> SRR1177714 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1177713 1 0.1031 0.8667 0.976 0.000 0.024
#> SRR1177715 2 0.6192 0.2715 0.420 0.580 0.000
#> SRR1177716 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177720 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.8792 0.000 1.000 0.000
#> SRR1177723 1 0.0237 0.8731 0.996 0.004 0.000
#> SRR1177725 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177727 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177728 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177730 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177731 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177732 1 0.0237 0.8726 0.996 0.000 0.004
#> SRR1177733 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177735 1 0.2959 0.8366 0.900 0.100 0.000
#> SRR1177736 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177737 2 0.0237 0.8791 0.004 0.996 0.000
#> SRR1177738 1 0.8665 0.2883 0.508 0.108 0.384
#> SRR1177739 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177741 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177742 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177743 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177744 1 0.4931 0.6652 0.768 0.000 0.232
#> SRR1177745 2 0.3267 0.7879 0.116 0.884 0.000
#> SRR1177746 2 0.6252 0.2085 0.444 0.556 0.000
#> SRR1177747 1 0.4291 0.7358 0.820 0.000 0.180
#> SRR1177748 3 0.0000 0.9129 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177751 1 0.0237 0.8731 0.996 0.004 0.000
#> SRR1177752 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.8733 1.000 0.000 0.000
#> SRR1177754 1 0.0237 0.8726 0.996 0.000 0.004
#> SRR1177755 1 0.0592 0.8728 0.988 0.012 0.000
#> SRR1177756 1 0.1163 0.8691 0.972 0.028 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 4 0.4222 0.59161 0.000 0.272 0.000 0.728
#> SRR1026871 4 0.4222 0.59122 0.000 0.272 0.000 0.728
#> SRR1026872 4 0.4356 0.57990 0.000 0.292 0.000 0.708
#> SRR1026873 1 0.2081 0.81930 0.916 0.000 0.000 0.084
#> SRR1026874 3 0.5304 0.67103 0.148 0.000 0.748 0.104
#> SRR1026875 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026876 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026877 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1026878 3 0.0188 0.88829 0.004 0.000 0.996 0.000
#> SRR1026879 1 0.2530 0.81250 0.888 0.000 0.000 0.112
#> SRR1026880 1 0.2345 0.82119 0.900 0.000 0.000 0.100
#> SRR1026881 4 0.4072 0.60921 0.000 0.252 0.000 0.748
#> SRR1026882 4 0.4072 0.60921 0.000 0.252 0.000 0.748
#> SRR1026883 4 0.2589 0.72522 0.116 0.000 0.000 0.884
#> SRR1026884 4 0.2773 0.72648 0.116 0.004 0.000 0.880
#> SRR1026885 4 0.2760 0.71909 0.128 0.000 0.000 0.872
#> SRR1026886 4 0.2814 0.71663 0.132 0.000 0.000 0.868
#> SRR1026887 3 0.7330 0.21620 0.304 0.000 0.512 0.184
#> SRR1026888 3 0.7307 0.25770 0.284 0.000 0.524 0.192
#> SRR1026889 4 0.4843 0.47789 0.000 0.396 0.000 0.604
#> SRR1026890 4 0.2760 0.71909 0.128 0.000 0.000 0.872
#> SRR1026891 4 0.7179 -0.13550 0.408 0.000 0.136 0.456
#> SRR1026892 1 0.6792 0.29907 0.476 0.000 0.096 0.428
#> SRR1026893 3 0.0188 0.88829 0.004 0.000 0.996 0.000
#> SRR1026894 3 0.0188 0.88829 0.004 0.000 0.996 0.000
#> SRR1026895 4 0.1930 0.73941 0.056 0.004 0.004 0.936
#> SRR1026896 4 0.1576 0.73763 0.048 0.004 0.000 0.948
#> SRR1026897 3 0.5507 0.65282 0.156 0.000 0.732 0.112
#> SRR1026898 1 0.0000 0.82534 1.000 0.000 0.000 0.000
#> SRR1026899 1 0.0469 0.82931 0.988 0.000 0.000 0.012
#> SRR1026900 1 0.5080 0.30681 0.576 0.004 0.000 0.420
#> SRR1026901 4 0.5080 0.22728 0.420 0.004 0.000 0.576
#> SRR1026902 4 0.2868 0.71394 0.136 0.000 0.000 0.864
#> SRR1026903 4 0.3172 0.69245 0.160 0.000 0.000 0.840
#> SRR1026904 4 0.2944 0.72091 0.128 0.004 0.000 0.868
#> SRR1026905 4 0.2973 0.70897 0.144 0.000 0.000 0.856
#> SRR1026906 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026907 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026908 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026909 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026910 4 0.3105 0.71337 0.140 0.004 0.000 0.856
#> SRR1026911 4 0.3351 0.70802 0.148 0.008 0.000 0.844
#> SRR1026912 4 0.6730 0.47963 0.132 0.000 0.276 0.592
#> SRR1026913 4 0.7271 0.40367 0.216 0.000 0.244 0.540
#> SRR1026914 4 0.4072 0.60921 0.000 0.252 0.000 0.748
#> SRR1026915 4 0.4072 0.60921 0.000 0.252 0.000 0.748
#> SRR1026916 4 0.4072 0.60921 0.000 0.252 0.000 0.748
#> SRR1026917 4 0.4072 0.60921 0.000 0.252 0.000 0.748
#> SRR1026918 4 0.3796 0.74068 0.096 0.056 0.000 0.848
#> SRR1026919 4 0.4591 0.73451 0.116 0.084 0.000 0.800
#> SRR1026920 4 0.4319 0.63817 0.012 0.228 0.000 0.760
#> SRR1026921 4 0.3870 0.64513 0.004 0.208 0.000 0.788
#> SRR1026922 2 0.2921 0.83444 0.000 0.860 0.000 0.140
#> SRR1026923 4 0.4867 0.61488 0.032 0.232 0.000 0.736
#> SRR1026924 4 0.1929 0.72901 0.024 0.036 0.000 0.940
#> SRR1026925 3 0.5105 0.16706 0.004 0.000 0.564 0.432
#> SRR1026926 4 0.3074 0.69969 0.152 0.000 0.000 0.848
#> SRR1026927 1 0.4250 0.70684 0.724 0.000 0.000 0.276
#> SRR1026928 4 0.4088 0.62942 0.004 0.232 0.000 0.764
#> SRR1026929 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1026930 4 0.4516 0.61090 0.012 0.252 0.000 0.736
#> SRR1026931 2 0.1637 0.92271 0.000 0.940 0.000 0.060
#> SRR1026932 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026933 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026934 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026935 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026936 4 0.2944 0.72091 0.128 0.004 0.000 0.868
#> SRR1026937 4 0.2944 0.72091 0.128 0.004 0.000 0.868
#> SRR1026938 4 0.4585 0.51328 0.000 0.332 0.000 0.668
#> SRR1026939 4 0.4992 0.17639 0.000 0.476 0.000 0.524
#> SRR1026940 1 0.3726 0.76197 0.788 0.000 0.000 0.212
#> SRR1026941 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.4072 0.72456 0.748 0.000 0.000 0.252
#> SRR1026943 1 0.4103 0.72075 0.744 0.000 0.000 0.256
#> SRR1026944 1 0.3726 0.75809 0.788 0.000 0.000 0.212
#> SRR1026945 3 0.4718 0.71542 0.116 0.000 0.792 0.092
#> SRR1026947 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026946 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026948 2 0.0817 0.96560 0.000 0.976 0.000 0.024
#> SRR1026949 1 0.4936 0.46859 0.672 0.012 0.000 0.316
#> SRR1026950 1 0.2814 0.80331 0.868 0.000 0.000 0.132
#> SRR1026951 1 0.4877 0.41924 0.592 0.000 0.000 0.408
#> SRR1026952 1 0.2469 0.81277 0.892 0.000 0.000 0.108
#> SRR1026953 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.2530 0.72565 0.112 0.000 0.000 0.888
#> SRR1026955 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026956 1 0.4776 0.56530 0.624 0.000 0.000 0.376
#> SRR1026957 4 0.4011 0.64821 0.008 0.208 0.000 0.784
#> SRR1026958 1 0.2760 0.81130 0.872 0.000 0.000 0.128
#> SRR1026959 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.1209 0.73032 0.032 0.004 0.000 0.964
#> SRR1026961 4 0.1022 0.73261 0.032 0.000 0.000 0.968
#> SRR1026962 1 0.3444 0.76861 0.816 0.000 0.000 0.184
#> SRR1026963 1 0.3610 0.76845 0.800 0.000 0.000 0.200
#> SRR1026964 4 0.2002 0.72464 0.020 0.044 0.000 0.936
#> SRR1026965 4 0.1297 0.72952 0.020 0.016 0.000 0.964
#> SRR1026966 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.4072 0.60921 0.000 0.252 0.000 0.748
#> SRR1026969 4 0.1978 0.73481 0.068 0.004 0.000 0.928
#> SRR1026970 4 0.3123 0.69639 0.156 0.000 0.000 0.844
#> SRR1026971 4 0.3355 0.70022 0.160 0.004 0.000 0.836
#> SRR1026972 4 0.3074 0.69969 0.152 0.000 0.000 0.848
#> SRR1026973 4 0.3219 0.69002 0.164 0.000 0.000 0.836
#> SRR1026974 1 0.4948 0.41499 0.560 0.000 0.000 0.440
#> SRR1026975 1 0.4164 0.71624 0.736 0.000 0.000 0.264
#> SRR1026976 4 0.3219 0.68912 0.164 0.000 0.000 0.836
#> SRR1026977 4 0.2921 0.71078 0.140 0.000 0.000 0.860
#> SRR1026978 4 0.5163 0.10259 0.480 0.004 0.000 0.516
#> SRR1026979 3 0.0188 0.88829 0.004 0.000 0.996 0.000
#> SRR1026980 4 0.4872 0.46094 0.356 0.004 0.000 0.640
#> SRR1026981 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1026982 4 0.0779 0.72886 0.016 0.004 0.000 0.980
#> SRR1026983 4 0.0779 0.72886 0.016 0.004 0.000 0.980
#> SRR1026984 4 0.4040 0.61223 0.000 0.248 0.000 0.752
#> SRR1026985 4 0.4040 0.61223 0.000 0.248 0.000 0.752
#> SRR1026986 1 0.5097 0.27026 0.568 0.004 0.000 0.428
#> SRR1026987 1 0.0707 0.83069 0.980 0.000 0.000 0.020
#> SRR1026988 1 0.2089 0.82882 0.932 0.000 0.020 0.048
#> SRR1026989 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1026990 4 0.2999 0.71920 0.132 0.004 0.000 0.864
#> SRR1026991 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1026992 1 0.1022 0.83281 0.968 0.000 0.000 0.032
#> SRR1026993 1 0.1302 0.83042 0.956 0.000 0.000 0.044
#> SRR1026994 4 0.4252 0.66307 0.252 0.004 0.000 0.744
#> SRR1026995 1 0.3219 0.78971 0.836 0.000 0.000 0.164
#> SRR1026996 4 0.3074 0.69969 0.152 0.000 0.000 0.848
#> SRR1026997 4 0.3024 0.70370 0.148 0.000 0.000 0.852
#> SRR1026998 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1027000 1 0.0336 0.82594 0.992 0.000 0.000 0.008
#> SRR1027001 3 0.7545 -0.00742 0.368 0.000 0.440 0.192
#> SRR1027002 1 0.4978 0.32099 0.612 0.004 0.000 0.384
#> SRR1027003 1 0.2999 0.78341 0.864 0.004 0.000 0.132
#> SRR1027004 1 0.0707 0.83208 0.980 0.000 0.000 0.020
#> SRR1027005 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1027006 1 0.1256 0.83179 0.964 0.000 0.008 0.028
#> SRR1027007 1 0.4948 0.14698 0.560 0.000 0.000 0.440
#> SRR1027008 1 0.0000 0.82534 1.000 0.000 0.000 0.000
#> SRR1027009 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1027010 1 0.4277 0.52811 0.720 0.000 0.280 0.000
#> SRR1027011 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177668 1 0.6946 0.57328 0.588 0.000 0.200 0.212
#> SRR1177667 1 0.1637 0.82927 0.940 0.000 0.000 0.060
#> SRR1177669 1 0.1902 0.82716 0.932 0.000 0.004 0.064
#> SRR1177670 3 0.1867 0.82602 0.072 0.000 0.928 0.000
#> SRR1177671 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177673 1 0.0469 0.82879 0.988 0.000 0.000 0.012
#> SRR1177674 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177675 1 0.0000 0.82534 1.000 0.000 0.000 0.000
#> SRR1177676 3 0.5807 0.42494 0.344 0.000 0.612 0.044
#> SRR1177677 1 0.0000 0.82534 1.000 0.000 0.000 0.000
#> SRR1177678 1 0.0000 0.82534 1.000 0.000 0.000 0.000
#> SRR1177679 2 0.0336 0.97761 0.008 0.992 0.000 0.000
#> SRR1177680 1 0.6007 0.36577 0.604 0.056 0.000 0.340
#> SRR1177681 1 0.0707 0.82949 0.980 0.000 0.000 0.020
#> SRR1177682 1 0.0336 0.82842 0.992 0.000 0.000 0.008
#> SRR1177683 4 0.4898 0.42531 0.000 0.416 0.000 0.584
#> SRR1177684 4 0.4304 0.58423 0.000 0.284 0.000 0.716
#> SRR1177685 1 0.0469 0.82879 0.988 0.000 0.000 0.012
#> SRR1177686 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177687 4 0.5110 0.53713 0.352 0.012 0.000 0.636
#> SRR1177688 1 0.0336 0.82786 0.992 0.000 0.000 0.008
#> SRR1177689 1 0.1302 0.82374 0.956 0.000 0.000 0.044
#> SRR1177690 1 0.0000 0.82534 1.000 0.000 0.000 0.000
#> SRR1177691 4 0.4401 0.59024 0.004 0.272 0.000 0.724
#> SRR1177692 4 0.5112 0.34865 0.436 0.004 0.000 0.560
#> SRR1177693 4 0.4872 0.52834 0.004 0.356 0.000 0.640
#> SRR1177694 4 0.4072 0.61463 0.000 0.252 0.000 0.748
#> SRR1177695 1 0.1389 0.81262 0.952 0.000 0.000 0.048
#> SRR1177697 1 0.1716 0.82828 0.936 0.000 0.000 0.064
#> SRR1177696 1 0.1557 0.82846 0.944 0.000 0.000 0.056
#> SRR1177698 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177700 1 0.2868 0.81031 0.864 0.000 0.000 0.136
#> SRR1177701 4 0.4564 0.37144 0.328 0.000 0.000 0.672
#> SRR1177702 1 0.7770 0.22574 0.416 0.000 0.336 0.248
#> SRR1177703 1 0.4585 0.63636 0.668 0.000 0.000 0.332
#> SRR1177704 1 0.7050 0.55834 0.564 0.000 0.172 0.264
#> SRR1177705 1 0.2973 0.80490 0.856 0.000 0.000 0.144
#> SRR1177706 1 0.5158 0.03451 0.524 0.004 0.000 0.472
#> SRR1177707 1 0.5155 0.33373 0.528 0.004 0.000 0.468
#> SRR1177708 1 0.4277 0.70320 0.720 0.000 0.000 0.280
#> SRR1177709 1 0.1637 0.82875 0.940 0.000 0.000 0.060
#> SRR1177710 1 0.5269 0.40890 0.620 0.000 0.364 0.016
#> SRR1177711 1 0.0921 0.83271 0.972 0.000 0.000 0.028
#> SRR1177712 1 0.5472 0.67442 0.676 0.000 0.044 0.280
#> SRR1177714 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1177713 1 0.4748 0.70683 0.716 0.000 0.016 0.268
#> SRR1177715 1 0.6298 0.45293 0.632 0.100 0.000 0.268
#> SRR1177716 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.0921 0.83192 0.972 0.000 0.000 0.028
#> SRR1177718 1 0.0817 0.83243 0.976 0.000 0.000 0.024
#> SRR1177719 1 0.2760 0.80484 0.872 0.000 0.000 0.128
#> SRR1177720 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177721 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.98745 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.0188 0.82482 0.996 0.000 0.000 0.004
#> SRR1177725 1 0.0000 0.82534 1.000 0.000 0.000 0.000
#> SRR1177724 1 0.0592 0.83023 0.984 0.000 0.000 0.016
#> SRR1177726 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.2868 0.80169 0.864 0.000 0.000 0.136
#> SRR1177728 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.0188 0.82699 0.996 0.000 0.000 0.004
#> SRR1177730 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177731 1 0.0469 0.82879 0.988 0.000 0.000 0.012
#> SRR1177732 1 0.2053 0.82833 0.924 0.000 0.004 0.072
#> SRR1177733 1 0.1792 0.83183 0.932 0.000 0.000 0.068
#> SRR1177734 1 0.2081 0.82352 0.916 0.000 0.000 0.084
#> SRR1177735 4 0.5000 -0.03877 0.500 0.000 0.000 0.500
#> SRR1177736 1 0.3486 0.77376 0.812 0.000 0.000 0.188
#> SRR1177737 4 0.4356 0.56968 0.000 0.292 0.000 0.708
#> SRR1177738 4 0.6674 0.45699 0.116 0.000 0.300 0.584
#> SRR1177739 1 0.1637 0.83232 0.940 0.000 0.000 0.060
#> SRR1177740 1 0.1867 0.82955 0.928 0.000 0.000 0.072
#> SRR1177741 1 0.1474 0.82979 0.948 0.000 0.000 0.052
#> SRR1177742 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.0592 0.83011 0.984 0.000 0.000 0.016
#> SRR1177744 1 0.6874 0.41627 0.568 0.000 0.296 0.136
#> SRR1177745 4 0.5972 0.66142 0.132 0.176 0.000 0.692
#> SRR1177746 1 0.5884 0.32537 0.592 0.044 0.000 0.364
#> SRR1177747 1 0.6739 0.57147 0.612 0.000 0.216 0.172
#> SRR1177748 3 0.0000 0.89094 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0000 0.82534 1.000 0.000 0.000 0.000
#> SRR1177750 1 0.0000 0.82534 1.000 0.000 0.000 0.000
#> SRR1177751 1 0.1211 0.81278 0.960 0.000 0.000 0.040
#> SRR1177752 1 0.2149 0.82226 0.912 0.000 0.000 0.088
#> SRR1177753 1 0.0469 0.82879 0.988 0.000 0.000 0.012
#> SRR1177754 1 0.1824 0.82784 0.936 0.000 0.004 0.060
#> SRR1177755 1 0.1022 0.81933 0.968 0.000 0.000 0.032
#> SRR1177756 1 0.1302 0.83063 0.956 0.000 0.000 0.044
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.1764 0.67890 0.000 0.928 0.000 0.008 0.064
#> SRR1026871 2 0.1725 0.68723 0.000 0.936 0.000 0.020 0.044
#> SRR1026872 2 0.2660 0.64582 0.000 0.864 0.000 0.008 0.128
#> SRR1026873 1 0.2605 0.69655 0.852 0.000 0.000 0.148 0.000
#> SRR1026874 3 0.4629 0.63787 0.052 0.000 0.704 0.244 0.000
#> SRR1026875 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026876 5 0.0290 0.97278 0.000 0.008 0.000 0.000 0.992
#> SRR1026877 3 0.3586 0.80528 0.000 0.000 0.736 0.264 0.000
#> SRR1026878 3 0.3534 0.80972 0.000 0.000 0.744 0.256 0.000
#> SRR1026879 1 0.3424 0.63014 0.760 0.000 0.000 0.240 0.000
#> SRR1026880 1 0.2929 0.67501 0.820 0.000 0.000 0.180 0.000
#> SRR1026881 2 0.0963 0.69342 0.000 0.964 0.000 0.036 0.000
#> SRR1026882 2 0.0880 0.69426 0.000 0.968 0.000 0.032 0.000
#> SRR1026883 4 0.4440 0.08827 0.004 0.468 0.000 0.528 0.000
#> SRR1026884 4 0.4446 0.06288 0.004 0.476 0.000 0.520 0.000
#> SRR1026885 4 0.4437 0.10684 0.004 0.464 0.000 0.532 0.000
#> SRR1026886 4 0.4430 0.12061 0.004 0.456 0.000 0.540 0.000
#> SRR1026887 4 0.5440 0.19025 0.156 0.000 0.184 0.660 0.000
#> SRR1026888 4 0.5200 0.24000 0.152 0.000 0.160 0.688 0.000
#> SRR1026889 2 0.4977 0.44845 0.000 0.604 0.000 0.040 0.356
#> SRR1026890 4 0.4437 0.10170 0.004 0.464 0.000 0.532 0.000
#> SRR1026891 4 0.5188 0.39866 0.088 0.156 0.028 0.728 0.000
#> SRR1026892 4 0.6636 0.37757 0.284 0.164 0.020 0.532 0.000
#> SRR1026893 3 0.3684 0.79837 0.000 0.000 0.720 0.280 0.000
#> SRR1026894 3 0.3730 0.79288 0.000 0.000 0.712 0.288 0.000
#> SRR1026895 2 0.4494 0.37608 0.012 0.608 0.000 0.380 0.000
#> SRR1026896 2 0.4288 0.38397 0.004 0.612 0.000 0.384 0.000
#> SRR1026897 3 0.4691 0.59607 0.044 0.000 0.680 0.276 0.000
#> SRR1026898 1 0.0404 0.72003 0.988 0.000 0.000 0.012 0.000
#> SRR1026899 1 0.1732 0.72070 0.920 0.000 0.000 0.080 0.000
#> SRR1026900 1 0.5675 0.26980 0.556 0.352 0.000 0.092 0.000
#> SRR1026901 2 0.6645 0.06169 0.292 0.448 0.000 0.260 0.000
#> SRR1026902 4 0.4410 0.16092 0.004 0.440 0.000 0.556 0.000
#> SRR1026903 4 0.4481 0.21323 0.008 0.416 0.000 0.576 0.000
#> SRR1026904 4 0.4446 0.06637 0.004 0.476 0.000 0.520 0.000
#> SRR1026905 4 0.4522 0.16154 0.008 0.440 0.000 0.552 0.000
#> SRR1026906 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026907 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026908 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026909 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026910 2 0.4452 -0.11728 0.004 0.500 0.000 0.496 0.000
#> SRR1026911 4 0.4449 0.13699 0.004 0.484 0.000 0.512 0.000
#> SRR1026912 4 0.5767 0.24963 0.016 0.144 0.180 0.660 0.000
#> SRR1026913 4 0.5732 0.31501 0.060 0.096 0.144 0.700 0.000
#> SRR1026914 2 0.0290 0.69502 0.000 0.992 0.000 0.008 0.000
#> SRR1026915 2 0.0290 0.69502 0.000 0.992 0.000 0.008 0.000
#> SRR1026916 2 0.0290 0.69502 0.000 0.992 0.000 0.008 0.000
#> SRR1026917 2 0.0290 0.69502 0.000 0.992 0.000 0.008 0.000
#> SRR1026918 2 0.4182 0.36549 0.004 0.644 0.000 0.352 0.000
#> SRR1026919 2 0.4251 0.33390 0.004 0.624 0.000 0.372 0.000
#> SRR1026920 2 0.2516 0.69143 0.000 0.860 0.000 0.140 0.000
#> SRR1026921 2 0.2516 0.69134 0.000 0.860 0.000 0.140 0.000
#> SRR1026922 5 0.4084 0.61134 0.000 0.328 0.000 0.004 0.668
#> SRR1026923 2 0.3862 0.67461 0.036 0.828 0.000 0.104 0.032
#> SRR1026924 2 0.3884 0.56517 0.004 0.708 0.000 0.288 0.000
#> SRR1026925 3 0.5906 0.50496 0.000 0.104 0.492 0.404 0.000
#> SRR1026926 4 0.4383 0.20060 0.004 0.424 0.000 0.572 0.000
#> SRR1026927 4 0.4542 -0.02149 0.456 0.008 0.000 0.536 0.000
#> SRR1026928 2 0.1410 0.70164 0.000 0.940 0.000 0.060 0.000
#> SRR1026929 3 0.3508 0.81069 0.000 0.000 0.748 0.252 0.000
#> SRR1026930 2 0.0865 0.69181 0.004 0.972 0.000 0.024 0.000
#> SRR1026931 5 0.1043 0.93737 0.000 0.040 0.000 0.000 0.960
#> SRR1026932 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026933 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026934 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026935 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026936 2 0.4452 -0.09136 0.004 0.500 0.000 0.496 0.000
#> SRR1026937 2 0.4452 -0.09136 0.004 0.500 0.000 0.496 0.000
#> SRR1026938 2 0.3216 0.66297 0.000 0.848 0.000 0.044 0.108
#> SRR1026939 2 0.4468 0.52269 0.000 0.716 0.000 0.044 0.240
#> SRR1026940 4 0.4235 -0.17865 0.424 0.000 0.000 0.576 0.000
#> SRR1026941 3 0.0162 0.85488 0.000 0.000 0.996 0.004 0.000
#> SRR1026942 4 0.4256 -0.14754 0.436 0.000 0.000 0.564 0.000
#> SRR1026943 4 0.4604 -0.12395 0.428 0.012 0.000 0.560 0.000
#> SRR1026944 1 0.4294 0.32215 0.532 0.000 0.000 0.468 0.000
#> SRR1026945 3 0.3647 0.71351 0.052 0.000 0.816 0.132 0.000
#> SRR1026947 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026946 5 0.0290 0.97301 0.000 0.008 0.000 0.000 0.992
#> SRR1026948 5 0.1608 0.91888 0.000 0.072 0.000 0.000 0.928
#> SRR1026949 1 0.5037 0.44702 0.684 0.228 0.000 0.088 0.000
#> SRR1026950 1 0.4489 0.45801 0.572 0.008 0.000 0.420 0.000
#> SRR1026951 4 0.6272 0.02188 0.348 0.160 0.000 0.492 0.000
#> SRR1026952 1 0.3983 0.59517 0.660 0.000 0.000 0.340 0.000
#> SRR1026953 3 0.0000 0.85446 0.000 0.000 1.000 0.000 0.000
#> SRR1026954 2 0.4810 0.55093 0.084 0.712 0.000 0.204 0.000
#> SRR1026955 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026956 4 0.5731 0.32999 0.328 0.104 0.000 0.568 0.000
#> SRR1026957 2 0.2824 0.68963 0.000 0.864 0.000 0.116 0.020
#> SRR1026958 1 0.4840 0.60620 0.640 0.040 0.000 0.320 0.000
#> SRR1026959 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1026960 2 0.3884 0.54587 0.004 0.708 0.000 0.288 0.000
#> SRR1026961 2 0.3636 0.54973 0.000 0.728 0.000 0.272 0.000
#> SRR1026962 1 0.4306 0.29664 0.508 0.000 0.000 0.492 0.000
#> SRR1026963 1 0.4201 0.35017 0.592 0.000 0.000 0.408 0.000
#> SRR1026964 2 0.3242 0.61341 0.000 0.784 0.000 0.216 0.000
#> SRR1026965 2 0.3452 0.58344 0.000 0.756 0.000 0.244 0.000
#> SRR1026966 3 0.1478 0.85047 0.000 0.000 0.936 0.064 0.000
#> SRR1026967 3 0.1478 0.85047 0.000 0.000 0.936 0.064 0.000
#> SRR1026968 2 0.1121 0.69937 0.000 0.956 0.000 0.044 0.000
#> SRR1026969 2 0.3990 0.50045 0.004 0.688 0.000 0.308 0.000
#> SRR1026970 4 0.4510 0.21862 0.008 0.432 0.000 0.560 0.000
#> SRR1026971 4 0.4861 0.22101 0.024 0.428 0.000 0.548 0.000
#> SRR1026972 4 0.4310 0.23490 0.004 0.392 0.000 0.604 0.000
#> SRR1026973 4 0.4537 0.23993 0.012 0.396 0.000 0.592 0.000
#> SRR1026974 4 0.5480 0.25877 0.288 0.096 0.000 0.616 0.000
#> SRR1026975 4 0.5077 0.03282 0.392 0.040 0.000 0.568 0.000
#> SRR1026976 4 0.4731 0.19721 0.016 0.456 0.000 0.528 0.000
#> SRR1026977 4 0.4446 0.11727 0.004 0.476 0.000 0.520 0.000
#> SRR1026978 1 0.6569 0.14054 0.448 0.216 0.000 0.336 0.000
#> SRR1026979 3 0.0771 0.85308 0.004 0.000 0.976 0.020 0.000
#> SRR1026980 2 0.6054 0.16505 0.380 0.496 0.000 0.124 0.000
#> SRR1026981 3 0.3452 0.81445 0.000 0.000 0.756 0.244 0.000
#> SRR1026982 2 0.3424 0.58845 0.000 0.760 0.000 0.240 0.000
#> SRR1026983 2 0.3508 0.57617 0.000 0.748 0.000 0.252 0.000
#> SRR1026984 2 0.1410 0.69987 0.000 0.940 0.000 0.060 0.000
#> SRR1026985 2 0.1410 0.69987 0.000 0.940 0.000 0.060 0.000
#> SRR1026986 1 0.6235 0.36936 0.500 0.344 0.000 0.156 0.000
#> SRR1026987 1 0.1892 0.72729 0.916 0.004 0.000 0.080 0.000
#> SRR1026988 1 0.2470 0.71185 0.884 0.000 0.012 0.104 0.000
#> SRR1026989 3 0.3662 0.80999 0.004 0.000 0.744 0.252 0.000
#> SRR1026990 4 0.4430 0.17582 0.004 0.456 0.000 0.540 0.000
#> SRR1026991 3 0.3508 0.81069 0.000 0.000 0.748 0.252 0.000
#> SRR1026992 1 0.1965 0.72796 0.904 0.000 0.000 0.096 0.000
#> SRR1026993 1 0.4066 0.59374 0.672 0.004 0.000 0.324 0.000
#> SRR1026994 2 0.6469 0.05212 0.184 0.436 0.000 0.380 0.000
#> SRR1026995 1 0.4147 0.54881 0.676 0.008 0.000 0.316 0.000
#> SRR1026996 4 0.4437 0.18087 0.004 0.464 0.000 0.532 0.000
#> SRR1026997 4 0.4437 0.18087 0.004 0.464 0.000 0.532 0.000
#> SRR1026998 3 0.3424 0.81488 0.000 0.000 0.760 0.240 0.000
#> SRR1026999 3 0.3480 0.81269 0.000 0.000 0.752 0.248 0.000
#> SRR1027000 1 0.0290 0.72139 0.992 0.000 0.000 0.008 0.000
#> SRR1027001 4 0.5628 0.26094 0.220 0.000 0.148 0.632 0.000
#> SRR1027002 1 0.5882 0.47203 0.588 0.264 0.000 0.148 0.000
#> SRR1027003 1 0.3988 0.68033 0.768 0.036 0.000 0.196 0.000
#> SRR1027004 1 0.1478 0.73119 0.936 0.000 0.000 0.064 0.000
#> SRR1027005 3 0.0290 0.85512 0.000 0.000 0.992 0.008 0.000
#> SRR1027006 1 0.1544 0.72427 0.932 0.000 0.000 0.068 0.000
#> SRR1027007 1 0.5816 0.16594 0.468 0.440 0.000 0.092 0.000
#> SRR1027008 1 0.2280 0.70694 0.880 0.000 0.000 0.120 0.000
#> SRR1027009 3 0.0000 0.85446 0.000 0.000 1.000 0.000 0.000
#> SRR1027010 1 0.4461 0.55367 0.728 0.000 0.220 0.052 0.000
#> SRR1027011 3 0.0000 0.85446 0.000 0.000 1.000 0.000 0.000
#> SRR1177668 4 0.6368 0.00605 0.400 0.000 0.164 0.436 0.000
#> SRR1177667 1 0.3895 0.59704 0.680 0.000 0.000 0.320 0.000
#> SRR1177669 1 0.2561 0.69675 0.856 0.000 0.000 0.144 0.000
#> SRR1177670 3 0.1732 0.79374 0.080 0.000 0.920 0.000 0.000
#> SRR1177671 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1177672 3 0.0162 0.85319 0.004 0.000 0.996 0.000 0.000
#> SRR1177673 1 0.1671 0.72162 0.924 0.000 0.000 0.076 0.000
#> SRR1177674 3 0.0162 0.85319 0.004 0.000 0.996 0.000 0.000
#> SRR1177675 1 0.1270 0.72165 0.948 0.000 0.000 0.052 0.000
#> SRR1177676 3 0.5519 0.15680 0.412 0.000 0.520 0.068 0.000
#> SRR1177677 1 0.1410 0.71717 0.940 0.000 0.000 0.060 0.000
#> SRR1177678 1 0.1341 0.72871 0.944 0.000 0.000 0.056 0.000
#> SRR1177679 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1177680 1 0.4938 0.42621 0.632 0.332 0.000 0.028 0.008
#> SRR1177681 1 0.1638 0.72673 0.932 0.004 0.000 0.064 0.000
#> SRR1177682 1 0.1671 0.72169 0.924 0.000 0.000 0.076 0.000
#> SRR1177683 2 0.4573 0.51273 0.000 0.700 0.000 0.044 0.256
#> SRR1177684 2 0.2053 0.68492 0.004 0.924 0.000 0.048 0.024
#> SRR1177685 1 0.1608 0.72324 0.928 0.000 0.000 0.072 0.000
#> SRR1177686 3 0.0000 0.85446 0.000 0.000 1.000 0.000 0.000
#> SRR1177687 1 0.5694 -0.21277 0.460 0.460 0.000 0.080 0.000
#> SRR1177688 1 0.1478 0.71958 0.936 0.000 0.000 0.064 0.000
#> SRR1177689 1 0.3171 0.69396 0.816 0.008 0.000 0.176 0.000
#> SRR1177690 1 0.2127 0.71046 0.892 0.000 0.000 0.108 0.000
#> SRR1177691 2 0.0451 0.69409 0.000 0.988 0.000 0.004 0.008
#> SRR1177692 2 0.6418 -0.02007 0.412 0.416 0.000 0.172 0.000
#> SRR1177693 2 0.4134 0.57804 0.000 0.760 0.000 0.044 0.196
#> SRR1177694 2 0.2740 0.70015 0.000 0.876 0.000 0.096 0.028
#> SRR1177695 1 0.2966 0.69934 0.848 0.016 0.000 0.136 0.000
#> SRR1177697 1 0.4456 0.58833 0.660 0.020 0.000 0.320 0.000
#> SRR1177696 1 0.2732 0.69360 0.840 0.000 0.000 0.160 0.000
#> SRR1177698 3 0.0162 0.85319 0.004 0.000 0.996 0.000 0.000
#> SRR1177700 1 0.3814 0.58887 0.720 0.004 0.000 0.276 0.000
#> SRR1177701 4 0.6482 0.36143 0.200 0.332 0.000 0.468 0.000
#> SRR1177702 4 0.4747 0.32860 0.196 0.000 0.084 0.720 0.000
#> SRR1177703 4 0.5014 0.11723 0.368 0.040 0.000 0.592 0.000
#> SRR1177704 4 0.4038 0.39490 0.136 0.008 0.056 0.800 0.000
#> SRR1177705 1 0.4327 0.53448 0.632 0.008 0.000 0.360 0.000
#> SRR1177706 1 0.5795 0.14987 0.496 0.412 0.000 0.092 0.000
#> SRR1177707 4 0.5974 0.31027 0.284 0.148 0.000 0.568 0.000
#> SRR1177708 4 0.5450 0.03012 0.444 0.060 0.000 0.496 0.000
#> SRR1177709 1 0.2471 0.70122 0.864 0.000 0.000 0.136 0.000
#> SRR1177710 1 0.6487 0.11266 0.476 0.000 0.208 0.316 0.000
#> SRR1177711 1 0.2966 0.70411 0.816 0.000 0.000 0.184 0.000
#> SRR1177712 4 0.4415 0.04728 0.444 0.000 0.004 0.552 0.000
#> SRR1177714 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1177713 4 0.4307 -0.08270 0.496 0.000 0.000 0.504 0.000
#> SRR1177715 1 0.5348 0.55754 0.656 0.232 0.000 0.112 0.000
#> SRR1177716 3 0.3003 0.82253 0.000 0.000 0.812 0.188 0.000
#> SRR1177717 1 0.3534 0.66159 0.744 0.000 0.000 0.256 0.000
#> SRR1177718 1 0.3661 0.64804 0.724 0.000 0.000 0.276 0.000
#> SRR1177719 1 0.3913 0.57798 0.676 0.000 0.000 0.324 0.000
#> SRR1177720 3 0.3395 0.81504 0.000 0.000 0.764 0.236 0.000
#> SRR1177721 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1177722 5 0.0000 0.97786 0.000 0.000 0.000 0.000 1.000
#> SRR1177723 1 0.2605 0.69422 0.852 0.000 0.000 0.148 0.000
#> SRR1177725 1 0.2020 0.71058 0.900 0.000 0.000 0.100 0.000
#> SRR1177724 1 0.3210 0.68267 0.788 0.000 0.000 0.212 0.000
#> SRR1177726 3 0.0000 0.85446 0.000 0.000 1.000 0.000 0.000
#> SRR1177727 1 0.3395 0.62403 0.764 0.000 0.000 0.236 0.000
#> SRR1177728 3 0.0000 0.85446 0.000 0.000 1.000 0.000 0.000
#> SRR1177729 1 0.2648 0.69457 0.848 0.000 0.000 0.152 0.000
#> SRR1177730 3 0.0000 0.85446 0.000 0.000 1.000 0.000 0.000
#> SRR1177731 1 0.1478 0.71940 0.936 0.000 0.000 0.064 0.000
#> SRR1177732 1 0.2605 0.69583 0.852 0.000 0.000 0.148 0.000
#> SRR1177733 1 0.3274 0.68035 0.780 0.000 0.000 0.220 0.000
#> SRR1177734 1 0.3730 0.65294 0.712 0.000 0.000 0.288 0.000
#> SRR1177735 4 0.6695 0.31964 0.308 0.264 0.000 0.428 0.000
#> SRR1177736 1 0.4114 0.40680 0.624 0.000 0.000 0.376 0.000
#> SRR1177737 2 0.1041 0.68452 0.000 0.964 0.000 0.004 0.032
#> SRR1177738 4 0.5747 0.21607 0.004 0.160 0.200 0.636 0.000
#> SRR1177739 1 0.2966 0.68876 0.816 0.000 0.000 0.184 0.000
#> SRR1177740 1 0.3752 0.65269 0.708 0.000 0.000 0.292 0.000
#> SRR1177741 1 0.2471 0.70428 0.864 0.000 0.000 0.136 0.000
#> SRR1177742 3 0.0290 0.85493 0.000 0.000 0.992 0.008 0.000
#> SRR1177743 1 0.2020 0.71837 0.900 0.000 0.000 0.100 0.000
#> SRR1177744 1 0.6510 0.24437 0.488 0.000 0.252 0.260 0.000
#> SRR1177745 2 0.4720 0.56629 0.124 0.736 0.000 0.140 0.000
#> SRR1177746 1 0.5100 0.24084 0.516 0.448 0.000 0.036 0.000
#> SRR1177747 1 0.6241 0.28457 0.512 0.000 0.164 0.324 0.000
#> SRR1177748 3 0.0000 0.85446 0.000 0.000 1.000 0.000 0.000
#> SRR1177749 1 0.0404 0.72031 0.988 0.000 0.000 0.012 0.000
#> SRR1177750 1 0.0510 0.72058 0.984 0.000 0.000 0.016 0.000
#> SRR1177751 1 0.2763 0.69411 0.848 0.004 0.000 0.148 0.000
#> SRR1177752 1 0.4114 0.51877 0.624 0.000 0.000 0.376 0.000
#> SRR1177753 1 0.1608 0.71997 0.928 0.000 0.000 0.072 0.000
#> SRR1177754 1 0.2471 0.69968 0.864 0.000 0.000 0.136 0.000
#> SRR1177755 1 0.3264 0.69219 0.820 0.016 0.000 0.164 0.000
#> SRR1177756 1 0.3659 0.67842 0.768 0.012 0.000 0.220 0.000
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.1390 0.56065 0.000 0.948 0.000 0.004 0.016 0.032
#> SRR1026871 2 0.1528 0.56821 0.000 0.944 0.000 0.016 0.012 0.028
#> SRR1026872 2 0.2653 0.57607 0.000 0.876 0.000 0.064 0.004 0.056
#> SRR1026873 1 0.2300 0.60263 0.856 0.000 0.000 0.144 0.000 0.000
#> SRR1026874 3 0.6269 0.52776 0.032 0.000 0.452 0.152 0.364 0.000
#> SRR1026875 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026876 6 0.0260 0.98528 0.000 0.008 0.000 0.000 0.000 0.992
#> SRR1026877 3 0.0363 0.66575 0.000 0.000 0.988 0.012 0.000 0.000
#> SRR1026878 3 0.0000 0.67050 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026879 1 0.3050 0.55760 0.764 0.000 0.000 0.236 0.000 0.000
#> SRR1026880 1 0.3062 0.59976 0.816 0.000 0.000 0.160 0.024 0.000
#> SRR1026881 2 0.1649 0.55717 0.000 0.932 0.000 0.032 0.036 0.000
#> SRR1026882 2 0.1572 0.55965 0.000 0.936 0.000 0.028 0.036 0.000
#> SRR1026883 4 0.3990 0.41310 0.004 0.304 0.000 0.676 0.016 0.000
#> SRR1026884 4 0.4025 0.40330 0.004 0.312 0.000 0.668 0.016 0.000
#> SRR1026885 4 0.4306 0.40187 0.004 0.308 0.000 0.656 0.032 0.000
#> SRR1026886 4 0.4289 0.40445 0.004 0.304 0.000 0.660 0.032 0.000
#> SRR1026887 3 0.4956 -0.06089 0.044 0.004 0.500 0.448 0.004 0.000
#> SRR1026888 3 0.4780 -0.10188 0.040 0.000 0.484 0.472 0.004 0.000
#> SRR1026889 2 0.5127 0.45703 0.000 0.616 0.000 0.112 0.004 0.268
#> SRR1026890 4 0.4407 0.40679 0.004 0.304 0.012 0.660 0.020 0.000
#> SRR1026891 4 0.5347 0.31269 0.024 0.036 0.376 0.552 0.012 0.000
#> SRR1026892 4 0.6669 0.39708 0.140 0.096 0.192 0.560 0.012 0.000
#> SRR1026893 3 0.0603 0.66176 0.000 0.000 0.980 0.016 0.004 0.000
#> SRR1026894 3 0.0692 0.65953 0.000 0.000 0.976 0.020 0.004 0.000
#> SRR1026895 4 0.6101 -0.17747 0.012 0.384 0.000 0.424 0.180 0.000
#> SRR1026896 4 0.5732 -0.06847 0.004 0.376 0.000 0.472 0.148 0.000
#> SRR1026897 3 0.6241 0.51675 0.024 0.000 0.440 0.168 0.368 0.000
#> SRR1026898 1 0.0622 0.60043 0.980 0.000 0.000 0.012 0.008 0.000
#> SRR1026899 1 0.1918 0.62086 0.904 0.000 0.000 0.088 0.008 0.000
#> SRR1026900 1 0.7064 -0.38179 0.408 0.312 0.000 0.096 0.184 0.000
#> SRR1026901 2 0.7360 0.12795 0.108 0.328 0.000 0.264 0.300 0.000
#> SRR1026902 4 0.3808 0.43684 0.004 0.284 0.000 0.700 0.012 0.000
#> SRR1026903 4 0.3767 0.45393 0.004 0.260 0.000 0.720 0.016 0.000
#> SRR1026904 4 0.4528 0.37369 0.004 0.316 0.000 0.636 0.044 0.000
#> SRR1026905 4 0.4116 0.43272 0.012 0.288 0.000 0.684 0.016 0.000
#> SRR1026906 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026907 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026908 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026909 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026910 4 0.5242 0.31085 0.004 0.328 0.000 0.568 0.100 0.000
#> SRR1026911 4 0.5146 0.35102 0.004 0.300 0.000 0.596 0.100 0.000
#> SRR1026912 3 0.5070 0.00928 0.016 0.024 0.536 0.412 0.012 0.000
#> SRR1026913 3 0.5032 -0.08367 0.024 0.012 0.496 0.456 0.012 0.000
#> SRR1026914 2 0.1124 0.55611 0.000 0.956 0.000 0.008 0.036 0.000
#> SRR1026915 2 0.1124 0.55867 0.000 0.956 0.000 0.008 0.036 0.000
#> SRR1026916 2 0.1225 0.55119 0.000 0.952 0.000 0.012 0.036 0.000
#> SRR1026917 2 0.1225 0.55119 0.000 0.952 0.000 0.012 0.036 0.000
#> SRR1026918 4 0.6063 -0.11584 0.004 0.368 0.000 0.412 0.216 0.000
#> SRR1026919 4 0.5956 -0.03250 0.004 0.360 0.000 0.444 0.192 0.000
#> SRR1026920 2 0.5389 0.56297 0.000 0.572 0.000 0.160 0.268 0.000
#> SRR1026921 2 0.5269 0.56572 0.000 0.596 0.000 0.156 0.248 0.000
#> SRR1026922 2 0.4629 -0.20529 0.000 0.508 0.000 0.008 0.024 0.460
#> SRR1026923 2 0.6615 0.47022 0.016 0.484 0.000 0.204 0.272 0.024
#> SRR1026924 2 0.6167 0.47195 0.004 0.412 0.000 0.272 0.312 0.000
#> SRR1026925 3 0.3056 0.51237 0.000 0.008 0.804 0.184 0.004 0.000
#> SRR1026926 4 0.3894 0.44672 0.004 0.268 0.000 0.708 0.020 0.000
#> SRR1026927 4 0.4130 0.31066 0.312 0.016 0.000 0.664 0.008 0.000
#> SRR1026928 2 0.3775 0.60478 0.000 0.780 0.000 0.128 0.092 0.000
#> SRR1026929 3 0.0000 0.67050 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026930 2 0.3308 0.58806 0.004 0.828 0.000 0.096 0.072 0.000
#> SRR1026931 6 0.1230 0.94337 0.000 0.028 0.000 0.008 0.008 0.956
#> SRR1026932 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026933 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026934 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026935 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026936 4 0.4688 0.36323 0.004 0.328 0.000 0.616 0.052 0.000
#> SRR1026937 4 0.4527 0.37337 0.004 0.332 0.000 0.624 0.040 0.000
#> SRR1026938 2 0.6092 0.56270 0.000 0.600 0.000 0.104 0.196 0.100
#> SRR1026939 2 0.6816 0.39563 0.000 0.484 0.000 0.084 0.220 0.212
#> SRR1026940 4 0.4003 0.15047 0.248 0.004 0.000 0.716 0.032 0.000
#> SRR1026941 3 0.3765 0.70879 0.000 0.000 0.596 0.000 0.404 0.000
#> SRR1026942 4 0.4007 0.12502 0.220 0.000 0.000 0.728 0.052 0.000
#> SRR1026943 4 0.4395 0.10364 0.216 0.008 0.000 0.712 0.064 0.000
#> SRR1026944 4 0.4099 -0.07051 0.372 0.000 0.000 0.612 0.016 0.000
#> SRR1026945 3 0.5858 0.63006 0.048 0.000 0.460 0.068 0.424 0.000
#> SRR1026947 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026946 6 0.0363 0.98221 0.000 0.012 0.000 0.000 0.000 0.988
#> SRR1026948 6 0.1765 0.89742 0.000 0.096 0.000 0.000 0.000 0.904
#> SRR1026949 1 0.5123 0.27602 0.660 0.184 0.000 0.144 0.012 0.000
#> SRR1026950 4 0.4756 -0.23612 0.408 0.000 0.000 0.540 0.052 0.000
#> SRR1026951 4 0.6019 -0.14990 0.132 0.068 0.000 0.600 0.200 0.000
#> SRR1026952 1 0.4804 0.21470 0.492 0.000 0.000 0.456 0.052 0.000
#> SRR1026953 3 0.3828 0.70362 0.000 0.000 0.560 0.000 0.440 0.000
#> SRR1026954 2 0.6810 0.42028 0.064 0.408 0.000 0.184 0.344 0.000
#> SRR1026955 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026956 4 0.3999 0.38184 0.272 0.032 0.000 0.696 0.000 0.000
#> SRR1026957 2 0.6032 0.53049 0.000 0.488 0.000 0.188 0.312 0.012
#> SRR1026958 1 0.5517 0.12160 0.472 0.000 0.000 0.396 0.132 0.000
#> SRR1026959 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026960 2 0.6216 0.40190 0.004 0.376 0.000 0.284 0.336 0.000
#> SRR1026961 2 0.6020 0.46603 0.000 0.408 0.000 0.248 0.344 0.000
#> SRR1026962 4 0.4443 -0.00310 0.300 0.000 0.000 0.648 0.052 0.000
#> SRR1026963 1 0.5285 0.28080 0.536 0.000 0.000 0.352 0.112 0.000
#> SRR1026964 2 0.5873 0.49638 0.000 0.452 0.000 0.208 0.340 0.000
#> SRR1026965 2 0.5955 0.48073 0.000 0.436 0.000 0.232 0.332 0.000
#> SRR1026966 3 0.3126 0.70674 0.000 0.000 0.752 0.000 0.248 0.000
#> SRR1026967 3 0.3126 0.70674 0.000 0.000 0.752 0.000 0.248 0.000
#> SRR1026968 2 0.3876 0.59980 0.000 0.772 0.000 0.120 0.108 0.000
#> SRR1026969 2 0.6084 0.42838 0.000 0.380 0.000 0.276 0.344 0.000
#> SRR1026970 4 0.3738 0.47924 0.012 0.236 0.000 0.740 0.012 0.000
#> SRR1026971 4 0.3900 0.47310 0.016 0.248 0.000 0.724 0.012 0.000
#> SRR1026972 4 0.3329 0.47933 0.008 0.220 0.000 0.768 0.004 0.000
#> SRR1026973 4 0.3627 0.48390 0.020 0.224 0.000 0.752 0.004 0.000
#> SRR1026974 4 0.4177 0.34162 0.116 0.064 0.000 0.780 0.040 0.000
#> SRR1026975 4 0.4060 0.29886 0.200 0.032 0.000 0.748 0.020 0.000
#> SRR1026976 4 0.4435 0.44328 0.012 0.292 0.000 0.664 0.032 0.000
#> SRR1026977 4 0.4182 0.42033 0.004 0.312 0.000 0.660 0.024 0.000
#> SRR1026978 4 0.6340 -0.38693 0.356 0.060 0.000 0.472 0.112 0.000
#> SRR1026979 3 0.3699 0.70938 0.000 0.000 0.660 0.004 0.336 0.000
#> SRR1026980 2 0.7166 -0.14987 0.344 0.368 0.000 0.108 0.180 0.000
#> SRR1026981 3 0.0458 0.67613 0.000 0.000 0.984 0.000 0.016 0.000
#> SRR1026982 2 0.5943 0.48168 0.000 0.432 0.000 0.224 0.344 0.000
#> SRR1026983 2 0.5979 0.47469 0.000 0.424 0.000 0.236 0.340 0.000
#> SRR1026984 2 0.5108 0.51723 0.000 0.552 0.000 0.092 0.356 0.000
#> SRR1026985 2 0.5057 0.51919 0.000 0.560 0.000 0.088 0.352 0.000
#> SRR1026986 5 0.7531 0.00000 0.220 0.172 0.000 0.248 0.360 0.000
#> SRR1026987 1 0.1781 0.61996 0.924 0.008 0.000 0.060 0.008 0.000
#> SRR1026988 1 0.2373 0.61338 0.880 0.000 0.008 0.104 0.008 0.000
#> SRR1026989 3 0.0000 0.67050 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026990 4 0.4924 0.38843 0.004 0.268 0.000 0.636 0.092 0.000
#> SRR1026991 3 0.0000 0.67050 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026992 1 0.1910 0.62142 0.892 0.000 0.000 0.108 0.000 0.000
#> SRR1026993 4 0.4856 -0.29313 0.464 0.000 0.000 0.480 0.056 0.000
#> SRR1026994 4 0.6264 0.19804 0.232 0.268 0.000 0.480 0.020 0.000
#> SRR1026995 1 0.3789 0.46064 0.660 0.008 0.000 0.332 0.000 0.000
#> SRR1026996 4 0.4865 0.39577 0.004 0.284 0.000 0.632 0.080 0.000
#> SRR1026997 4 0.5251 0.34283 0.004 0.288 0.000 0.592 0.116 0.000
#> SRR1026998 3 0.1141 0.68084 0.000 0.000 0.948 0.000 0.052 0.000
#> SRR1026999 3 0.0937 0.67917 0.000 0.000 0.960 0.000 0.040 0.000
#> SRR1027000 1 0.0363 0.59967 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1027001 4 0.6088 0.18093 0.308 0.000 0.220 0.464 0.008 0.000
#> SRR1027002 1 0.7238 -0.55348 0.384 0.100 0.000 0.256 0.260 0.000
#> SRR1027003 1 0.5157 0.36231 0.624 0.068 0.000 0.284 0.024 0.000
#> SRR1027004 1 0.1500 0.62206 0.936 0.000 0.000 0.052 0.012 0.000
#> SRR1027005 3 0.3789 0.70810 0.000 0.000 0.584 0.000 0.416 0.000
#> SRR1027006 1 0.1584 0.62083 0.928 0.000 0.000 0.064 0.008 0.000
#> SRR1027007 1 0.7573 -0.66580 0.348 0.224 0.000 0.180 0.248 0.000
#> SRR1027008 1 0.4277 0.40342 0.700 0.000 0.000 0.236 0.064 0.000
#> SRR1027009 3 0.3828 0.70362 0.000 0.000 0.560 0.000 0.440 0.000
#> SRR1027010 1 0.3550 0.54858 0.832 0.000 0.056 0.048 0.064 0.000
#> SRR1027011 3 0.3828 0.70362 0.000 0.000 0.560 0.000 0.440 0.000
#> SRR1177668 4 0.5365 -0.03044 0.452 0.000 0.020 0.468 0.060 0.000
#> SRR1177667 1 0.4806 0.15646 0.488 0.000 0.000 0.460 0.052 0.000
#> SRR1177669 1 0.2706 0.60277 0.852 0.000 0.000 0.124 0.024 0.000
#> SRR1177670 3 0.4636 0.66926 0.040 0.000 0.516 0.000 0.444 0.000
#> SRR1177671 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1177672 3 0.3828 0.70362 0.000 0.000 0.560 0.000 0.440 0.000
#> SRR1177673 1 0.1700 0.62020 0.916 0.000 0.000 0.080 0.004 0.000
#> SRR1177674 3 0.3789 0.70663 0.000 0.000 0.584 0.000 0.416 0.000
#> SRR1177675 1 0.3172 0.51983 0.816 0.000 0.000 0.148 0.036 0.000
#> SRR1177676 1 0.6245 0.19969 0.556 0.000 0.196 0.052 0.196 0.000
#> SRR1177677 1 0.2376 0.56387 0.888 0.000 0.000 0.068 0.044 0.000
#> SRR1177678 1 0.1913 0.59864 0.908 0.000 0.000 0.080 0.012 0.000
#> SRR1177679 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1177680 1 0.6562 -0.29154 0.480 0.320 0.000 0.044 0.148 0.008
#> SRR1177681 1 0.1668 0.62031 0.928 0.004 0.000 0.060 0.008 0.000
#> SRR1177682 1 0.1471 0.61946 0.932 0.000 0.000 0.064 0.004 0.000
#> SRR1177683 2 0.3857 0.53289 0.000 0.792 0.000 0.084 0.012 0.112
#> SRR1177684 2 0.2994 0.58033 0.000 0.856 0.000 0.096 0.020 0.028
#> SRR1177685 1 0.1501 0.62065 0.924 0.000 0.000 0.076 0.000 0.000
#> SRR1177686 3 0.3828 0.70362 0.000 0.000 0.560 0.000 0.440 0.000
#> SRR1177687 1 0.6492 -0.18051 0.496 0.296 0.000 0.144 0.064 0.000
#> SRR1177688 1 0.1411 0.61805 0.936 0.000 0.000 0.060 0.004 0.000
#> SRR1177689 1 0.4579 0.36168 0.660 0.004 0.000 0.276 0.060 0.000
#> SRR1177690 1 0.3794 0.43784 0.744 0.000 0.000 0.216 0.040 0.000
#> SRR1177691 2 0.1511 0.56232 0.000 0.940 0.000 0.012 0.044 0.004
#> SRR1177692 1 0.7126 -0.25859 0.388 0.312 0.000 0.208 0.092 0.000
#> SRR1177693 2 0.3706 0.54816 0.000 0.796 0.000 0.096 0.004 0.104
#> SRR1177694 2 0.5500 0.56052 0.000 0.600 0.000 0.104 0.272 0.024
#> SRR1177695 1 0.4758 0.37830 0.684 0.016 0.000 0.228 0.072 0.000
#> SRR1177697 4 0.5076 -0.32717 0.460 0.004 0.000 0.472 0.064 0.000
#> SRR1177696 1 0.2932 0.60285 0.840 0.004 0.000 0.132 0.024 0.000
#> SRR1177698 3 0.3828 0.70362 0.000 0.000 0.560 0.000 0.440 0.000
#> SRR1177700 1 0.3534 0.51811 0.716 0.000 0.000 0.276 0.008 0.000
#> SRR1177701 4 0.5889 0.46071 0.116 0.276 0.000 0.568 0.040 0.000
#> SRR1177702 4 0.6804 0.19816 0.104 0.000 0.324 0.448 0.124 0.000
#> SRR1177703 4 0.4314 0.34518 0.184 0.068 0.000 0.736 0.012 0.000
#> SRR1177704 4 0.4788 0.27389 0.024 0.004 0.368 0.588 0.016 0.000
#> SRR1177705 1 0.4315 0.30670 0.496 0.004 0.000 0.488 0.012 0.000
#> SRR1177706 1 0.7371 -0.47886 0.364 0.312 0.000 0.156 0.168 0.000
#> SRR1177707 4 0.5173 0.36450 0.112 0.128 0.000 0.700 0.060 0.000
#> SRR1177708 4 0.5454 0.37731 0.316 0.128 0.000 0.552 0.004 0.000
#> SRR1177709 1 0.2431 0.60572 0.860 0.000 0.000 0.132 0.008 0.000
#> SRR1177710 3 0.4880 0.04542 0.376 0.000 0.564 0.056 0.004 0.000
#> SRR1177711 1 0.2941 0.58104 0.780 0.000 0.000 0.220 0.000 0.000
#> SRR1177712 4 0.4767 0.25737 0.356 0.000 0.044 0.592 0.008 0.000
#> SRR1177714 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1177713 4 0.4189 0.10085 0.436 0.000 0.008 0.552 0.004 0.000
#> SRR1177715 1 0.7116 -0.35311 0.444 0.248 0.000 0.188 0.120 0.000
#> SRR1177716 3 0.2562 0.69133 0.000 0.000 0.828 0.000 0.172 0.000
#> SRR1177717 1 0.4720 0.26535 0.560 0.000 0.000 0.388 0.052 0.000
#> SRR1177718 1 0.4815 0.27444 0.556 0.000 0.000 0.384 0.060 0.000
#> SRR1177719 1 0.4057 0.36788 0.556 0.000 0.000 0.436 0.008 0.000
#> SRR1177720 3 0.1957 0.68696 0.000 0.000 0.888 0.000 0.112 0.000
#> SRR1177721 6 0.0146 0.98844 0.000 0.004 0.000 0.000 0.000 0.996
#> SRR1177722 6 0.0000 0.99101 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1177723 1 0.4284 0.37979 0.688 0.000 0.000 0.256 0.056 0.000
#> SRR1177725 1 0.3522 0.48038 0.784 0.000 0.000 0.172 0.044 0.000
#> SRR1177724 1 0.4672 0.30933 0.596 0.000 0.000 0.348 0.056 0.000
#> SRR1177726 3 0.3828 0.70362 0.000 0.000 0.560 0.000 0.440 0.000
#> SRR1177727 1 0.3023 0.55318 0.768 0.000 0.000 0.232 0.000 0.000
#> SRR1177728 3 0.3828 0.70362 0.000 0.000 0.560 0.000 0.440 0.000
#> SRR1177729 1 0.4368 0.37730 0.672 0.000 0.000 0.272 0.056 0.000
#> SRR1177730 3 0.3828 0.70362 0.000 0.000 0.560 0.000 0.440 0.000
#> SRR1177731 1 0.1643 0.61768 0.924 0.000 0.000 0.068 0.008 0.000
#> SRR1177732 1 0.2593 0.60722 0.844 0.000 0.000 0.148 0.008 0.000
#> SRR1177733 1 0.3109 0.57795 0.772 0.004 0.000 0.224 0.000 0.000
#> SRR1177734 1 0.4829 0.27323 0.544 0.004 0.000 0.404 0.048 0.000
#> SRR1177735 4 0.6480 0.23037 0.236 0.176 0.000 0.524 0.064 0.000
#> SRR1177736 1 0.3672 0.39475 0.632 0.000 0.000 0.368 0.000 0.000
#> SRR1177737 2 0.3909 0.54530 0.000 0.732 0.000 0.020 0.236 0.012
#> SRR1177738 3 0.4859 0.05444 0.004 0.024 0.556 0.400 0.016 0.000
#> SRR1177739 1 0.3053 0.59356 0.812 0.004 0.000 0.172 0.012 0.000
#> SRR1177740 1 0.4976 0.34425 0.540 0.008 0.000 0.400 0.052 0.000
#> SRR1177741 1 0.2212 0.62056 0.880 0.000 0.000 0.112 0.008 0.000
#> SRR1177742 3 0.3706 0.70916 0.000 0.000 0.620 0.000 0.380 0.000
#> SRR1177743 1 0.1765 0.62104 0.904 0.000 0.000 0.096 0.000 0.000
#> SRR1177744 1 0.4952 0.45494 0.652 0.000 0.012 0.252 0.084 0.000
#> SRR1177745 2 0.5849 0.44839 0.112 0.628 0.000 0.180 0.080 0.000
#> SRR1177746 2 0.6980 -0.26198 0.256 0.360 0.000 0.060 0.324 0.000
#> SRR1177747 1 0.4949 0.40531 0.600 0.000 0.008 0.328 0.064 0.000
#> SRR1177748 3 0.3804 0.70618 0.000 0.000 0.576 0.000 0.424 0.000
#> SRR1177749 1 0.0692 0.59950 0.976 0.000 0.000 0.020 0.004 0.000
#> SRR1177750 1 0.1320 0.58952 0.948 0.000 0.000 0.036 0.016 0.000
#> SRR1177751 1 0.4560 0.36658 0.680 0.008 0.000 0.252 0.060 0.000
#> SRR1177752 4 0.4756 -0.19164 0.408 0.000 0.000 0.540 0.052 0.000
#> SRR1177753 1 0.1643 0.61917 0.924 0.000 0.000 0.068 0.008 0.000
#> SRR1177754 1 0.2431 0.60330 0.860 0.000 0.000 0.132 0.008 0.000
#> SRR1177755 1 0.4783 0.31994 0.636 0.000 0.000 0.276 0.088 0.000
#> SRR1177756 1 0.4780 0.32122 0.612 0.004 0.000 0.324 0.060 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["CV", "mclust"]
# you can also extract it by
# res = res_list["CV:mclust"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'CV' method.
#> Subgroups are detected by 'mclust' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 2.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.981 0.955 0.979 0.3502 0.645 0.645
#> 3 3 0.787 0.847 0.930 0.8862 0.573 0.392
#> 4 4 0.809 0.839 0.901 0.0773 0.844 0.597
#> 5 5 0.751 0.788 0.871 0.0314 0.955 0.852
#> 6 6 0.733 0.729 0.843 0.0503 0.932 0.763
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 2
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.989 0.000 1.000
#> SRR1026871 2 0.0000 0.989 0.000 1.000
#> SRR1026872 2 0.0000 0.989 0.000 1.000
#> SRR1026873 2 0.0000 0.989 0.000 1.000
#> SRR1026874 1 0.9129 0.576 0.672 0.328
#> SRR1026875 2 0.0672 0.983 0.008 0.992
#> SRR1026876 2 0.0672 0.983 0.008 0.992
#> SRR1026877 1 0.0000 0.943 1.000 0.000
#> SRR1026878 1 0.0000 0.943 1.000 0.000
#> SRR1026879 2 0.0000 0.989 0.000 1.000
#> SRR1026880 2 0.4022 0.908 0.080 0.920
#> SRR1026881 2 0.0000 0.989 0.000 1.000
#> SRR1026882 2 0.0000 0.989 0.000 1.000
#> SRR1026883 2 0.0000 0.989 0.000 1.000
#> SRR1026884 2 0.0000 0.989 0.000 1.000
#> SRR1026885 2 0.0000 0.989 0.000 1.000
#> SRR1026886 2 0.0000 0.989 0.000 1.000
#> SRR1026887 1 0.0000 0.943 1.000 0.000
#> SRR1026888 1 0.0000 0.943 1.000 0.000
#> SRR1026889 2 0.0000 0.989 0.000 1.000
#> SRR1026890 2 0.0376 0.986 0.004 0.996
#> SRR1026891 2 0.0000 0.989 0.000 1.000
#> SRR1026892 2 0.0000 0.989 0.000 1.000
#> SRR1026893 1 0.0000 0.943 1.000 0.000
#> SRR1026894 1 0.0000 0.943 1.000 0.000
#> SRR1026895 2 0.0000 0.989 0.000 1.000
#> SRR1026896 2 0.0000 0.989 0.000 1.000
#> SRR1026897 1 0.9129 0.576 0.672 0.328
#> SRR1026898 2 0.0000 0.989 0.000 1.000
#> SRR1026899 2 0.0000 0.989 0.000 1.000
#> SRR1026900 2 0.0000 0.989 0.000 1.000
#> SRR1026901 1 0.4161 0.880 0.916 0.084
#> SRR1026902 2 0.0000 0.989 0.000 1.000
#> SRR1026903 2 0.0000 0.989 0.000 1.000
#> SRR1026904 2 0.0000 0.989 0.000 1.000
#> SRR1026905 2 0.0000 0.989 0.000 1.000
#> SRR1026906 2 0.0000 0.989 0.000 1.000
#> SRR1026907 2 0.0000 0.989 0.000 1.000
#> SRR1026908 2 0.0376 0.986 0.004 0.996
#> SRR1026909 2 0.0672 0.983 0.008 0.992
#> SRR1026910 2 0.0000 0.989 0.000 1.000
#> SRR1026911 2 0.0000 0.989 0.000 1.000
#> SRR1026912 1 0.0000 0.943 1.000 0.000
#> SRR1026913 1 0.0000 0.943 1.000 0.000
#> SRR1026914 2 0.0000 0.989 0.000 1.000
#> SRR1026915 2 0.0000 0.989 0.000 1.000
#> SRR1026916 2 0.0000 0.989 0.000 1.000
#> SRR1026917 2 0.0000 0.989 0.000 1.000
#> SRR1026918 2 0.0000 0.989 0.000 1.000
#> SRR1026919 2 0.0000 0.989 0.000 1.000
#> SRR1026920 2 0.0672 0.983 0.008 0.992
#> SRR1026921 2 0.0672 0.983 0.008 0.992
#> SRR1026922 2 0.0672 0.983 0.008 0.992
#> SRR1026923 2 0.6247 0.807 0.156 0.844
#> SRR1026924 2 0.0000 0.989 0.000 1.000
#> SRR1026925 1 0.0000 0.943 1.000 0.000
#> SRR1026926 2 0.0000 0.989 0.000 1.000
#> SRR1026927 2 0.0000 0.989 0.000 1.000
#> SRR1026928 2 0.0000 0.989 0.000 1.000
#> SRR1026929 1 0.0000 0.943 1.000 0.000
#> SRR1026930 2 0.0000 0.989 0.000 1.000
#> SRR1026931 1 0.9044 0.590 0.680 0.320
#> SRR1026932 2 0.0672 0.983 0.008 0.992
#> SRR1026933 2 0.0672 0.983 0.008 0.992
#> SRR1026934 2 0.0672 0.983 0.008 0.992
#> SRR1026935 2 0.0672 0.983 0.008 0.992
#> SRR1026936 2 0.0000 0.989 0.000 1.000
#> SRR1026937 2 0.0000 0.989 0.000 1.000
#> SRR1026938 2 0.0000 0.989 0.000 1.000
#> SRR1026939 2 0.0000 0.989 0.000 1.000
#> SRR1026940 2 0.0000 0.989 0.000 1.000
#> SRR1026941 1 0.0000 0.943 1.000 0.000
#> SRR1026942 2 0.0000 0.989 0.000 1.000
#> SRR1026943 2 0.0000 0.989 0.000 1.000
#> SRR1026944 2 0.0000 0.989 0.000 1.000
#> SRR1026945 1 0.0000 0.943 1.000 0.000
#> SRR1026947 2 0.0000 0.989 0.000 1.000
#> SRR1026946 2 0.0000 0.989 0.000 1.000
#> SRR1026948 2 0.0672 0.983 0.008 0.992
#> SRR1026949 2 0.0000 0.989 0.000 1.000
#> SRR1026950 2 0.0000 0.989 0.000 1.000
#> SRR1026951 2 0.0000 0.989 0.000 1.000
#> SRR1026952 2 0.0000 0.989 0.000 1.000
#> SRR1026953 1 0.0000 0.943 1.000 0.000
#> SRR1026954 2 0.0000 0.989 0.000 1.000
#> SRR1026955 2 0.0672 0.983 0.008 0.992
#> SRR1026956 2 0.0000 0.989 0.000 1.000
#> SRR1026957 2 0.0000 0.989 0.000 1.000
#> SRR1026958 2 0.0000 0.989 0.000 1.000
#> SRR1026959 1 0.9044 0.590 0.680 0.320
#> SRR1026960 2 0.0000 0.989 0.000 1.000
#> SRR1026961 2 0.0000 0.989 0.000 1.000
#> SRR1026962 2 0.0000 0.989 0.000 1.000
#> SRR1026963 2 0.0000 0.989 0.000 1.000
#> SRR1026964 2 0.0000 0.989 0.000 1.000
#> SRR1026965 2 0.0000 0.989 0.000 1.000
#> SRR1026966 1 0.0000 0.943 1.000 0.000
#> SRR1026967 1 0.0000 0.943 1.000 0.000
#> SRR1026968 2 0.0000 0.989 0.000 1.000
#> SRR1026969 2 0.0000 0.989 0.000 1.000
#> SRR1026970 2 0.0000 0.989 0.000 1.000
#> SRR1026971 2 0.0000 0.989 0.000 1.000
#> SRR1026972 2 0.0000 0.989 0.000 1.000
#> SRR1026973 2 0.0000 0.989 0.000 1.000
#> SRR1026974 2 0.0000 0.989 0.000 1.000
#> SRR1026975 2 0.0000 0.989 0.000 1.000
#> SRR1026976 2 0.0000 0.989 0.000 1.000
#> SRR1026977 2 0.0000 0.989 0.000 1.000
#> SRR1026978 2 0.0000 0.989 0.000 1.000
#> SRR1026979 1 0.0000 0.943 1.000 0.000
#> SRR1026980 2 0.0000 0.989 0.000 1.000
#> SRR1026981 1 0.0000 0.943 1.000 0.000
#> SRR1026982 2 0.0000 0.989 0.000 1.000
#> SRR1026983 2 0.0000 0.989 0.000 1.000
#> SRR1026984 2 0.0000 0.989 0.000 1.000
#> SRR1026985 2 0.0000 0.989 0.000 1.000
#> SRR1026986 2 0.0000 0.989 0.000 1.000
#> SRR1026987 2 0.0000 0.989 0.000 1.000
#> SRR1026988 2 0.6973 0.761 0.188 0.812
#> SRR1026989 1 0.0000 0.943 1.000 0.000
#> SRR1026990 2 0.0000 0.989 0.000 1.000
#> SRR1026991 1 0.0000 0.943 1.000 0.000
#> SRR1026992 2 0.0000 0.989 0.000 1.000
#> SRR1026993 2 0.0000 0.989 0.000 1.000
#> SRR1026994 2 0.0000 0.989 0.000 1.000
#> SRR1026995 2 0.0000 0.989 0.000 1.000
#> SRR1026996 2 0.0000 0.989 0.000 1.000
#> SRR1026997 2 0.0000 0.989 0.000 1.000
#> SRR1026998 1 0.0000 0.943 1.000 0.000
#> SRR1026999 1 0.0000 0.943 1.000 0.000
#> SRR1027000 2 0.0000 0.989 0.000 1.000
#> SRR1027001 1 0.3114 0.902 0.944 0.056
#> SRR1027002 2 0.0000 0.989 0.000 1.000
#> SRR1027003 2 0.2778 0.944 0.048 0.952
#> SRR1027004 2 0.0000 0.989 0.000 1.000
#> SRR1027005 1 0.0000 0.943 1.000 0.000
#> SRR1027006 2 0.4161 0.904 0.084 0.916
#> SRR1027007 2 0.0000 0.989 0.000 1.000
#> SRR1027008 2 0.0000 0.989 0.000 1.000
#> SRR1027009 1 0.0000 0.943 1.000 0.000
#> SRR1027010 2 0.1843 0.964 0.028 0.972
#> SRR1027011 1 0.0000 0.943 1.000 0.000
#> SRR1177668 2 0.5629 0.844 0.132 0.868
#> SRR1177667 2 0.0000 0.989 0.000 1.000
#> SRR1177669 2 0.3584 0.922 0.068 0.932
#> SRR1177670 1 0.0000 0.943 1.000 0.000
#> SRR1177671 1 0.9044 0.590 0.680 0.320
#> SRR1177672 1 0.0000 0.943 1.000 0.000
#> SRR1177673 2 0.0000 0.989 0.000 1.000
#> SRR1177674 1 0.0000 0.943 1.000 0.000
#> SRR1177675 2 0.0000 0.989 0.000 1.000
#> SRR1177676 1 0.0000 0.943 1.000 0.000
#> SRR1177677 2 0.0000 0.989 0.000 1.000
#> SRR1177678 2 0.0000 0.989 0.000 1.000
#> SRR1177679 2 0.0000 0.989 0.000 1.000
#> SRR1177680 2 0.0000 0.989 0.000 1.000
#> SRR1177681 2 0.0000 0.989 0.000 1.000
#> SRR1177682 2 0.0000 0.989 0.000 1.000
#> SRR1177683 2 0.0000 0.989 0.000 1.000
#> SRR1177684 2 0.0000 0.989 0.000 1.000
#> SRR1177685 2 0.0000 0.989 0.000 1.000
#> SRR1177686 1 0.0000 0.943 1.000 0.000
#> SRR1177687 2 0.0000 0.989 0.000 1.000
#> SRR1177688 2 0.0000 0.989 0.000 1.000
#> SRR1177689 2 0.0000 0.989 0.000 1.000
#> SRR1177690 2 0.0000 0.989 0.000 1.000
#> SRR1177691 2 0.0000 0.989 0.000 1.000
#> SRR1177692 1 0.9209 0.561 0.664 0.336
#> SRR1177693 2 0.1843 0.965 0.028 0.972
#> SRR1177694 2 0.0000 0.989 0.000 1.000
#> SRR1177695 2 0.0000 0.989 0.000 1.000
#> SRR1177697 2 0.0000 0.989 0.000 1.000
#> SRR1177696 1 0.0000 0.943 1.000 0.000
#> SRR1177698 1 0.0000 0.943 1.000 0.000
#> SRR1177700 2 0.0672 0.983 0.008 0.992
#> SRR1177701 2 0.0000 0.989 0.000 1.000
#> SRR1177702 1 0.2778 0.910 0.952 0.048
#> SRR1177703 2 0.0000 0.989 0.000 1.000
#> SRR1177704 1 0.0000 0.943 1.000 0.000
#> SRR1177705 2 0.0000 0.989 0.000 1.000
#> SRR1177706 2 0.0000 0.989 0.000 1.000
#> SRR1177707 2 0.0000 0.989 0.000 1.000
#> SRR1177708 2 0.0000 0.989 0.000 1.000
#> SRR1177709 2 0.0000 0.989 0.000 1.000
#> SRR1177710 1 0.0376 0.940 0.996 0.004
#> SRR1177711 2 0.0000 0.989 0.000 1.000
#> SRR1177712 1 0.9833 0.314 0.576 0.424
#> SRR1177714 1 0.9044 0.590 0.680 0.320
#> SRR1177713 1 0.1414 0.930 0.980 0.020
#> SRR1177715 2 0.0000 0.989 0.000 1.000
#> SRR1177716 1 0.0000 0.943 1.000 0.000
#> SRR1177717 2 0.0000 0.989 0.000 1.000
#> SRR1177718 2 0.0938 0.979 0.012 0.988
#> SRR1177719 2 0.0000 0.989 0.000 1.000
#> SRR1177720 1 0.0000 0.943 1.000 0.000
#> SRR1177721 2 0.0672 0.983 0.008 0.992
#> SRR1177722 2 0.2043 0.961 0.032 0.968
#> SRR1177723 2 0.0000 0.989 0.000 1.000
#> SRR1177725 2 0.0000 0.989 0.000 1.000
#> SRR1177724 2 0.0000 0.989 0.000 1.000
#> SRR1177726 1 0.0000 0.943 1.000 0.000
#> SRR1177727 2 0.0000 0.989 0.000 1.000
#> SRR1177728 1 0.0000 0.943 1.000 0.000
#> SRR1177729 2 0.1184 0.975 0.016 0.984
#> SRR1177730 1 0.0000 0.943 1.000 0.000
#> SRR1177731 2 0.0000 0.989 0.000 1.000
#> SRR1177732 2 0.1184 0.975 0.016 0.984
#> SRR1177733 2 0.0000 0.989 0.000 1.000
#> SRR1177734 2 0.0000 0.989 0.000 1.000
#> SRR1177735 2 0.0000 0.989 0.000 1.000
#> SRR1177736 2 0.0000 0.989 0.000 1.000
#> SRR1177737 2 0.0000 0.989 0.000 1.000
#> SRR1177738 1 0.0000 0.943 1.000 0.000
#> SRR1177739 2 0.0000 0.989 0.000 1.000
#> SRR1177740 2 0.0000 0.989 0.000 1.000
#> SRR1177741 2 0.0000 0.989 0.000 1.000
#> SRR1177742 1 0.0000 0.943 1.000 0.000
#> SRR1177743 2 0.0376 0.986 0.004 0.996
#> SRR1177744 2 0.9170 0.485 0.332 0.668
#> SRR1177745 2 0.6801 0.770 0.180 0.820
#> SRR1177746 2 0.0000 0.989 0.000 1.000
#> SRR1177747 2 0.7745 0.693 0.228 0.772
#> SRR1177748 1 0.0000 0.943 1.000 0.000
#> SRR1177749 2 0.0000 0.989 0.000 1.000
#> SRR1177750 2 0.0000 0.989 0.000 1.000
#> SRR1177751 2 0.0000 0.989 0.000 1.000
#> SRR1177752 2 0.0000 0.989 0.000 1.000
#> SRR1177753 2 0.0000 0.989 0.000 1.000
#> SRR1177754 2 0.4298 0.899 0.088 0.912
#> SRR1177755 2 0.0000 0.989 0.000 1.000
#> SRR1177756 2 0.0000 0.989 0.000 1.000
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.2301 0.8982 0.004 0.936 0.060
#> SRR1026871 2 0.2860 0.8741 0.004 0.912 0.084
#> SRR1026872 2 0.0829 0.9390 0.004 0.984 0.012
#> SRR1026873 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026874 3 0.3998 0.8262 0.060 0.056 0.884
#> SRR1026875 2 0.4291 0.7552 0.000 0.820 0.180
#> SRR1026876 2 0.4399 0.7451 0.000 0.812 0.188
#> SRR1026877 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026879 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026880 1 0.0237 0.9542 0.996 0.004 0.000
#> SRR1026881 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026882 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026883 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026884 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026885 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026886 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026887 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026889 2 0.1267 0.9290 0.004 0.972 0.024
#> SRR1026890 3 0.5656 0.6403 0.004 0.284 0.712
#> SRR1026891 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026892 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026893 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026895 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026896 2 0.0661 0.9425 0.004 0.988 0.008
#> SRR1026897 3 0.3998 0.8262 0.060 0.056 0.884
#> SRR1026898 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026899 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026900 3 0.7256 0.6655 0.088 0.216 0.696
#> SRR1026901 3 0.0237 0.8707 0.004 0.000 0.996
#> SRR1026902 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026903 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026904 2 0.6518 -0.1324 0.004 0.512 0.484
#> SRR1026905 3 0.6373 0.4149 0.004 0.408 0.588
#> SRR1026906 2 0.4629 0.7461 0.004 0.808 0.188
#> SRR1026907 2 0.4521 0.7575 0.004 0.816 0.180
#> SRR1026908 3 0.6476 0.2711 0.004 0.448 0.548
#> SRR1026909 3 0.6468 0.2832 0.004 0.444 0.552
#> SRR1026910 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026911 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026912 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026914 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026915 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026916 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026917 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026918 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026919 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026920 3 0.6057 0.5428 0.004 0.340 0.656
#> SRR1026921 3 0.6209 0.4858 0.004 0.368 0.628
#> SRR1026922 3 0.4409 0.7599 0.004 0.172 0.824
#> SRR1026923 3 0.0592 0.8695 0.012 0.000 0.988
#> SRR1026924 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026925 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026926 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026927 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026928 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026929 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026930 1 0.5058 0.7848 0.820 0.148 0.032
#> SRR1026931 3 0.0661 0.8697 0.008 0.004 0.988
#> SRR1026932 3 0.6235 0.3222 0.000 0.436 0.564
#> SRR1026933 3 0.6168 0.3850 0.000 0.412 0.588
#> SRR1026934 3 0.5431 0.6349 0.000 0.284 0.716
#> SRR1026935 3 0.5465 0.6290 0.000 0.288 0.712
#> SRR1026936 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026937 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026938 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026939 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026940 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026941 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026942 1 0.5363 0.6218 0.724 0.276 0.000
#> SRR1026943 1 0.0592 0.9545 0.988 0.012 0.000
#> SRR1026944 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026945 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026947 2 0.6280 0.0273 0.000 0.540 0.460
#> SRR1026946 2 0.4047 0.7991 0.004 0.848 0.148
#> SRR1026948 3 0.4178 0.7651 0.000 0.172 0.828
#> SRR1026949 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026950 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026951 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026952 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026953 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026954 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026955 2 0.5216 0.6177 0.000 0.740 0.260
#> SRR1026956 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026957 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026958 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026959 3 0.0661 0.8697 0.008 0.004 0.988
#> SRR1026960 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026961 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026962 1 0.1529 0.9318 0.960 0.040 0.000
#> SRR1026963 2 0.8561 0.1283 0.420 0.484 0.096
#> SRR1026964 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026965 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026966 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026968 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026969 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026970 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026971 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026972 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026973 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026974 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026975 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026976 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026977 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026978 1 0.2165 0.9063 0.936 0.064 0.000
#> SRR1026979 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026980 3 0.6677 0.7150 0.180 0.080 0.740
#> SRR1026981 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026982 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026983 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026984 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026985 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026986 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026987 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026988 1 0.2066 0.8984 0.940 0.000 0.060
#> SRR1026989 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026990 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026991 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026992 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026993 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026994 1 0.7755 -0.0563 0.492 0.048 0.460
#> SRR1026995 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1026996 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026997 2 0.0237 0.9482 0.004 0.996 0.000
#> SRR1026998 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1027000 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1027001 1 0.6095 0.3468 0.608 0.000 0.392
#> SRR1027002 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1027003 3 0.5115 0.7052 0.228 0.004 0.768
#> SRR1027004 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1027005 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1027006 1 0.0000 0.9508 1.000 0.000 0.000
#> SRR1027007 1 0.4235 0.7733 0.824 0.176 0.000
#> SRR1027008 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1027009 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1027010 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1027011 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177668 1 0.0000 0.9508 1.000 0.000 0.000
#> SRR1177667 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177669 1 0.0000 0.9508 1.000 0.000 0.000
#> SRR1177670 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177671 3 0.0661 0.8697 0.008 0.004 0.988
#> SRR1177672 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177673 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177674 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177675 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177676 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177677 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177678 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177679 3 0.5541 0.6471 0.252 0.008 0.740
#> SRR1177680 1 0.6252 0.4078 0.648 0.008 0.344
#> SRR1177681 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177682 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177683 3 0.4351 0.7640 0.004 0.168 0.828
#> SRR1177684 3 0.4784 0.7323 0.004 0.200 0.796
#> SRR1177685 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177686 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177687 1 0.0848 0.9515 0.984 0.008 0.008
#> SRR1177688 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177689 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177690 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177691 3 0.6701 0.3285 0.412 0.012 0.576
#> SRR1177692 3 0.3619 0.7903 0.136 0.000 0.864
#> SRR1177693 3 0.4733 0.7359 0.004 0.196 0.800
#> SRR1177694 2 0.0829 0.9393 0.004 0.984 0.012
#> SRR1177695 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177697 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177696 3 0.5859 0.4896 0.344 0.000 0.656
#> SRR1177698 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177700 1 0.0475 0.9525 0.992 0.004 0.004
#> SRR1177701 2 0.4452 0.7397 0.192 0.808 0.000
#> SRR1177702 3 0.4750 0.7107 0.216 0.000 0.784
#> SRR1177703 1 0.5926 0.4508 0.644 0.356 0.000
#> SRR1177704 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177705 1 0.0592 0.9545 0.988 0.012 0.000
#> SRR1177706 3 0.6680 0.1205 0.484 0.008 0.508
#> SRR1177707 1 0.6154 0.3158 0.592 0.408 0.000
#> SRR1177708 1 0.1031 0.9445 0.976 0.024 0.000
#> SRR1177709 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177710 1 0.5254 0.6253 0.736 0.000 0.264
#> SRR1177711 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177712 3 0.3941 0.7781 0.156 0.000 0.844
#> SRR1177714 3 0.0661 0.8697 0.008 0.004 0.988
#> SRR1177713 3 0.0424 0.8703 0.008 0.000 0.992
#> SRR1177715 1 0.1015 0.9483 0.980 0.008 0.012
#> SRR1177716 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177717 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177718 3 0.6434 0.3451 0.380 0.008 0.612
#> SRR1177719 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177720 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177721 3 0.4178 0.7651 0.000 0.172 0.828
#> SRR1177722 3 0.4002 0.7754 0.000 0.160 0.840
#> SRR1177723 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177725 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177724 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177726 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177727 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177728 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177729 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177730 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177731 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177732 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177733 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177734 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177735 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177736 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177737 3 0.6822 0.1797 0.012 0.480 0.508
#> SRR1177738 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177739 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177740 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177741 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177742 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177743 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177744 1 0.1860 0.9068 0.948 0.000 0.052
#> SRR1177745 3 0.4121 0.7670 0.168 0.000 0.832
#> SRR1177746 1 0.3826 0.8235 0.868 0.008 0.124
#> SRR1177747 1 0.0424 0.9453 0.992 0.000 0.008
#> SRR1177748 3 0.0000 0.8723 0.000 0.000 1.000
#> SRR1177749 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177750 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177751 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177752 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177753 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177754 1 0.0000 0.9508 1.000 0.000 0.000
#> SRR1177755 1 0.0424 0.9574 0.992 0.008 0.000
#> SRR1177756 1 0.0424 0.9574 0.992 0.008 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.4401 0.798 0.000 0.724 0.004 0.272
#> SRR1026871 2 0.4401 0.797 0.000 0.724 0.004 0.272
#> SRR1026872 2 0.4382 0.788 0.000 0.704 0.000 0.296
#> SRR1026873 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1026874 3 0.4744 0.747 0.012 0.100 0.808 0.080
#> SRR1026875 2 0.2859 0.796 0.000 0.880 0.008 0.112
#> SRR1026876 2 0.2859 0.796 0.000 0.880 0.008 0.112
#> SRR1026877 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026878 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026879 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1026880 1 0.2002 0.904 0.936 0.020 0.044 0.000
#> SRR1026881 2 0.4972 0.625 0.000 0.544 0.000 0.456
#> SRR1026882 2 0.4955 0.646 0.000 0.556 0.000 0.444
#> SRR1026883 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026884 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026885 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026886 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026887 3 0.0376 0.891 0.000 0.004 0.992 0.004
#> SRR1026888 3 0.0712 0.888 0.008 0.004 0.984 0.004
#> SRR1026889 2 0.4877 0.696 0.000 0.592 0.000 0.408
#> SRR1026890 4 0.5409 -0.509 0.000 0.492 0.012 0.496
#> SRR1026891 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026892 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026893 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026894 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026895 4 0.2216 0.839 0.000 0.092 0.000 0.908
#> SRR1026896 4 0.3610 0.623 0.000 0.200 0.000 0.800
#> SRR1026897 3 0.4744 0.747 0.012 0.100 0.808 0.080
#> SRR1026898 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1026899 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1026900 1 0.9488 -0.193 0.372 0.304 0.136 0.188
#> SRR1026901 3 0.6416 0.608 0.200 0.152 0.648 0.000
#> SRR1026902 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026903 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026904 4 0.1798 0.892 0.000 0.040 0.016 0.944
#> SRR1026905 4 0.3571 0.791 0.008 0.088 0.036 0.868
#> SRR1026906 2 0.4621 0.793 0.000 0.708 0.008 0.284
#> SRR1026907 2 0.4594 0.795 0.000 0.712 0.008 0.280
#> SRR1026908 2 0.3498 0.811 0.000 0.832 0.008 0.160
#> SRR1026909 2 0.3498 0.811 0.000 0.832 0.008 0.160
#> SRR1026910 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026911 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026912 3 0.1888 0.852 0.000 0.016 0.940 0.044
#> SRR1026913 3 0.1833 0.859 0.000 0.024 0.944 0.032
#> SRR1026914 2 0.4972 0.625 0.000 0.544 0.000 0.456
#> SRR1026915 2 0.4972 0.625 0.000 0.544 0.000 0.456
#> SRR1026916 2 0.4941 0.657 0.000 0.564 0.000 0.436
#> SRR1026917 2 0.4948 0.652 0.000 0.560 0.000 0.440
#> SRR1026918 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026919 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026920 2 0.4990 0.749 0.000 0.640 0.008 0.352
#> SRR1026921 2 0.4917 0.762 0.000 0.656 0.008 0.336
#> SRR1026922 2 0.4607 0.773 0.056 0.816 0.016 0.112
#> SRR1026923 3 0.7137 0.503 0.188 0.256 0.556 0.000
#> SRR1026924 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026925 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026926 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026927 4 0.0469 0.938 0.012 0.000 0.000 0.988
#> SRR1026928 4 0.0336 0.948 0.000 0.008 0.000 0.992
#> SRR1026929 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026930 1 0.2443 0.894 0.916 0.060 0.024 0.000
#> SRR1026931 3 0.4948 0.516 0.000 0.440 0.560 0.000
#> SRR1026932 2 0.2859 0.796 0.000 0.880 0.008 0.112
#> SRR1026933 2 0.2859 0.796 0.000 0.880 0.008 0.112
#> SRR1026934 2 0.3142 0.804 0.000 0.860 0.008 0.132
#> SRR1026935 2 0.3401 0.810 0.000 0.840 0.008 0.152
#> SRR1026936 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026937 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026938 2 0.4855 0.704 0.000 0.600 0.000 0.400
#> SRR1026939 2 0.4843 0.707 0.000 0.604 0.000 0.396
#> SRR1026940 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1026941 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.0657 0.932 0.984 0.004 0.000 0.012
#> SRR1026943 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1026944 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1026945 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1026947 2 0.3545 0.812 0.000 0.828 0.008 0.164
#> SRR1026946 2 0.4836 0.772 0.000 0.672 0.008 0.320
#> SRR1026948 2 0.3325 0.789 0.012 0.872 0.012 0.104
#> SRR1026949 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1026950 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1026951 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1026952 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1026953 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026955 2 0.2859 0.796 0.000 0.880 0.008 0.112
#> SRR1026956 4 0.0188 0.950 0.004 0.000 0.000 0.996
#> SRR1026957 2 0.4981 0.610 0.000 0.536 0.000 0.464
#> SRR1026958 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1026959 3 0.4948 0.516 0.000 0.440 0.560 0.000
#> SRR1026960 4 0.0592 0.939 0.000 0.016 0.000 0.984
#> SRR1026961 4 0.0188 0.951 0.000 0.004 0.000 0.996
#> SRR1026962 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1026963 1 0.7589 0.468 0.596 0.048 0.232 0.124
#> SRR1026964 4 0.0336 0.948 0.000 0.008 0.000 0.992
#> SRR1026965 4 0.0336 0.948 0.000 0.008 0.000 0.992
#> SRR1026966 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026967 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026968 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026969 4 0.0188 0.950 0.004 0.000 0.000 0.996
#> SRR1026970 4 0.0188 0.951 0.000 0.004 0.000 0.996
#> SRR1026971 4 0.0188 0.951 0.000 0.004 0.000 0.996
#> SRR1026972 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026973 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026974 4 0.1637 0.860 0.060 0.000 0.000 0.940
#> SRR1026975 4 0.4164 0.448 0.264 0.000 0.000 0.736
#> SRR1026976 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026977 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026978 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1026979 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1026980 1 0.6396 0.679 0.712 0.160 0.068 0.060
#> SRR1026981 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026982 4 0.0188 0.951 0.000 0.004 0.000 0.996
#> SRR1026983 4 0.0188 0.951 0.000 0.004 0.000 0.996
#> SRR1026984 4 0.0188 0.951 0.000 0.004 0.000 0.996
#> SRR1026985 4 0.0188 0.951 0.000 0.004 0.000 0.996
#> SRR1026986 1 0.0469 0.935 0.988 0.012 0.000 0.000
#> SRR1026987 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1026988 1 0.4188 0.808 0.824 0.064 0.112 0.000
#> SRR1026989 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026990 4 0.0376 0.948 0.004 0.004 0.000 0.992
#> SRR1026991 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026992 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1026993 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1026994 1 0.3979 0.817 0.844 0.032 0.112 0.012
#> SRR1026995 1 0.1004 0.926 0.972 0.024 0.004 0.000
#> SRR1026996 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026997 4 0.0000 0.953 0.000 0.000 0.000 1.000
#> SRR1026998 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1026999 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1027000 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1027001 3 0.4746 0.415 0.368 0.000 0.632 0.000
#> SRR1027002 1 0.1716 0.904 0.936 0.064 0.000 0.000
#> SRR1027003 1 0.6019 0.626 0.688 0.136 0.176 0.000
#> SRR1027004 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1027005 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1027006 1 0.2256 0.897 0.924 0.056 0.020 0.000
#> SRR1027007 1 0.0376 0.936 0.992 0.004 0.000 0.004
#> SRR1027008 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1027009 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1027010 1 0.0336 0.935 0.992 0.000 0.008 0.000
#> SRR1027011 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177668 1 0.3907 0.803 0.828 0.032 0.140 0.000
#> SRR1177667 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177669 1 0.4364 0.787 0.808 0.056 0.136 0.000
#> SRR1177670 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177671 3 0.4948 0.516 0.000 0.440 0.560 0.000
#> SRR1177672 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177673 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177674 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177675 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177676 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177677 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177678 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177679 1 0.7231 0.334 0.540 0.192 0.268 0.000
#> SRR1177680 1 0.2542 0.870 0.904 0.012 0.084 0.000
#> SRR1177681 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177682 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177683 2 0.6433 0.684 0.084 0.724 0.096 0.096
#> SRR1177684 2 0.5085 0.776 0.068 0.780 0.012 0.140
#> SRR1177685 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177686 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177687 1 0.0376 0.936 0.992 0.004 0.004 0.000
#> SRR1177688 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177689 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177690 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177691 1 0.5771 0.674 0.712 0.144 0.144 0.000
#> SRR1177692 3 0.7236 0.436 0.312 0.168 0.520 0.000
#> SRR1177693 2 0.4406 0.811 0.004 0.788 0.024 0.184
#> SRR1177694 2 0.4888 0.688 0.000 0.588 0.000 0.412
#> SRR1177695 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177697 1 0.1211 0.919 0.960 0.040 0.000 0.000
#> SRR1177696 3 0.5452 0.442 0.360 0.024 0.616 0.000
#> SRR1177698 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177700 1 0.1398 0.916 0.956 0.040 0.004 0.000
#> SRR1177701 1 0.4188 0.652 0.752 0.004 0.000 0.244
#> SRR1177702 3 0.3107 0.816 0.080 0.036 0.884 0.000
#> SRR1177703 1 0.2266 0.860 0.912 0.004 0.000 0.084
#> SRR1177704 3 0.0817 0.883 0.000 0.024 0.976 0.000
#> SRR1177705 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177706 1 0.4070 0.794 0.824 0.044 0.132 0.000
#> SRR1177707 1 0.2197 0.872 0.916 0.004 0.000 0.080
#> SRR1177708 1 0.0336 0.934 0.992 0.000 0.000 0.008
#> SRR1177709 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177710 3 0.4955 0.195 0.444 0.000 0.556 0.000
#> SRR1177711 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177712 1 0.6831 0.476 0.612 0.096 0.276 0.016
#> SRR1177714 3 0.4948 0.516 0.000 0.440 0.560 0.000
#> SRR1177713 3 0.1867 0.856 0.000 0.072 0.928 0.000
#> SRR1177715 1 0.1557 0.910 0.944 0.056 0.000 0.000
#> SRR1177716 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177718 3 0.7077 0.453 0.316 0.148 0.536 0.000
#> SRR1177719 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177720 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1177721 2 0.3188 0.795 0.008 0.872 0.008 0.112
#> SRR1177722 2 0.3557 0.780 0.000 0.856 0.036 0.108
#> SRR1177723 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177725 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177724 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177726 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177728 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177730 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177731 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177732 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177733 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177734 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177735 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177736 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177737 2 0.4955 0.795 0.016 0.708 0.004 0.272
#> SRR1177738 3 0.0188 0.893 0.000 0.004 0.996 0.000
#> SRR1177739 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177740 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177741 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177742 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177744 1 0.4050 0.776 0.808 0.024 0.168 0.000
#> SRR1177745 1 0.7073 0.141 0.504 0.132 0.364 0.000
#> SRR1177746 1 0.2313 0.896 0.924 0.032 0.044 0.000
#> SRR1177747 1 0.5077 0.732 0.760 0.080 0.160 0.000
#> SRR1177748 3 0.0000 0.893 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177750 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177751 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177752 1 0.0188 0.938 0.996 0.004 0.000 0.000
#> SRR1177753 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177754 1 0.1936 0.908 0.940 0.032 0.028 0.000
#> SRR1177755 1 0.0000 0.938 1.000 0.000 0.000 0.000
#> SRR1177756 1 0.0188 0.938 0.996 0.004 0.000 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.3690 0.7851 0.000 0.780 0.000 0.200 0.020
#> SRR1026871 2 0.3621 0.7852 0.000 0.788 0.000 0.192 0.020
#> SRR1026872 2 0.3852 0.7797 0.000 0.760 0.000 0.220 0.020
#> SRR1026873 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1026874 3 0.5699 0.5829 0.012 0.044 0.720 0.108 0.116
#> SRR1026875 2 0.1195 0.7223 0.000 0.960 0.000 0.012 0.028
#> SRR1026876 2 0.1195 0.7223 0.000 0.960 0.000 0.012 0.028
#> SRR1026877 3 0.1892 0.8407 0.000 0.004 0.916 0.000 0.080
#> SRR1026878 3 0.1831 0.8417 0.000 0.004 0.920 0.000 0.076
#> SRR1026879 1 0.0798 0.8859 0.976 0.000 0.016 0.000 0.008
#> SRR1026880 1 0.3454 0.8099 0.848 0.000 0.100 0.016 0.036
#> SRR1026881 2 0.4808 0.6030 0.000 0.620 0.000 0.348 0.032
#> SRR1026882 2 0.4642 0.6816 0.000 0.660 0.000 0.308 0.032
#> SRR1026883 4 0.1524 0.8891 0.016 0.016 0.000 0.952 0.016
#> SRR1026884 4 0.1419 0.8905 0.016 0.016 0.000 0.956 0.012
#> SRR1026885 4 0.0671 0.8948 0.016 0.004 0.000 0.980 0.000
#> SRR1026886 4 0.0798 0.8955 0.016 0.008 0.000 0.976 0.000
#> SRR1026887 3 0.2264 0.8388 0.000 0.004 0.912 0.024 0.060
#> SRR1026888 3 0.2264 0.8388 0.000 0.004 0.912 0.024 0.060
#> SRR1026889 2 0.3849 0.7784 0.000 0.752 0.000 0.232 0.016
#> SRR1026890 4 0.5778 0.2247 0.016 0.364 0.032 0.572 0.016
#> SRR1026891 4 0.2362 0.8557 0.084 0.008 0.000 0.900 0.008
#> SRR1026892 4 0.2362 0.8557 0.084 0.008 0.000 0.900 0.008
#> SRR1026893 3 0.2206 0.8403 0.000 0.004 0.912 0.016 0.068
#> SRR1026894 3 0.2206 0.8415 0.000 0.004 0.912 0.016 0.068
#> SRR1026895 4 0.2277 0.8728 0.016 0.052 0.000 0.916 0.016
#> SRR1026896 4 0.3223 0.8073 0.016 0.116 0.000 0.852 0.016
#> SRR1026897 3 0.5699 0.5829 0.012 0.044 0.720 0.108 0.116
#> SRR1026898 1 0.0510 0.8891 0.984 0.000 0.000 0.000 0.016
#> SRR1026899 1 0.1996 0.8634 0.928 0.000 0.048 0.012 0.012
#> SRR1026900 1 0.7514 0.0328 0.428 0.340 0.000 0.164 0.068
#> SRR1026901 3 0.7813 -0.1221 0.368 0.104 0.376 0.000 0.152
#> SRR1026902 4 0.0671 0.8949 0.016 0.004 0.000 0.980 0.000
#> SRR1026903 4 0.0671 0.8949 0.016 0.004 0.000 0.980 0.000
#> SRR1026904 4 0.1630 0.8943 0.016 0.036 0.000 0.944 0.004
#> SRR1026905 4 0.2484 0.8808 0.016 0.060 0.008 0.908 0.008
#> SRR1026906 2 0.3264 0.7921 0.000 0.820 0.000 0.164 0.016
#> SRR1026907 2 0.3304 0.7921 0.000 0.816 0.000 0.168 0.016
#> SRR1026908 2 0.1638 0.7702 0.000 0.932 0.000 0.064 0.004
#> SRR1026909 2 0.1522 0.7549 0.000 0.944 0.000 0.044 0.012
#> SRR1026910 4 0.0510 0.8939 0.016 0.000 0.000 0.984 0.000
#> SRR1026911 4 0.0671 0.8940 0.016 0.000 0.000 0.980 0.004
#> SRR1026912 3 0.3663 0.7898 0.000 0.016 0.840 0.060 0.084
#> SRR1026913 3 0.4087 0.7587 0.000 0.024 0.816 0.068 0.092
#> SRR1026914 2 0.4106 0.7632 0.000 0.724 0.000 0.256 0.020
#> SRR1026915 2 0.4206 0.7468 0.000 0.708 0.000 0.272 0.020
#> SRR1026916 2 0.4318 0.7220 0.000 0.688 0.000 0.292 0.020
#> SRR1026917 2 0.4318 0.7220 0.000 0.688 0.000 0.292 0.020
#> SRR1026918 4 0.3069 0.8340 0.016 0.104 0.000 0.864 0.016
#> SRR1026919 4 0.2347 0.8788 0.016 0.056 0.000 0.912 0.016
#> SRR1026920 4 0.5166 -0.0233 0.016 0.444 0.000 0.524 0.016
#> SRR1026921 4 0.5170 -0.0421 0.016 0.448 0.000 0.520 0.016
#> SRR1026922 2 0.5029 0.6073 0.112 0.752 0.000 0.036 0.100
#> SRR1026923 1 0.7200 0.3254 0.504 0.200 0.048 0.000 0.248
#> SRR1026924 4 0.2482 0.8712 0.016 0.064 0.000 0.904 0.016
#> SRR1026925 3 0.2332 0.8406 0.000 0.004 0.904 0.016 0.076
#> SRR1026926 4 0.0510 0.8939 0.016 0.000 0.000 0.984 0.000
#> SRR1026927 4 0.2699 0.8375 0.100 0.008 0.000 0.880 0.012
#> SRR1026928 4 0.3793 0.7717 0.016 0.168 0.000 0.800 0.016
#> SRR1026929 3 0.1831 0.8423 0.000 0.004 0.920 0.000 0.076
#> SRR1026930 1 0.5084 0.7038 0.712 0.144 0.000 0.004 0.140
#> SRR1026931 5 0.5877 1.0000 0.000 0.200 0.196 0.000 0.604
#> SRR1026932 2 0.1281 0.7187 0.000 0.956 0.000 0.012 0.032
#> SRR1026933 2 0.1281 0.7187 0.000 0.956 0.000 0.012 0.032
#> SRR1026934 2 0.1211 0.7278 0.000 0.960 0.000 0.016 0.024
#> SRR1026935 2 0.1310 0.7375 0.000 0.956 0.000 0.024 0.020
#> SRR1026936 4 0.0798 0.8938 0.016 0.000 0.000 0.976 0.008
#> SRR1026937 4 0.0510 0.8939 0.016 0.000 0.000 0.984 0.000
#> SRR1026938 2 0.4302 0.7633 0.000 0.720 0.000 0.248 0.032
#> SRR1026939 2 0.4325 0.7686 0.000 0.724 0.000 0.240 0.036
#> SRR1026940 1 0.0609 0.8877 0.980 0.000 0.000 0.000 0.020
#> SRR1026941 3 0.0510 0.8498 0.000 0.000 0.984 0.000 0.016
#> SRR1026942 1 0.2359 0.8530 0.912 0.004 0.016 0.060 0.008
#> SRR1026943 1 0.0451 0.8894 0.988 0.004 0.000 0.000 0.008
#> SRR1026944 1 0.0609 0.8889 0.980 0.000 0.000 0.000 0.020
#> SRR1026945 3 0.1701 0.8400 0.000 0.000 0.936 0.016 0.048
#> SRR1026947 2 0.2069 0.7757 0.000 0.912 0.000 0.076 0.012
#> SRR1026946 2 0.3419 0.7905 0.000 0.804 0.000 0.180 0.016
#> SRR1026948 2 0.2605 0.7241 0.016 0.900 0.000 0.024 0.060
#> SRR1026949 1 0.2536 0.8429 0.868 0.004 0.000 0.000 0.128
#> SRR1026950 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1026951 1 0.2660 0.8409 0.864 0.008 0.000 0.000 0.128
#> SRR1026952 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1026953 3 0.0000 0.8483 0.000 0.000 1.000 0.000 0.000
#> SRR1026954 4 0.1518 0.8935 0.016 0.020 0.000 0.952 0.012
#> SRR1026955 2 0.1195 0.7223 0.000 0.960 0.000 0.012 0.028
#> SRR1026956 4 0.3077 0.8517 0.084 0.024 0.000 0.872 0.020
#> SRR1026957 2 0.4779 0.6203 0.000 0.628 0.000 0.340 0.032
#> SRR1026958 1 0.1638 0.8744 0.932 0.004 0.000 0.000 0.064
#> SRR1026959 5 0.5877 1.0000 0.000 0.200 0.196 0.000 0.604
#> SRR1026960 4 0.3912 0.8215 0.076 0.084 0.000 0.824 0.016
#> SRR1026961 4 0.1787 0.8918 0.016 0.032 0.000 0.940 0.012
#> SRR1026962 1 0.0566 0.8888 0.984 0.000 0.000 0.004 0.012
#> SRR1026963 3 0.7587 0.0438 0.372 0.040 0.452 0.068 0.068
#> SRR1026964 4 0.1869 0.8910 0.016 0.036 0.000 0.936 0.012
#> SRR1026965 4 0.1869 0.8910 0.016 0.036 0.000 0.936 0.012
#> SRR1026966 3 0.1571 0.8455 0.000 0.004 0.936 0.000 0.060
#> SRR1026967 3 0.1571 0.8455 0.000 0.004 0.936 0.000 0.060
#> SRR1026968 4 0.1211 0.8944 0.016 0.024 0.000 0.960 0.000
#> SRR1026969 4 0.3018 0.8559 0.080 0.024 0.000 0.876 0.020
#> SRR1026970 4 0.3018 0.8559 0.080 0.024 0.000 0.876 0.020
#> SRR1026971 4 0.3018 0.8559 0.080 0.024 0.000 0.876 0.020
#> SRR1026972 4 0.1314 0.8916 0.016 0.012 0.000 0.960 0.012
#> SRR1026973 4 0.1306 0.8916 0.016 0.016 0.000 0.960 0.008
#> SRR1026974 4 0.3640 0.8049 0.120 0.028 0.000 0.832 0.020
#> SRR1026975 4 0.4792 0.5912 0.248 0.028 0.000 0.704 0.020
#> SRR1026976 4 0.0510 0.8939 0.016 0.000 0.000 0.984 0.000
#> SRR1026977 4 0.0510 0.8939 0.016 0.000 0.000 0.984 0.000
#> SRR1026978 1 0.1369 0.8817 0.956 0.028 0.000 0.008 0.008
#> SRR1026979 3 0.0404 0.8472 0.000 0.000 0.988 0.000 0.012
#> SRR1026980 1 0.6647 0.6332 0.672 0.108 0.044 0.072 0.104
#> SRR1026981 3 0.2873 0.8181 0.000 0.000 0.856 0.016 0.128
#> SRR1026982 4 0.1799 0.8925 0.020 0.028 0.000 0.940 0.012
#> SRR1026983 4 0.1701 0.8922 0.016 0.028 0.000 0.944 0.012
#> SRR1026984 4 0.2957 0.8239 0.008 0.120 0.000 0.860 0.012
#> SRR1026985 4 0.2907 0.8284 0.008 0.116 0.000 0.864 0.012
#> SRR1026986 1 0.2193 0.8590 0.900 0.008 0.000 0.000 0.092
#> SRR1026987 1 0.0404 0.8885 0.988 0.000 0.000 0.000 0.012
#> SRR1026988 1 0.4391 0.7772 0.800 0.008 0.116 0.020 0.056
#> SRR1026989 3 0.0566 0.8509 0.000 0.000 0.984 0.004 0.012
#> SRR1026990 4 0.3189 0.8531 0.080 0.032 0.000 0.868 0.020
#> SRR1026991 3 0.1787 0.8460 0.000 0.004 0.936 0.016 0.044
#> SRR1026992 1 0.0290 0.8889 0.992 0.000 0.000 0.000 0.008
#> SRR1026993 1 0.0162 0.8888 0.996 0.000 0.000 0.000 0.004
#> SRR1026994 1 0.3241 0.8358 0.856 0.028 0.012 0.000 0.104
#> SRR1026995 1 0.1270 0.8827 0.948 0.000 0.000 0.000 0.052
#> SRR1026996 4 0.0510 0.8939 0.016 0.000 0.000 0.984 0.000
#> SRR1026997 4 0.0510 0.8939 0.016 0.000 0.000 0.984 0.000
#> SRR1026998 3 0.1768 0.8438 0.000 0.004 0.924 0.000 0.072
#> SRR1026999 3 0.1768 0.8438 0.000 0.004 0.924 0.000 0.072
#> SRR1027000 1 0.0290 0.8889 0.992 0.000 0.000 0.000 0.008
#> SRR1027001 3 0.3658 0.6833 0.116 0.000 0.832 0.016 0.036
#> SRR1027002 1 0.2777 0.8423 0.864 0.016 0.000 0.000 0.120
#> SRR1027003 1 0.5440 0.6451 0.664 0.084 0.012 0.000 0.240
#> SRR1027004 1 0.1282 0.8842 0.952 0.004 0.000 0.000 0.044
#> SRR1027005 3 0.2020 0.8173 0.000 0.000 0.900 0.000 0.100
#> SRR1027006 1 0.2929 0.8400 0.876 0.000 0.076 0.004 0.044
#> SRR1027007 1 0.1442 0.8772 0.952 0.032 0.000 0.012 0.004
#> SRR1027008 1 0.0290 0.8889 0.992 0.000 0.000 0.000 0.008
#> SRR1027009 3 0.0000 0.8483 0.000 0.000 1.000 0.000 0.000
#> SRR1027010 1 0.2673 0.8391 0.892 0.000 0.076 0.016 0.016
#> SRR1027011 3 0.1544 0.8313 0.000 0.000 0.932 0.000 0.068
#> SRR1177668 1 0.5245 0.5051 0.648 0.000 0.292 0.016 0.044
#> SRR1177667 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1177669 1 0.5272 0.5638 0.676 0.008 0.260 0.016 0.040
#> SRR1177670 3 0.0912 0.8465 0.000 0.000 0.972 0.016 0.012
#> SRR1177671 5 0.5877 1.0000 0.000 0.200 0.196 0.000 0.604
#> SRR1177672 3 0.0912 0.8465 0.000 0.000 0.972 0.016 0.012
#> SRR1177673 1 0.0912 0.8863 0.972 0.000 0.016 0.000 0.012
#> SRR1177674 3 0.0404 0.8472 0.000 0.000 0.988 0.000 0.012
#> SRR1177675 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1177676 3 0.0912 0.8465 0.000 0.000 0.972 0.016 0.012
#> SRR1177677 1 0.0290 0.8889 0.992 0.000 0.000 0.000 0.008
#> SRR1177678 1 0.0566 0.8888 0.984 0.000 0.012 0.000 0.004
#> SRR1177679 1 0.6372 0.4543 0.552 0.180 0.008 0.000 0.260
#> SRR1177680 1 0.4375 0.7227 0.728 0.032 0.004 0.000 0.236
#> SRR1177681 1 0.0162 0.8888 0.996 0.000 0.000 0.000 0.004
#> SRR1177682 1 0.0290 0.8889 0.992 0.000 0.000 0.000 0.008
#> SRR1177683 2 0.4827 0.6793 0.060 0.784 0.008 0.052 0.096
#> SRR1177684 2 0.4278 0.7029 0.068 0.812 0.000 0.052 0.068
#> SRR1177685 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1177686 3 0.1792 0.8273 0.000 0.000 0.916 0.000 0.084
#> SRR1177687 1 0.3530 0.7774 0.784 0.012 0.000 0.000 0.204
#> SRR1177688 1 0.0609 0.8885 0.980 0.000 0.000 0.000 0.020
#> SRR1177689 1 0.1408 0.8799 0.948 0.008 0.000 0.000 0.044
#> SRR1177690 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1177691 1 0.6027 0.5445 0.600 0.144 0.008 0.000 0.248
#> SRR1177692 1 0.7025 0.4807 0.584 0.108 0.152 0.000 0.156
#> SRR1177693 2 0.3817 0.7767 0.000 0.824 0.012 0.108 0.056
#> SRR1177694 2 0.4227 0.7212 0.000 0.692 0.000 0.292 0.016
#> SRR1177695 1 0.0510 0.8896 0.984 0.000 0.000 0.000 0.016
#> SRR1177697 1 0.1764 0.8736 0.928 0.008 0.000 0.000 0.064
#> SRR1177696 1 0.5967 0.3219 0.556 0.008 0.364 0.016 0.056
#> SRR1177698 3 0.0510 0.8471 0.000 0.000 0.984 0.000 0.016
#> SRR1177700 1 0.1628 0.8796 0.936 0.008 0.000 0.000 0.056
#> SRR1177701 1 0.4952 0.5992 0.704 0.036 0.000 0.236 0.024
#> SRR1177702 3 0.4065 0.6972 0.088 0.004 0.820 0.016 0.072
#> SRR1177703 1 0.2741 0.8377 0.892 0.032 0.000 0.064 0.012
#> SRR1177704 3 0.3402 0.7993 0.000 0.012 0.832 0.016 0.140
#> SRR1177705 1 0.0451 0.8897 0.988 0.004 0.000 0.000 0.008
#> SRR1177706 1 0.5411 0.6398 0.664 0.092 0.008 0.000 0.236
#> SRR1177707 1 0.3522 0.7896 0.844 0.032 0.000 0.104 0.020
#> SRR1177708 1 0.1310 0.8827 0.956 0.000 0.020 0.000 0.024
#> SRR1177709 1 0.0510 0.8881 0.984 0.000 0.000 0.000 0.016
#> SRR1177710 3 0.3996 0.6472 0.132 0.000 0.808 0.016 0.044
#> SRR1177711 1 0.0510 0.8890 0.984 0.000 0.000 0.000 0.016
#> SRR1177712 3 0.7129 0.0912 0.352 0.020 0.496 0.048 0.084
#> SRR1177714 5 0.5877 1.0000 0.000 0.200 0.196 0.000 0.604
#> SRR1177713 3 0.4208 0.7391 0.004 0.024 0.780 0.016 0.176
#> SRR1177715 1 0.2953 0.8260 0.844 0.012 0.000 0.000 0.144
#> SRR1177716 3 0.2020 0.8173 0.000 0.000 0.900 0.000 0.100
#> SRR1177717 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1177718 1 0.7290 0.0339 0.448 0.068 0.356 0.000 0.128
#> SRR1177719 1 0.0510 0.8890 0.984 0.000 0.000 0.000 0.016
#> SRR1177720 3 0.2377 0.8164 0.000 0.000 0.872 0.000 0.128
#> SRR1177721 2 0.2409 0.7331 0.008 0.908 0.000 0.028 0.056
#> SRR1177722 2 0.2045 0.6713 0.004 0.928 0.020 0.004 0.044
#> SRR1177723 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1177725 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1177724 1 0.1043 0.8867 0.960 0.000 0.000 0.000 0.040
#> SRR1177726 3 0.0000 0.8483 0.000 0.000 1.000 0.000 0.000
#> SRR1177727 1 0.0579 0.8893 0.984 0.000 0.008 0.000 0.008
#> SRR1177728 3 0.0000 0.8483 0.000 0.000 1.000 0.000 0.000
#> SRR1177729 1 0.0566 0.8890 0.984 0.000 0.004 0.000 0.012
#> SRR1177730 3 0.0912 0.8465 0.000 0.000 0.972 0.016 0.012
#> SRR1177731 1 0.0693 0.8870 0.980 0.000 0.012 0.000 0.008
#> SRR1177732 1 0.2277 0.8573 0.916 0.000 0.052 0.016 0.016
#> SRR1177733 1 0.0290 0.8891 0.992 0.000 0.000 0.000 0.008
#> SRR1177734 1 0.0794 0.8876 0.972 0.000 0.000 0.000 0.028
#> SRR1177735 1 0.1430 0.8788 0.944 0.004 0.000 0.000 0.052
#> SRR1177736 1 0.0510 0.8887 0.984 0.000 0.000 0.000 0.016
#> SRR1177737 2 0.4361 0.7727 0.040 0.788 0.000 0.140 0.032
#> SRR1177738 3 0.2886 0.8254 0.000 0.004 0.864 0.016 0.116
#> SRR1177739 1 0.0162 0.8888 0.996 0.000 0.000 0.000 0.004
#> SRR1177740 1 0.0963 0.8845 0.964 0.000 0.000 0.000 0.036
#> SRR1177741 1 0.0451 0.8894 0.988 0.000 0.004 0.000 0.008
#> SRR1177742 3 0.0162 0.8481 0.000 0.000 0.996 0.000 0.004
#> SRR1177743 1 0.1988 0.8613 0.928 0.000 0.048 0.016 0.008
#> SRR1177744 1 0.5324 0.6578 0.708 0.012 0.204 0.016 0.060
#> SRR1177745 1 0.5873 0.5800 0.624 0.140 0.008 0.000 0.228
#> SRR1177746 1 0.3750 0.7505 0.756 0.012 0.000 0.000 0.232
#> SRR1177747 1 0.6182 0.1845 0.512 0.016 0.404 0.016 0.052
#> SRR1177748 3 0.1608 0.8297 0.000 0.000 0.928 0.000 0.072
#> SRR1177749 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1177750 1 0.0290 0.8889 0.992 0.000 0.000 0.000 0.008
#> SRR1177751 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1177752 1 0.0404 0.8888 0.988 0.000 0.000 0.000 0.012
#> SRR1177753 1 0.0162 0.8887 0.996 0.000 0.000 0.000 0.004
#> SRR1177754 1 0.2925 0.8431 0.884 0.000 0.064 0.016 0.036
#> SRR1177755 1 0.0794 0.8889 0.972 0.000 0.000 0.000 0.028
#> SRR1177756 1 0.1341 0.8825 0.944 0.000 0.000 0.000 0.056
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.3803 0.6978 0.000 0.724 0.000 0.252 0.004 0.020
#> SRR1026871 2 0.3956 0.6972 0.000 0.716 0.000 0.252 0.004 0.028
#> SRR1026872 2 0.3744 0.6961 0.000 0.724 0.000 0.256 0.004 0.016
#> SRR1026873 1 0.0260 0.8059 0.992 0.000 0.000 0.000 0.008 0.000
#> SRR1026874 3 0.4592 0.7746 0.004 0.024 0.760 0.036 0.148 0.028
#> SRR1026875 2 0.2020 0.6462 0.000 0.896 0.000 0.008 0.000 0.096
#> SRR1026876 2 0.2020 0.6462 0.000 0.896 0.000 0.008 0.000 0.096
#> SRR1026877 3 0.2531 0.8603 0.000 0.000 0.856 0.000 0.132 0.012
#> SRR1026878 3 0.2531 0.8603 0.000 0.000 0.856 0.000 0.132 0.012
#> SRR1026879 1 0.1471 0.7916 0.932 0.000 0.000 0.000 0.064 0.004
#> SRR1026880 1 0.5388 0.4221 0.668 0.008 0.136 0.000 0.164 0.024
#> SRR1026881 2 0.4453 0.6132 0.000 0.636 0.000 0.328 0.020 0.016
#> SRR1026882 2 0.4374 0.6458 0.000 0.656 0.000 0.308 0.020 0.016
#> SRR1026883 4 0.1555 0.8818 0.000 0.040 0.000 0.940 0.012 0.008
#> SRR1026884 4 0.1624 0.8817 0.000 0.044 0.000 0.936 0.012 0.008
#> SRR1026885 4 0.0291 0.8949 0.000 0.004 0.000 0.992 0.000 0.004
#> SRR1026886 4 0.0291 0.8949 0.000 0.004 0.000 0.992 0.000 0.004
#> SRR1026887 3 0.2925 0.8509 0.000 0.000 0.832 0.004 0.148 0.016
#> SRR1026888 3 0.2872 0.8511 0.000 0.000 0.832 0.004 0.152 0.012
#> SRR1026889 2 0.3746 0.6927 0.000 0.712 0.000 0.272 0.004 0.012
#> SRR1026890 4 0.5368 0.6261 0.000 0.156 0.100 0.688 0.048 0.008
#> SRR1026891 4 0.2780 0.8317 0.096 0.008 0.000 0.868 0.024 0.004
#> SRR1026892 4 0.2618 0.8372 0.092 0.004 0.000 0.876 0.024 0.004
#> SRR1026893 3 0.2531 0.8603 0.000 0.000 0.856 0.000 0.132 0.012
#> SRR1026894 3 0.2531 0.8603 0.000 0.000 0.856 0.000 0.132 0.012
#> SRR1026895 4 0.2454 0.8493 0.000 0.088 0.000 0.884 0.020 0.008
#> SRR1026896 4 0.2704 0.8357 0.000 0.100 0.000 0.868 0.020 0.012
#> SRR1026897 3 0.4592 0.7746 0.004 0.024 0.760 0.036 0.148 0.028
#> SRR1026898 1 0.1141 0.7971 0.948 0.000 0.000 0.000 0.052 0.000
#> SRR1026899 1 0.2002 0.7822 0.908 0.000 0.004 0.000 0.076 0.012
#> SRR1026900 2 0.7962 -0.1790 0.228 0.296 0.000 0.252 0.212 0.012
#> SRR1026901 5 0.7667 0.2525 0.180 0.048 0.344 0.008 0.372 0.048
#> SRR1026902 4 0.0696 0.8966 0.004 0.004 0.000 0.980 0.008 0.004
#> SRR1026903 4 0.0748 0.8953 0.016 0.004 0.000 0.976 0.004 0.000
#> SRR1026904 4 0.2034 0.8866 0.012 0.032 0.000 0.924 0.024 0.008
#> SRR1026905 4 0.2688 0.8727 0.020 0.040 0.000 0.892 0.036 0.012
#> SRR1026906 2 0.2734 0.7196 0.000 0.864 0.000 0.104 0.024 0.008
#> SRR1026907 2 0.2652 0.7188 0.000 0.868 0.000 0.104 0.020 0.008
#> SRR1026908 2 0.2265 0.6822 0.000 0.904 0.000 0.028 0.012 0.056
#> SRR1026909 2 0.2195 0.6681 0.000 0.904 0.000 0.016 0.012 0.068
#> SRR1026910 4 0.0551 0.8955 0.000 0.004 0.000 0.984 0.008 0.004
#> SRR1026911 4 0.0653 0.8954 0.000 0.004 0.000 0.980 0.012 0.004
#> SRR1026912 3 0.3961 0.8230 0.000 0.020 0.792 0.020 0.144 0.024
#> SRR1026913 3 0.4041 0.8195 0.000 0.024 0.788 0.020 0.144 0.024
#> SRR1026914 2 0.3875 0.6873 0.000 0.700 0.000 0.280 0.004 0.016
#> SRR1026915 2 0.3875 0.6872 0.000 0.700 0.000 0.280 0.004 0.016
#> SRR1026916 2 0.3990 0.6613 0.000 0.676 0.000 0.304 0.004 0.016
#> SRR1026917 2 0.3954 0.6709 0.000 0.684 0.000 0.296 0.004 0.016
#> SRR1026918 4 0.2113 0.8519 0.000 0.092 0.000 0.896 0.004 0.008
#> SRR1026919 4 0.1668 0.8751 0.000 0.060 0.000 0.928 0.004 0.008
#> SRR1026920 2 0.4555 0.5092 0.000 0.576 0.000 0.392 0.012 0.020
#> SRR1026921 2 0.4362 0.5157 0.000 0.584 0.000 0.392 0.004 0.020
#> SRR1026922 2 0.4111 0.5899 0.056 0.780 0.000 0.012 0.140 0.012
#> SRR1026923 5 0.5695 0.7462 0.224 0.076 0.008 0.008 0.644 0.040
#> SRR1026924 4 0.1901 0.8646 0.000 0.076 0.000 0.912 0.004 0.008
#> SRR1026925 3 0.2402 0.8635 0.000 0.000 0.868 0.000 0.120 0.012
#> SRR1026926 4 0.0653 0.8945 0.000 0.004 0.000 0.980 0.012 0.004
#> SRR1026927 4 0.3307 0.7891 0.120 0.012 0.000 0.828 0.040 0.000
#> SRR1026928 4 0.4103 0.6285 0.004 0.248 0.000 0.716 0.024 0.008
#> SRR1026929 3 0.2402 0.8635 0.000 0.000 0.868 0.000 0.120 0.012
#> SRR1026930 5 0.6603 0.6509 0.264 0.200 0.000 0.044 0.488 0.004
#> SRR1026931 6 0.1913 0.9963 0.000 0.080 0.012 0.000 0.000 0.908
#> SRR1026932 2 0.2019 0.6409 0.000 0.900 0.000 0.000 0.012 0.088
#> SRR1026933 2 0.2019 0.6409 0.000 0.900 0.000 0.000 0.012 0.088
#> SRR1026934 2 0.2020 0.6356 0.000 0.896 0.000 0.000 0.008 0.096
#> SRR1026935 2 0.1970 0.6389 0.000 0.900 0.000 0.000 0.008 0.092
#> SRR1026936 4 0.0508 0.8939 0.000 0.000 0.000 0.984 0.012 0.004
#> SRR1026937 4 0.0508 0.8939 0.000 0.000 0.000 0.984 0.012 0.004
#> SRR1026938 2 0.3421 0.7166 0.000 0.804 0.000 0.160 0.016 0.020
#> SRR1026939 2 0.3385 0.7172 0.000 0.808 0.000 0.156 0.016 0.020
#> SRR1026940 1 0.1753 0.7782 0.912 0.000 0.000 0.000 0.084 0.004
#> SRR1026941 3 0.0806 0.8847 0.000 0.000 0.972 0.000 0.020 0.008
#> SRR1026942 1 0.2476 0.7467 0.888 0.008 0.000 0.032 0.072 0.000
#> SRR1026943 1 0.1204 0.7963 0.944 0.000 0.000 0.000 0.056 0.000
#> SRR1026944 1 0.0937 0.8041 0.960 0.000 0.000 0.000 0.040 0.000
#> SRR1026945 3 0.0405 0.8840 0.000 0.000 0.988 0.000 0.004 0.008
#> SRR1026947 2 0.1605 0.6948 0.000 0.940 0.000 0.032 0.012 0.016
#> SRR1026946 2 0.2734 0.7187 0.000 0.864 0.000 0.104 0.024 0.008
#> SRR1026948 2 0.3266 0.6244 0.028 0.844 0.000 0.004 0.100 0.024
#> SRR1026949 5 0.4120 0.5229 0.468 0.004 0.000 0.000 0.524 0.004
#> SRR1026950 1 0.0790 0.8016 0.968 0.000 0.000 0.000 0.032 0.000
#> SRR1026951 5 0.4093 0.4953 0.476 0.008 0.000 0.000 0.516 0.000
#> SRR1026952 1 0.0547 0.8036 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1026953 3 0.0000 0.8841 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026954 4 0.1096 0.8960 0.008 0.004 0.000 0.964 0.020 0.004
#> SRR1026955 2 0.2020 0.6356 0.000 0.896 0.000 0.000 0.008 0.096
#> SRR1026956 4 0.3815 0.7738 0.124 0.004 0.000 0.792 0.076 0.004
#> SRR1026957 2 0.4391 0.6404 0.000 0.652 0.000 0.312 0.016 0.020
#> SRR1026958 1 0.3619 0.2356 0.680 0.000 0.000 0.000 0.316 0.004
#> SRR1026959 6 0.2169 0.9888 0.000 0.080 0.012 0.000 0.008 0.900
#> SRR1026960 4 0.3655 0.8164 0.092 0.052 0.000 0.824 0.028 0.004
#> SRR1026961 4 0.1666 0.8930 0.008 0.036 0.000 0.936 0.020 0.000
#> SRR1026962 1 0.0777 0.8034 0.972 0.004 0.000 0.000 0.024 0.000
#> SRR1026963 3 0.5818 0.5758 0.180 0.016 0.664 0.016 0.092 0.032
#> SRR1026964 4 0.1982 0.8902 0.012 0.040 0.000 0.924 0.020 0.004
#> SRR1026965 4 0.1837 0.8911 0.012 0.032 0.000 0.932 0.020 0.004
#> SRR1026966 3 0.1967 0.8737 0.000 0.000 0.904 0.000 0.084 0.012
#> SRR1026967 3 0.2019 0.8728 0.000 0.000 0.900 0.000 0.088 0.012
#> SRR1026968 4 0.0767 0.8964 0.012 0.008 0.000 0.976 0.004 0.000
#> SRR1026969 4 0.3350 0.8247 0.088 0.008 0.000 0.836 0.064 0.004
#> SRR1026970 4 0.3078 0.8367 0.080 0.004 0.000 0.852 0.060 0.004
#> SRR1026971 4 0.3130 0.8326 0.084 0.004 0.000 0.848 0.060 0.004
#> SRR1026972 4 0.0976 0.8919 0.000 0.016 0.000 0.968 0.008 0.008
#> SRR1026973 4 0.1149 0.8894 0.000 0.024 0.000 0.960 0.008 0.008
#> SRR1026974 4 0.4559 0.6682 0.184 0.008 0.000 0.720 0.084 0.004
#> SRR1026975 4 0.5380 0.4620 0.280 0.008 0.000 0.600 0.108 0.004
#> SRR1026976 4 0.0291 0.8953 0.000 0.004 0.000 0.992 0.000 0.004
#> SRR1026977 4 0.0291 0.8949 0.000 0.000 0.000 0.992 0.004 0.004
#> SRR1026978 1 0.3359 0.6219 0.784 0.012 0.000 0.008 0.196 0.000
#> SRR1026979 3 0.0260 0.8843 0.000 0.000 0.992 0.000 0.008 0.000
#> SRR1026980 1 0.8164 -0.2969 0.392 0.108 0.028 0.256 0.192 0.024
#> SRR1026981 3 0.1176 0.8831 0.000 0.000 0.956 0.000 0.020 0.024
#> SRR1026982 4 0.1498 0.8921 0.012 0.012 0.000 0.948 0.024 0.004
#> SRR1026983 4 0.1414 0.8934 0.012 0.012 0.000 0.952 0.020 0.004
#> SRR1026984 4 0.2213 0.8714 0.004 0.068 0.000 0.904 0.020 0.004
#> SRR1026985 4 0.2033 0.8777 0.004 0.056 0.000 0.916 0.020 0.004
#> SRR1026986 1 0.3995 -0.4789 0.516 0.000 0.000 0.000 0.480 0.004
#> SRR1026987 1 0.1387 0.7967 0.932 0.000 0.000 0.000 0.068 0.000
#> SRR1026988 1 0.5619 0.3886 0.648 0.012 0.156 0.000 0.160 0.024
#> SRR1026989 3 0.0291 0.8851 0.000 0.000 0.992 0.000 0.004 0.004
#> SRR1026990 4 0.3403 0.8312 0.080 0.012 0.000 0.836 0.068 0.004
#> SRR1026991 3 0.1745 0.8769 0.000 0.000 0.920 0.000 0.068 0.012
#> SRR1026992 1 0.0458 0.8049 0.984 0.000 0.000 0.000 0.016 0.000
#> SRR1026993 1 0.0146 0.8068 0.996 0.000 0.000 0.000 0.004 0.000
#> SRR1026994 1 0.5877 -0.0544 0.568 0.024 0.008 0.092 0.304 0.004
#> SRR1026995 1 0.2846 0.7149 0.840 0.004 0.000 0.000 0.140 0.016
#> SRR1026996 4 0.0291 0.8956 0.000 0.004 0.000 0.992 0.000 0.004
#> SRR1026997 4 0.0405 0.8958 0.000 0.008 0.000 0.988 0.000 0.004
#> SRR1026998 3 0.1563 0.8787 0.000 0.000 0.932 0.000 0.056 0.012
#> SRR1026999 3 0.1563 0.8787 0.000 0.000 0.932 0.000 0.056 0.012
#> SRR1027000 1 0.1663 0.7844 0.912 0.000 0.000 0.000 0.088 0.000
#> SRR1027001 3 0.4505 0.6618 0.136 0.000 0.732 0.000 0.120 0.012
#> SRR1027002 5 0.4268 0.6744 0.428 0.012 0.000 0.000 0.556 0.004
#> SRR1027003 5 0.4489 0.8109 0.256 0.044 0.000 0.008 0.688 0.004
#> SRR1027004 1 0.2841 0.7038 0.824 0.000 0.000 0.000 0.164 0.012
#> SRR1027005 3 0.0458 0.8840 0.000 0.000 0.984 0.000 0.000 0.016
#> SRR1027006 1 0.4016 0.6522 0.788 0.012 0.032 0.000 0.144 0.024
#> SRR1027007 1 0.3111 0.7078 0.840 0.020 0.000 0.020 0.120 0.000
#> SRR1027008 1 0.0363 0.8058 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1027009 3 0.0000 0.8841 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1027010 1 0.3051 0.7192 0.844 0.000 0.036 0.000 0.112 0.008
#> SRR1027011 3 0.0146 0.8842 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177668 3 0.6354 -0.0670 0.376 0.004 0.432 0.000 0.164 0.024
#> SRR1177667 1 0.0547 0.8036 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1177669 1 0.6276 -0.0576 0.460 0.008 0.372 0.000 0.136 0.024
#> SRR1177670 3 0.0260 0.8843 0.000 0.000 0.992 0.000 0.008 0.000
#> SRR1177671 6 0.1913 0.9963 0.000 0.080 0.012 0.000 0.000 0.908
#> SRR1177672 3 0.0146 0.8839 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1177673 1 0.1265 0.7990 0.948 0.000 0.000 0.000 0.044 0.008
#> SRR1177674 3 0.0146 0.8839 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1177675 1 0.0363 0.8062 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1177676 3 0.0405 0.8835 0.004 0.000 0.988 0.000 0.008 0.000
#> SRR1177677 1 0.0363 0.8057 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1177678 1 0.0260 0.8059 0.992 0.000 0.000 0.000 0.008 0.000
#> SRR1177679 5 0.5195 0.7754 0.236 0.092 0.000 0.008 0.652 0.012
#> SRR1177680 5 0.4389 0.8142 0.288 0.028 0.000 0.008 0.672 0.004
#> SRR1177681 1 0.1141 0.7957 0.948 0.000 0.000 0.000 0.052 0.000
#> SRR1177682 1 0.1610 0.7853 0.916 0.000 0.000 0.000 0.084 0.000
#> SRR1177683 2 0.4637 0.5922 0.032 0.724 0.000 0.040 0.196 0.008
#> SRR1177684 2 0.4640 0.6100 0.036 0.740 0.000 0.052 0.164 0.008
#> SRR1177685 1 0.0363 0.8062 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1177686 3 0.0458 0.8840 0.000 0.000 0.984 0.000 0.000 0.016
#> SRR1177687 5 0.4161 0.7388 0.376 0.012 0.000 0.000 0.608 0.004
#> SRR1177688 1 0.1701 0.7884 0.920 0.000 0.000 0.000 0.072 0.008
#> SRR1177689 1 0.3823 -0.3083 0.564 0.000 0.000 0.000 0.436 0.000
#> SRR1177690 1 0.1141 0.7942 0.948 0.000 0.000 0.000 0.052 0.000
#> SRR1177691 5 0.4995 0.7963 0.252 0.084 0.000 0.008 0.652 0.004
#> SRR1177692 5 0.4686 0.8096 0.256 0.048 0.008 0.004 0.680 0.004
#> SRR1177693 2 0.4112 0.6622 0.000 0.784 0.000 0.048 0.120 0.048
#> SRR1177694 2 0.3835 0.6464 0.000 0.668 0.000 0.320 0.000 0.012
#> SRR1177695 1 0.1556 0.7610 0.920 0.000 0.000 0.000 0.080 0.000
#> SRR1177697 1 0.3668 0.2093 0.668 0.000 0.000 0.000 0.328 0.004
#> SRR1177696 1 0.5814 -0.1333 0.440 0.000 0.420 0.000 0.128 0.012
#> SRR1177698 3 0.0291 0.8838 0.000 0.000 0.992 0.000 0.004 0.004
#> SRR1177700 1 0.3451 0.6369 0.776 0.004 0.004 0.000 0.204 0.012
#> SRR1177701 1 0.5544 0.2384 0.612 0.032 0.000 0.252 0.104 0.000
#> SRR1177702 3 0.3500 0.8158 0.024 0.004 0.816 0.000 0.136 0.020
#> SRR1177703 1 0.3093 0.6963 0.852 0.012 0.000 0.060 0.076 0.000
#> SRR1177704 3 0.1572 0.8780 0.000 0.000 0.936 0.000 0.028 0.036
#> SRR1177705 1 0.1007 0.8038 0.956 0.000 0.000 0.000 0.044 0.000
#> SRR1177706 5 0.4691 0.8185 0.272 0.052 0.000 0.008 0.664 0.004
#> SRR1177707 1 0.4128 0.6157 0.780 0.028 0.000 0.076 0.116 0.000
#> SRR1177708 1 0.1668 0.8004 0.928 0.004 0.000 0.000 0.060 0.008
#> SRR1177709 1 0.1524 0.7900 0.932 0.000 0.000 0.000 0.060 0.008
#> SRR1177710 3 0.4702 0.6210 0.168 0.000 0.708 0.000 0.112 0.012
#> SRR1177711 1 0.0458 0.8049 0.984 0.000 0.000 0.000 0.016 0.000
#> SRR1177712 3 0.6461 0.2853 0.296 0.024 0.532 0.004 0.116 0.028
#> SRR1177714 6 0.1913 0.9963 0.000 0.080 0.012 0.000 0.000 0.908
#> SRR1177713 3 0.2717 0.8610 0.012 0.008 0.884 0.000 0.032 0.064
#> SRR1177715 5 0.4234 0.7565 0.372 0.016 0.000 0.000 0.608 0.004
#> SRR1177716 3 0.0458 0.8840 0.000 0.000 0.984 0.000 0.000 0.016
#> SRR1177717 1 0.0547 0.8036 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1177718 1 0.6841 -0.0106 0.516 0.024 0.264 0.000 0.132 0.064
#> SRR1177719 1 0.1075 0.7924 0.952 0.000 0.000 0.000 0.048 0.000
#> SRR1177720 3 0.1088 0.8833 0.000 0.000 0.960 0.000 0.016 0.024
#> SRR1177721 2 0.2872 0.6348 0.016 0.868 0.000 0.004 0.088 0.024
#> SRR1177722 2 0.2218 0.6276 0.000 0.884 0.000 0.000 0.012 0.104
#> SRR1177723 1 0.0547 0.8036 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1177725 1 0.0547 0.8036 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1177724 1 0.1007 0.8025 0.956 0.000 0.000 0.000 0.044 0.000
#> SRR1177726 3 0.0000 0.8841 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177727 1 0.0717 0.8067 0.976 0.000 0.000 0.000 0.016 0.008
#> SRR1177728 3 0.0000 0.8841 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177729 1 0.0632 0.8052 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177730 3 0.0146 0.8839 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1177731 1 0.1398 0.7921 0.940 0.000 0.000 0.000 0.052 0.008
#> SRR1177732 1 0.2275 0.7622 0.888 0.000 0.008 0.000 0.096 0.008
#> SRR1177733 1 0.0547 0.8072 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1177734 1 0.0790 0.8055 0.968 0.000 0.000 0.000 0.032 0.000
#> SRR1177735 1 0.3265 0.4772 0.748 0.000 0.000 0.000 0.248 0.004
#> SRR1177736 1 0.1398 0.7921 0.940 0.000 0.000 0.000 0.052 0.008
#> SRR1177737 2 0.3804 0.6993 0.016 0.812 0.000 0.096 0.068 0.008
#> SRR1177738 3 0.2402 0.8635 0.000 0.000 0.868 0.000 0.120 0.012
#> SRR1177739 1 0.1462 0.7913 0.936 0.000 0.000 0.000 0.056 0.008
#> SRR1177740 1 0.2823 0.5794 0.796 0.000 0.000 0.000 0.204 0.000
#> SRR1177741 1 0.0260 0.8059 0.992 0.000 0.000 0.000 0.008 0.000
#> SRR1177742 3 0.0000 0.8841 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177743 1 0.2020 0.7697 0.896 0.000 0.000 0.000 0.096 0.008
#> SRR1177744 1 0.5481 0.3956 0.652 0.004 0.176 0.000 0.140 0.028
#> SRR1177745 5 0.4515 0.8010 0.244 0.060 0.000 0.008 0.688 0.000
#> SRR1177746 5 0.4406 0.7998 0.316 0.028 0.000 0.004 0.648 0.004
#> SRR1177747 3 0.5813 0.4206 0.252 0.012 0.600 0.000 0.112 0.024
#> SRR1177748 3 0.0146 0.8842 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177749 1 0.0363 0.8062 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1177750 1 0.0458 0.8058 0.984 0.000 0.000 0.000 0.016 0.000
#> SRR1177751 1 0.0790 0.8030 0.968 0.000 0.000 0.000 0.032 0.000
#> SRR1177752 1 0.0547 0.8036 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1177753 1 0.0547 0.8075 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1177754 1 0.3525 0.6688 0.796 0.004 0.008 0.000 0.168 0.024
#> SRR1177755 1 0.1610 0.7687 0.916 0.000 0.000 0.000 0.084 0.000
#> SRR1177756 1 0.3050 0.4960 0.764 0.000 0.000 0.000 0.236 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["CV", "NMF"]
# you can also extract it by
# res = res_list["CV:NMF"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'CV' method.
#> Subgroups are detected by 'NMF' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.758 0.882 0.949 0.4325 0.554 0.554
#> 3 3 0.906 0.914 0.966 0.4756 0.634 0.429
#> 4 4 0.658 0.674 0.848 0.1483 0.865 0.648
#> 5 5 0.655 0.661 0.822 0.0433 0.939 0.789
#> 6 6 0.637 0.558 0.757 0.0482 0.926 0.729
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.96687 0.000 1.000
#> SRR1026871 2 0.0000 0.96687 0.000 1.000
#> SRR1026872 2 0.0000 0.96687 0.000 1.000
#> SRR1026873 1 0.8267 0.69549 0.740 0.260
#> SRR1026874 1 0.0376 0.89413 0.996 0.004
#> SRR1026875 2 0.0000 0.96687 0.000 1.000
#> SRR1026876 2 0.0000 0.96687 0.000 1.000
#> SRR1026877 1 0.0000 0.89565 1.000 0.000
#> SRR1026878 1 0.0000 0.89565 1.000 0.000
#> SRR1026879 1 0.7299 0.76208 0.796 0.204
#> SRR1026880 1 0.0000 0.89565 1.000 0.000
#> SRR1026881 2 0.0000 0.96687 0.000 1.000
#> SRR1026882 2 0.0000 0.96687 0.000 1.000
#> SRR1026883 2 0.0000 0.96687 0.000 1.000
#> SRR1026884 2 0.0000 0.96687 0.000 1.000
#> SRR1026885 2 0.0000 0.96687 0.000 1.000
#> SRR1026886 2 0.0000 0.96687 0.000 1.000
#> SRR1026887 1 0.0000 0.89565 1.000 0.000
#> SRR1026888 1 0.0000 0.89565 1.000 0.000
#> SRR1026889 2 0.0000 0.96687 0.000 1.000
#> SRR1026890 2 0.0000 0.96687 0.000 1.000
#> SRR1026891 2 0.0000 0.96687 0.000 1.000
#> SRR1026892 2 0.0000 0.96687 0.000 1.000
#> SRR1026893 1 0.0000 0.89565 1.000 0.000
#> SRR1026894 1 0.0000 0.89565 1.000 0.000
#> SRR1026895 2 0.0000 0.96687 0.000 1.000
#> SRR1026896 2 0.0000 0.96687 0.000 1.000
#> SRR1026897 2 0.1184 0.95235 0.016 0.984
#> SRR1026898 2 0.9922 0.04898 0.448 0.552
#> SRR1026899 1 0.2043 0.88155 0.968 0.032
#> SRR1026900 2 0.0000 0.96687 0.000 1.000
#> SRR1026901 2 0.5178 0.83757 0.116 0.884
#> SRR1026902 2 0.0000 0.96687 0.000 1.000
#> SRR1026903 2 0.0000 0.96687 0.000 1.000
#> SRR1026904 2 0.0000 0.96687 0.000 1.000
#> SRR1026905 2 0.0000 0.96687 0.000 1.000
#> SRR1026906 2 0.0000 0.96687 0.000 1.000
#> SRR1026907 2 0.0000 0.96687 0.000 1.000
#> SRR1026908 2 0.0000 0.96687 0.000 1.000
#> SRR1026909 2 0.0000 0.96687 0.000 1.000
#> SRR1026910 2 0.0000 0.96687 0.000 1.000
#> SRR1026911 2 0.0000 0.96687 0.000 1.000
#> SRR1026912 2 0.7299 0.71236 0.204 0.796
#> SRR1026913 2 0.6887 0.74740 0.184 0.816
#> SRR1026914 2 0.0000 0.96687 0.000 1.000
#> SRR1026915 2 0.0000 0.96687 0.000 1.000
#> SRR1026916 2 0.0000 0.96687 0.000 1.000
#> SRR1026917 2 0.0000 0.96687 0.000 1.000
#> SRR1026918 2 0.0000 0.96687 0.000 1.000
#> SRR1026919 2 0.0000 0.96687 0.000 1.000
#> SRR1026920 2 0.0000 0.96687 0.000 1.000
#> SRR1026921 2 0.0000 0.96687 0.000 1.000
#> SRR1026922 2 0.0000 0.96687 0.000 1.000
#> SRR1026923 2 0.0000 0.96687 0.000 1.000
#> SRR1026924 2 0.0000 0.96687 0.000 1.000
#> SRR1026925 1 0.0000 0.89565 1.000 0.000
#> SRR1026926 2 0.0000 0.96687 0.000 1.000
#> SRR1026927 2 0.8327 0.59756 0.264 0.736
#> SRR1026928 2 0.0000 0.96687 0.000 1.000
#> SRR1026929 1 0.0000 0.89565 1.000 0.000
#> SRR1026930 2 0.0000 0.96687 0.000 1.000
#> SRR1026931 2 0.0000 0.96687 0.000 1.000
#> SRR1026932 2 0.0000 0.96687 0.000 1.000
#> SRR1026933 2 0.0000 0.96687 0.000 1.000
#> SRR1026934 2 0.0000 0.96687 0.000 1.000
#> SRR1026935 2 0.0000 0.96687 0.000 1.000
#> SRR1026936 2 0.0000 0.96687 0.000 1.000
#> SRR1026937 2 0.0000 0.96687 0.000 1.000
#> SRR1026938 2 0.0000 0.96687 0.000 1.000
#> SRR1026939 2 0.0000 0.96687 0.000 1.000
#> SRR1026940 2 0.0000 0.96687 0.000 1.000
#> SRR1026941 1 0.0000 0.89565 1.000 0.000
#> SRR1026942 2 0.0000 0.96687 0.000 1.000
#> SRR1026943 2 0.0000 0.96687 0.000 1.000
#> SRR1026944 1 0.9686 0.46199 0.604 0.396
#> SRR1026945 1 0.0000 0.89565 1.000 0.000
#> SRR1026947 2 0.0000 0.96687 0.000 1.000
#> SRR1026946 2 0.0000 0.96687 0.000 1.000
#> SRR1026948 2 0.0000 0.96687 0.000 1.000
#> SRR1026949 2 0.0000 0.96687 0.000 1.000
#> SRR1026950 2 0.0000 0.96687 0.000 1.000
#> SRR1026951 2 0.0000 0.96687 0.000 1.000
#> SRR1026952 2 0.9970 -0.03722 0.468 0.532
#> SRR1026953 1 0.0000 0.89565 1.000 0.000
#> SRR1026954 2 0.0000 0.96687 0.000 1.000
#> SRR1026955 2 0.0000 0.96687 0.000 1.000
#> SRR1026956 2 0.0000 0.96687 0.000 1.000
#> SRR1026957 2 0.0000 0.96687 0.000 1.000
#> SRR1026958 2 0.0000 0.96687 0.000 1.000
#> SRR1026959 2 0.0000 0.96687 0.000 1.000
#> SRR1026960 2 0.0000 0.96687 0.000 1.000
#> SRR1026961 2 0.0000 0.96687 0.000 1.000
#> SRR1026962 2 0.7674 0.67516 0.224 0.776
#> SRR1026963 1 0.8081 0.71119 0.752 0.248
#> SRR1026964 2 0.0000 0.96687 0.000 1.000
#> SRR1026965 2 0.0000 0.96687 0.000 1.000
#> SRR1026966 1 0.0000 0.89565 1.000 0.000
#> SRR1026967 1 0.0000 0.89565 1.000 0.000
#> SRR1026968 2 0.0000 0.96687 0.000 1.000
#> SRR1026969 2 0.0000 0.96687 0.000 1.000
#> SRR1026970 2 0.0000 0.96687 0.000 1.000
#> SRR1026971 2 0.0000 0.96687 0.000 1.000
#> SRR1026972 2 0.0000 0.96687 0.000 1.000
#> SRR1026973 2 0.0000 0.96687 0.000 1.000
#> SRR1026974 2 0.0376 0.96334 0.004 0.996
#> SRR1026975 2 0.0938 0.95610 0.012 0.988
#> SRR1026976 2 0.0000 0.96687 0.000 1.000
#> SRR1026977 2 0.0000 0.96687 0.000 1.000
#> SRR1026978 2 0.0000 0.96687 0.000 1.000
#> SRR1026979 1 0.0000 0.89565 1.000 0.000
#> SRR1026980 2 0.0000 0.96687 0.000 1.000
#> SRR1026981 1 0.0000 0.89565 1.000 0.000
#> SRR1026982 2 0.0000 0.96687 0.000 1.000
#> SRR1026983 2 0.0000 0.96687 0.000 1.000
#> SRR1026984 2 0.0000 0.96687 0.000 1.000
#> SRR1026985 2 0.0000 0.96687 0.000 1.000
#> SRR1026986 2 0.0000 0.96687 0.000 1.000
#> SRR1026987 2 0.0000 0.96687 0.000 1.000
#> SRR1026988 1 0.0000 0.89565 1.000 0.000
#> SRR1026989 1 0.0000 0.89565 1.000 0.000
#> SRR1026990 2 0.0000 0.96687 0.000 1.000
#> SRR1026991 1 0.0000 0.89565 1.000 0.000
#> SRR1026992 2 0.8499 0.57157 0.276 0.724
#> SRR1026993 2 0.8267 0.60612 0.260 0.740
#> SRR1026994 2 0.0000 0.96687 0.000 1.000
#> SRR1026995 2 0.6247 0.78500 0.156 0.844
#> SRR1026996 2 0.0000 0.96687 0.000 1.000
#> SRR1026997 2 0.0000 0.96687 0.000 1.000
#> SRR1026998 1 0.0000 0.89565 1.000 0.000
#> SRR1026999 1 0.0000 0.89565 1.000 0.000
#> SRR1027000 2 0.0000 0.96687 0.000 1.000
#> SRR1027001 1 0.0000 0.89565 1.000 0.000
#> SRR1027002 2 0.0000 0.96687 0.000 1.000
#> SRR1027003 2 0.0000 0.96687 0.000 1.000
#> SRR1027004 1 0.7056 0.77328 0.808 0.192
#> SRR1027005 1 0.0000 0.89565 1.000 0.000
#> SRR1027006 1 0.0000 0.89565 1.000 0.000
#> SRR1027007 2 0.0000 0.96687 0.000 1.000
#> SRR1027008 2 0.0000 0.96687 0.000 1.000
#> SRR1027009 1 0.0000 0.89565 1.000 0.000
#> SRR1027010 1 0.4690 0.84259 0.900 0.100
#> SRR1027011 1 0.0000 0.89565 1.000 0.000
#> SRR1177668 1 0.0000 0.89565 1.000 0.000
#> SRR1177667 1 0.9850 0.38193 0.572 0.428
#> SRR1177669 1 0.6973 0.77677 0.812 0.188
#> SRR1177670 1 0.0000 0.89565 1.000 0.000
#> SRR1177671 2 0.0000 0.96687 0.000 1.000
#> SRR1177672 1 0.0000 0.89565 1.000 0.000
#> SRR1177673 1 0.8499 0.67334 0.724 0.276
#> SRR1177674 1 0.0000 0.89565 1.000 0.000
#> SRR1177675 1 0.9775 0.42347 0.588 0.412
#> SRR1177676 1 0.0000 0.89565 1.000 0.000
#> SRR1177677 2 0.0000 0.96687 0.000 1.000
#> SRR1177678 1 0.7299 0.76208 0.796 0.204
#> SRR1177679 2 0.0000 0.96687 0.000 1.000
#> SRR1177680 2 0.0000 0.96687 0.000 1.000
#> SRR1177681 2 0.0000 0.96687 0.000 1.000
#> SRR1177682 2 0.0000 0.96687 0.000 1.000
#> SRR1177683 2 0.0000 0.96687 0.000 1.000
#> SRR1177684 2 0.0000 0.96687 0.000 1.000
#> SRR1177685 1 0.9661 0.47106 0.608 0.392
#> SRR1177686 1 0.0000 0.89565 1.000 0.000
#> SRR1177687 2 0.0000 0.96687 0.000 1.000
#> SRR1177688 1 0.9661 0.47106 0.608 0.392
#> SRR1177689 2 0.0000 0.96687 0.000 1.000
#> SRR1177690 2 0.0000 0.96687 0.000 1.000
#> SRR1177691 2 0.0000 0.96687 0.000 1.000
#> SRR1177692 2 0.0000 0.96687 0.000 1.000
#> SRR1177693 2 0.0000 0.96687 0.000 1.000
#> SRR1177694 2 0.0000 0.96687 0.000 1.000
#> SRR1177695 2 0.0000 0.96687 0.000 1.000
#> SRR1177697 2 0.7376 0.70359 0.208 0.792
#> SRR1177696 1 0.0000 0.89565 1.000 0.000
#> SRR1177698 1 0.0000 0.89565 1.000 0.000
#> SRR1177700 1 0.9686 0.46262 0.604 0.396
#> SRR1177701 2 0.0000 0.96687 0.000 1.000
#> SRR1177702 1 0.0376 0.89381 0.996 0.004
#> SRR1177703 2 0.0000 0.96687 0.000 1.000
#> SRR1177704 1 0.0000 0.89565 1.000 0.000
#> SRR1177705 2 0.0000 0.96687 0.000 1.000
#> SRR1177706 2 0.0000 0.96687 0.000 1.000
#> SRR1177707 2 0.0000 0.96687 0.000 1.000
#> SRR1177708 2 0.0000 0.96687 0.000 1.000
#> SRR1177709 1 1.0000 0.14420 0.500 0.500
#> SRR1177710 1 0.0000 0.89565 1.000 0.000
#> SRR1177711 1 0.9866 0.37100 0.568 0.432
#> SRR1177712 2 0.0672 0.95948 0.008 0.992
#> SRR1177714 2 0.0000 0.96687 0.000 1.000
#> SRR1177713 1 0.0000 0.89565 1.000 0.000
#> SRR1177715 2 0.0000 0.96687 0.000 1.000
#> SRR1177716 1 0.0000 0.89565 1.000 0.000
#> SRR1177717 2 0.0672 0.95973 0.008 0.992
#> SRR1177718 1 0.0000 0.89565 1.000 0.000
#> SRR1177719 2 0.7056 0.73002 0.192 0.808
#> SRR1177720 1 0.0000 0.89565 1.000 0.000
#> SRR1177721 2 0.0000 0.96687 0.000 1.000
#> SRR1177722 2 0.0000 0.96687 0.000 1.000
#> SRR1177723 2 0.2236 0.93229 0.036 0.964
#> SRR1177725 2 0.9954 -0.00293 0.460 0.540
#> SRR1177724 2 0.4431 0.86968 0.092 0.908
#> SRR1177726 1 0.0000 0.89565 1.000 0.000
#> SRR1177727 1 0.7219 0.76599 0.800 0.200
#> SRR1177728 1 0.0000 0.89565 1.000 0.000
#> SRR1177729 2 0.1633 0.94449 0.024 0.976
#> SRR1177730 1 0.0000 0.89565 1.000 0.000
#> SRR1177731 1 0.7376 0.75782 0.792 0.208
#> SRR1177732 1 0.2948 0.87129 0.948 0.052
#> SRR1177733 2 0.0000 0.96687 0.000 1.000
#> SRR1177734 1 0.9635 0.47980 0.612 0.388
#> SRR1177735 2 0.0000 0.96687 0.000 1.000
#> SRR1177736 1 0.7219 0.76599 0.800 0.200
#> SRR1177737 2 0.0000 0.96687 0.000 1.000
#> SRR1177738 1 0.6712 0.75416 0.824 0.176
#> SRR1177739 1 0.9896 0.34816 0.560 0.440
#> SRR1177740 2 0.0000 0.96687 0.000 1.000
#> SRR1177741 1 0.7299 0.76208 0.796 0.204
#> SRR1177742 1 0.0000 0.89565 1.000 0.000
#> SRR1177743 1 0.3733 0.86002 0.928 0.072
#> SRR1177744 1 0.0000 0.89565 1.000 0.000
#> SRR1177745 2 0.0000 0.96687 0.000 1.000
#> SRR1177746 2 0.0000 0.96687 0.000 1.000
#> SRR1177747 1 0.0938 0.89078 0.988 0.012
#> SRR1177748 1 0.0000 0.89565 1.000 0.000
#> SRR1177749 1 0.9635 0.47967 0.612 0.388
#> SRR1177750 2 0.7139 0.72379 0.196 0.804
#> SRR1177751 2 0.0000 0.96687 0.000 1.000
#> SRR1177752 2 0.9323 0.39231 0.348 0.652
#> SRR1177753 2 0.6712 0.75527 0.176 0.824
#> SRR1177754 1 0.0000 0.89565 1.000 0.000
#> SRR1177755 2 0.0000 0.96687 0.000 1.000
#> SRR1177756 2 0.0000 0.96687 0.000 1.000
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026874 3 0.1860 0.9310 0.052 0.000 0.948
#> SRR1026875 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026879 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026880 1 0.0424 0.9588 0.992 0.000 0.008
#> SRR1026881 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026883 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026884 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026885 1 0.5397 0.6191 0.720 0.280 0.000
#> SRR1026886 1 0.6079 0.3713 0.612 0.388 0.000
#> SRR1026887 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026889 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026890 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026891 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026892 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026893 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026895 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026896 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026897 2 0.0592 0.9360 0.000 0.988 0.012
#> SRR1026898 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026899 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026900 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026901 2 0.6079 0.3832 0.000 0.612 0.388
#> SRR1026902 1 0.6026 0.4063 0.624 0.376 0.000
#> SRR1026903 1 0.3038 0.8680 0.896 0.104 0.000
#> SRR1026904 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026905 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026906 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026910 2 0.0237 0.9415 0.004 0.996 0.000
#> SRR1026911 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026912 3 0.2261 0.9170 0.000 0.068 0.932
#> SRR1026913 3 0.3038 0.8765 0.000 0.104 0.896
#> SRR1026914 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026918 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026919 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026920 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026924 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026925 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026926 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026927 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026928 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026929 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026930 2 0.3340 0.8379 0.120 0.880 0.000
#> SRR1026931 1 0.5988 0.3974 0.632 0.368 0.000
#> SRR1026932 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026936 2 0.2796 0.8660 0.092 0.908 0.000
#> SRR1026937 2 0.3116 0.8503 0.108 0.892 0.000
#> SRR1026938 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026940 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026941 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026942 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026945 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026947 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026949 1 0.4452 0.7575 0.808 0.192 0.000
#> SRR1026950 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026951 1 0.3482 0.8393 0.872 0.128 0.000
#> SRR1026952 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026954 1 0.4654 0.7379 0.792 0.208 0.000
#> SRR1026955 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026957 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026958 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026960 1 0.4931 0.6999 0.768 0.232 0.000
#> SRR1026961 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026962 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026964 2 0.1031 0.9274 0.024 0.976 0.000
#> SRR1026965 2 0.0747 0.9335 0.016 0.984 0.000
#> SRR1026966 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026968 2 0.1031 0.9272 0.024 0.976 0.000
#> SRR1026969 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026970 1 0.0892 0.9483 0.980 0.020 0.000
#> SRR1026971 1 0.0237 0.9618 0.996 0.004 0.000
#> SRR1026972 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026973 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026974 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026976 1 0.4796 0.7185 0.780 0.220 0.000
#> SRR1026977 2 0.6309 0.0247 0.496 0.504 0.000
#> SRR1026978 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026979 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026980 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026981 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026982 2 0.6252 0.2319 0.444 0.556 0.000
#> SRR1026983 2 0.6180 0.3216 0.416 0.584 0.000
#> SRR1026984 2 0.0592 0.9363 0.012 0.988 0.000
#> SRR1026985 2 0.0237 0.9415 0.004 0.996 0.000
#> SRR1026986 1 0.0747 0.9520 0.984 0.016 0.000
#> SRR1026987 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026988 1 0.1964 0.9149 0.944 0.000 0.056
#> SRR1026989 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026990 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026991 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1026994 2 0.1753 0.9069 0.048 0.952 0.000
#> SRR1026995 1 0.5062 0.7528 0.800 0.184 0.016
#> SRR1026996 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1026997 2 0.0237 0.9414 0.004 0.996 0.000
#> SRR1026998 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1027000 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1027001 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1027002 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1027003 2 0.2096 0.9017 0.052 0.944 0.004
#> SRR1027004 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1027006 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1027007 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1027008 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1027010 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1027011 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177668 1 0.0424 0.9588 0.992 0.000 0.008
#> SRR1177667 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177669 1 0.1163 0.9418 0.972 0.000 0.028
#> SRR1177670 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177671 2 0.4750 0.7258 0.216 0.784 0.000
#> SRR1177672 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177673 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177674 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177676 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177677 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177679 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1177680 2 0.0237 0.9415 0.004 0.996 0.000
#> SRR1177681 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177682 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177683 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177687 2 0.6168 0.3378 0.412 0.588 0.000
#> SRR1177688 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177689 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177690 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177691 2 0.0892 0.9302 0.020 0.980 0.000
#> SRR1177692 2 0.5988 0.4488 0.368 0.632 0.000
#> SRR1177693 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1177695 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177697 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177696 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177698 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177700 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177701 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177702 3 0.0424 0.9756 0.008 0.000 0.992
#> SRR1177703 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177704 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177705 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177706 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1177707 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177708 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177709 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177710 3 0.0237 0.9792 0.004 0.000 0.996
#> SRR1177711 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177712 2 0.1163 0.9230 0.000 0.972 0.028
#> SRR1177714 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1177713 3 0.6299 0.0776 0.476 0.000 0.524
#> SRR1177715 2 0.6302 0.1217 0.480 0.520 0.000
#> SRR1177716 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177720 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177727 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177728 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177730 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177731 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177732 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177733 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177735 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177736 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177737 2 0.0000 0.9439 0.000 1.000 0.000
#> SRR1177738 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177739 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177741 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177742 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177743 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177744 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177745 2 0.3482 0.8297 0.128 0.872 0.000
#> SRR1177746 2 0.5138 0.6724 0.252 0.748 0.000
#> SRR1177747 1 0.5016 0.6777 0.760 0.000 0.240
#> SRR1177748 3 0.0000 0.9828 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177754 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177755 1 0.0000 0.9651 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.9651 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 4 0.2408 0.7627 0.000 0.104 0.000 0.896
#> SRR1026871 4 0.2408 0.7627 0.000 0.104 0.000 0.896
#> SRR1026872 4 0.2814 0.7479 0.000 0.132 0.000 0.868
#> SRR1026873 1 0.0336 0.8081 0.992 0.008 0.000 0.000
#> SRR1026874 3 0.4429 0.7905 0.088 0.020 0.832 0.060
#> SRR1026875 4 0.4040 0.6531 0.000 0.248 0.000 0.752
#> SRR1026876 4 0.3907 0.6687 0.000 0.232 0.000 0.768
#> SRR1026877 3 0.0336 0.9437 0.000 0.000 0.992 0.008
#> SRR1026878 3 0.0336 0.9437 0.000 0.000 0.992 0.008
#> SRR1026879 1 0.0469 0.8075 0.988 0.012 0.000 0.000
#> SRR1026880 1 0.2737 0.7543 0.888 0.008 0.104 0.000
#> SRR1026881 4 0.0657 0.7903 0.004 0.012 0.000 0.984
#> SRR1026882 4 0.0657 0.7903 0.004 0.012 0.000 0.984
#> SRR1026883 4 0.0376 0.7894 0.004 0.004 0.000 0.992
#> SRR1026884 4 0.0376 0.7894 0.004 0.004 0.000 0.992
#> SRR1026885 1 0.5987 0.1947 0.520 0.040 0.000 0.440
#> SRR1026886 4 0.6214 -0.0521 0.468 0.052 0.000 0.480
#> SRR1026887 3 0.2255 0.8815 0.000 0.012 0.920 0.068
#> SRR1026888 3 0.2021 0.8936 0.000 0.012 0.932 0.056
#> SRR1026889 4 0.3219 0.7283 0.000 0.164 0.000 0.836
#> SRR1026890 4 0.0469 0.7901 0.000 0.012 0.000 0.988
#> SRR1026891 1 0.4193 0.6136 0.732 0.000 0.000 0.268
#> SRR1026892 1 0.4164 0.6177 0.736 0.000 0.000 0.264
#> SRR1026893 3 0.0336 0.9437 0.000 0.000 0.992 0.008
#> SRR1026894 3 0.0336 0.9437 0.000 0.000 0.992 0.008
#> SRR1026895 4 0.0188 0.7885 0.004 0.000 0.000 0.996
#> SRR1026896 4 0.0376 0.7893 0.004 0.004 0.000 0.992
#> SRR1026897 4 0.3142 0.7527 0.000 0.132 0.008 0.860
#> SRR1026898 1 0.4804 0.3050 0.616 0.384 0.000 0.000
#> SRR1026899 1 0.0817 0.8067 0.976 0.024 0.000 0.000
#> SRR1026900 4 0.4431 0.5805 0.000 0.304 0.000 0.696
#> SRR1026901 3 0.7499 0.1592 0.000 0.256 0.500 0.244
#> SRR1026902 4 0.5372 0.0736 0.444 0.012 0.000 0.544
#> SRR1026903 1 0.5396 0.1803 0.524 0.012 0.000 0.464
#> SRR1026904 4 0.1059 0.7821 0.016 0.012 0.000 0.972
#> SRR1026905 4 0.1059 0.7821 0.016 0.012 0.000 0.972
#> SRR1026906 4 0.4830 0.4390 0.000 0.392 0.000 0.608
#> SRR1026907 4 0.4843 0.4327 0.000 0.396 0.000 0.604
#> SRR1026908 4 0.4605 0.5413 0.000 0.336 0.000 0.664
#> SRR1026909 4 0.4697 0.5096 0.000 0.356 0.000 0.644
#> SRR1026910 4 0.2589 0.7242 0.116 0.000 0.000 0.884
#> SRR1026911 4 0.2216 0.7432 0.092 0.000 0.000 0.908
#> SRR1026912 3 0.4643 0.4881 0.000 0.000 0.656 0.344
#> SRR1026913 3 0.4454 0.5642 0.000 0.000 0.692 0.308
#> SRR1026914 4 0.1557 0.7821 0.000 0.056 0.000 0.944
#> SRR1026915 4 0.1557 0.7821 0.000 0.056 0.000 0.944
#> SRR1026916 4 0.0592 0.7899 0.000 0.016 0.000 0.984
#> SRR1026917 4 0.0592 0.7899 0.000 0.016 0.000 0.984
#> SRR1026918 4 0.0188 0.7885 0.004 0.000 0.000 0.996
#> SRR1026919 4 0.0376 0.7894 0.004 0.004 0.000 0.992
#> SRR1026920 4 0.0921 0.7884 0.000 0.028 0.000 0.972
#> SRR1026921 4 0.1211 0.7858 0.000 0.040 0.000 0.960
#> SRR1026922 2 0.4999 -0.1524 0.000 0.508 0.000 0.492
#> SRR1026923 2 0.3024 0.6222 0.000 0.852 0.000 0.148
#> SRR1026924 4 0.0524 0.7869 0.004 0.008 0.000 0.988
#> SRR1026925 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026926 4 0.0592 0.7871 0.016 0.000 0.000 0.984
#> SRR1026927 1 0.3942 0.6463 0.764 0.000 0.000 0.236
#> SRR1026928 4 0.0804 0.7904 0.008 0.012 0.000 0.980
#> SRR1026929 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026930 2 0.6491 0.0862 0.072 0.496 0.000 0.432
#> SRR1026931 2 0.2589 0.7096 0.116 0.884 0.000 0.000
#> SRR1026932 4 0.4697 0.5029 0.000 0.356 0.000 0.644
#> SRR1026933 4 0.4746 0.4801 0.000 0.368 0.000 0.632
#> SRR1026934 4 0.4008 0.6565 0.000 0.244 0.000 0.756
#> SRR1026935 4 0.4008 0.6573 0.000 0.244 0.000 0.756
#> SRR1026936 4 0.3074 0.6912 0.152 0.000 0.000 0.848
#> SRR1026937 4 0.2973 0.6994 0.144 0.000 0.000 0.856
#> SRR1026938 4 0.1022 0.7883 0.000 0.032 0.000 0.968
#> SRR1026939 4 0.1302 0.7857 0.000 0.044 0.000 0.956
#> SRR1026940 1 0.4761 0.3564 0.628 0.372 0.000 0.000
#> SRR1026941 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.1211 0.7966 0.960 0.000 0.000 0.040
#> SRR1026943 1 0.0376 0.8076 0.992 0.004 0.000 0.004
#> SRR1026944 1 0.1389 0.7930 0.952 0.000 0.000 0.048
#> SRR1026945 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026947 4 0.4643 0.5289 0.000 0.344 0.000 0.656
#> SRR1026946 4 0.4790 0.4639 0.000 0.380 0.000 0.620
#> SRR1026948 2 0.4981 -0.0487 0.000 0.536 0.000 0.464
#> SRR1026949 2 0.3834 0.7203 0.076 0.848 0.000 0.076
#> SRR1026950 1 0.0376 0.8075 0.992 0.004 0.000 0.004
#> SRR1026951 2 0.6229 0.5818 0.284 0.628 0.000 0.088
#> SRR1026952 1 0.0188 0.8077 0.996 0.004 0.000 0.000
#> SRR1026953 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026954 1 0.5407 0.1122 0.504 0.012 0.000 0.484
#> SRR1026955 4 0.4477 0.5715 0.000 0.312 0.000 0.688
#> SRR1026956 1 0.3311 0.7047 0.828 0.000 0.000 0.172
#> SRR1026957 4 0.3610 0.6967 0.000 0.200 0.000 0.800
#> SRR1026958 2 0.4992 0.0948 0.476 0.524 0.000 0.000
#> SRR1026959 2 0.1867 0.6917 0.000 0.928 0.000 0.072
#> SRR1026960 1 0.5337 0.2844 0.564 0.012 0.000 0.424
#> SRR1026961 4 0.0657 0.7861 0.004 0.012 0.000 0.984
#> SRR1026962 1 0.0524 0.8071 0.988 0.004 0.000 0.008
#> SRR1026963 1 0.1211 0.8053 0.960 0.040 0.000 0.000
#> SRR1026964 4 0.3198 0.7464 0.080 0.040 0.000 0.880
#> SRR1026965 4 0.3156 0.7550 0.068 0.048 0.000 0.884
#> SRR1026966 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.3324 0.6999 0.136 0.012 0.000 0.852
#> SRR1026969 1 0.4844 0.5529 0.688 0.012 0.000 0.300
#> SRR1026970 1 0.4697 0.4602 0.644 0.000 0.000 0.356
#> SRR1026971 1 0.4331 0.5836 0.712 0.000 0.000 0.288
#> SRR1026972 4 0.1824 0.7683 0.060 0.004 0.000 0.936
#> SRR1026973 4 0.1109 0.7832 0.028 0.004 0.000 0.968
#> SRR1026974 1 0.3444 0.6947 0.816 0.000 0.000 0.184
#> SRR1026975 1 0.3219 0.7120 0.836 0.000 0.000 0.164
#> SRR1026976 1 0.4996 0.1376 0.516 0.000 0.000 0.484
#> SRR1026977 4 0.4994 -0.0368 0.480 0.000 0.000 0.520
#> SRR1026978 1 0.5392 0.0141 0.528 0.460 0.000 0.012
#> SRR1026979 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026980 4 0.3668 0.7035 0.004 0.188 0.000 0.808
#> SRR1026981 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026982 4 0.5459 0.1286 0.432 0.016 0.000 0.552
#> SRR1026983 4 0.5320 0.1799 0.416 0.012 0.000 0.572
#> SRR1026984 4 0.1767 0.7711 0.044 0.012 0.000 0.944
#> SRR1026985 4 0.1938 0.7659 0.052 0.012 0.000 0.936
#> SRR1026986 2 0.4019 0.6697 0.196 0.792 0.000 0.012
#> SRR1026987 2 0.3837 0.6399 0.224 0.776 0.000 0.000
#> SRR1026988 1 0.2048 0.7824 0.928 0.000 0.008 0.064
#> SRR1026989 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026990 1 0.4331 0.5843 0.712 0.000 0.000 0.288
#> SRR1026991 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026992 1 0.0921 0.8053 0.972 0.028 0.000 0.000
#> SRR1026993 1 0.0592 0.8081 0.984 0.016 0.000 0.000
#> SRR1026994 2 0.5200 0.5082 0.036 0.700 0.000 0.264
#> SRR1026995 2 0.5830 0.6093 0.252 0.688 0.016 0.044
#> SRR1026996 4 0.3895 0.6418 0.184 0.012 0.000 0.804
#> SRR1026997 4 0.4059 0.6219 0.200 0.012 0.000 0.788
#> SRR1026998 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1027000 2 0.3726 0.6478 0.212 0.788 0.000 0.000
#> SRR1027001 3 0.0188 0.9457 0.000 0.004 0.996 0.000
#> SRR1027002 2 0.4079 0.6803 0.180 0.800 0.000 0.020
#> SRR1027003 2 0.3435 0.6989 0.036 0.864 0.000 0.100
#> SRR1027004 1 0.2469 0.7593 0.892 0.108 0.000 0.000
#> SRR1027005 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1027006 1 0.1557 0.7894 0.944 0.000 0.000 0.056
#> SRR1027007 1 0.0921 0.8013 0.972 0.000 0.000 0.028
#> SRR1027008 1 0.3444 0.6818 0.816 0.184 0.000 0.000
#> SRR1027009 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1027010 1 0.1042 0.8068 0.972 0.020 0.008 0.000
#> SRR1027011 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177668 1 0.2530 0.7587 0.896 0.004 0.100 0.000
#> SRR1177667 1 0.0376 0.8076 0.992 0.004 0.000 0.004
#> SRR1177669 1 0.4809 0.6184 0.752 0.016 0.220 0.012
#> SRR1177670 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177671 2 0.1890 0.7206 0.056 0.936 0.000 0.008
#> SRR1177672 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177673 1 0.4804 0.3120 0.616 0.384 0.000 0.000
#> SRR1177674 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177675 1 0.0336 0.8081 0.992 0.008 0.000 0.000
#> SRR1177676 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177677 2 0.5000 0.0310 0.500 0.500 0.000 0.000
#> SRR1177678 1 0.1557 0.7939 0.944 0.056 0.000 0.000
#> SRR1177679 2 0.2081 0.6903 0.000 0.916 0.000 0.084
#> SRR1177680 2 0.2654 0.6790 0.004 0.888 0.000 0.108
#> SRR1177681 1 0.4888 0.2366 0.588 0.412 0.000 0.000
#> SRR1177682 2 0.4103 0.5992 0.256 0.744 0.000 0.000
#> SRR1177683 2 0.4585 0.3398 0.000 0.668 0.000 0.332
#> SRR1177684 2 0.4925 0.0745 0.000 0.572 0.000 0.428
#> SRR1177685 1 0.0469 0.8075 0.988 0.012 0.000 0.000
#> SRR1177686 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177687 2 0.4285 0.7223 0.104 0.820 0.000 0.076
#> SRR1177688 2 0.4866 0.3123 0.404 0.596 0.000 0.000
#> SRR1177689 2 0.4193 0.5841 0.268 0.732 0.000 0.000
#> SRR1177690 1 0.4477 0.4741 0.688 0.312 0.000 0.000
#> SRR1177691 2 0.2345 0.6818 0.000 0.900 0.000 0.100
#> SRR1177692 2 0.2198 0.7238 0.072 0.920 0.000 0.008
#> SRR1177693 4 0.4072 0.6498 0.000 0.252 0.000 0.748
#> SRR1177694 4 0.0895 0.7901 0.004 0.020 0.000 0.976
#> SRR1177695 2 0.4564 0.4867 0.328 0.672 0.000 0.000
#> SRR1177697 1 0.4948 0.1542 0.560 0.440 0.000 0.000
#> SRR1177696 3 0.1109 0.9213 0.004 0.028 0.968 0.000
#> SRR1177698 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177700 1 0.3695 0.7037 0.828 0.156 0.016 0.000
#> SRR1177701 1 0.1978 0.7813 0.928 0.004 0.000 0.068
#> SRR1177702 2 0.5085 0.4068 0.020 0.676 0.304 0.000
#> SRR1177703 1 0.1302 0.7948 0.956 0.000 0.000 0.044
#> SRR1177704 3 0.4992 0.1602 0.000 0.476 0.524 0.000
#> SRR1177705 1 0.0376 0.8076 0.992 0.004 0.000 0.004
#> SRR1177706 2 0.2216 0.6874 0.000 0.908 0.000 0.092
#> SRR1177707 1 0.2542 0.7679 0.904 0.012 0.000 0.084
#> SRR1177708 1 0.2662 0.7807 0.900 0.084 0.000 0.016
#> SRR1177709 1 0.1302 0.7996 0.956 0.044 0.000 0.000
#> SRR1177710 3 0.0592 0.9332 0.016 0.000 0.984 0.000
#> SRR1177711 1 0.0376 0.8076 0.992 0.004 0.000 0.004
#> SRR1177712 2 0.3999 0.6255 0.000 0.824 0.036 0.140
#> SRR1177714 2 0.1118 0.6964 0.000 0.964 0.000 0.036
#> SRR1177713 2 0.6630 0.4598 0.136 0.612 0.252 0.000
#> SRR1177715 2 0.2845 0.7257 0.076 0.896 0.000 0.028
#> SRR1177716 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.0592 0.8074 0.984 0.016 0.000 0.000
#> SRR1177718 1 0.2973 0.7257 0.856 0.144 0.000 0.000
#> SRR1177719 1 0.1022 0.7993 0.968 0.000 0.000 0.032
#> SRR1177720 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177721 2 0.4996 -0.1176 0.000 0.516 0.000 0.484
#> SRR1177722 4 0.4972 0.2741 0.000 0.456 0.000 0.544
#> SRR1177723 1 0.1302 0.7992 0.956 0.044 0.000 0.000
#> SRR1177725 1 0.0707 0.8082 0.980 0.020 0.000 0.000
#> SRR1177724 1 0.2149 0.7733 0.912 0.088 0.000 0.000
#> SRR1177726 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.0188 0.8077 0.996 0.004 0.000 0.000
#> SRR1177728 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.1118 0.8030 0.964 0.036 0.000 0.000
#> SRR1177730 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177731 1 0.1118 0.8022 0.964 0.036 0.000 0.000
#> SRR1177732 1 0.0817 0.8064 0.976 0.024 0.000 0.000
#> SRR1177733 1 0.0817 0.8081 0.976 0.024 0.000 0.000
#> SRR1177734 1 0.3649 0.6573 0.796 0.204 0.000 0.000
#> SRR1177735 1 0.4907 0.2283 0.580 0.420 0.000 0.000
#> SRR1177736 1 0.2647 0.7573 0.880 0.120 0.000 0.000
#> SRR1177737 4 0.2921 0.7489 0.000 0.140 0.000 0.860
#> SRR1177738 3 0.0469 0.9409 0.000 0.000 0.988 0.012
#> SRR1177739 1 0.1302 0.8047 0.956 0.044 0.000 0.000
#> SRR1177740 1 0.3764 0.6590 0.784 0.216 0.000 0.000
#> SRR1177741 1 0.0592 0.8072 0.984 0.016 0.000 0.000
#> SRR1177742 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.1557 0.7936 0.944 0.056 0.000 0.000
#> SRR1177744 1 0.2593 0.7569 0.892 0.004 0.104 0.000
#> SRR1177745 2 0.2198 0.6975 0.008 0.920 0.000 0.072
#> SRR1177746 2 0.2928 0.7203 0.052 0.896 0.000 0.052
#> SRR1177747 1 0.4746 0.6717 0.776 0.000 0.168 0.056
#> SRR1177748 3 0.0000 0.9478 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0336 0.8076 0.992 0.008 0.000 0.000
#> SRR1177750 1 0.4697 0.3821 0.644 0.356 0.000 0.000
#> SRR1177751 2 0.4898 0.2971 0.416 0.584 0.000 0.000
#> SRR1177752 1 0.0336 0.8076 0.992 0.008 0.000 0.000
#> SRR1177753 1 0.0817 0.8062 0.976 0.024 0.000 0.000
#> SRR1177754 1 0.2089 0.7921 0.932 0.048 0.020 0.000
#> SRR1177755 1 0.0817 0.8063 0.976 0.024 0.000 0.000
#> SRR1177756 1 0.5000 -0.0649 0.500 0.500 0.000 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 4 0.2824 0.7455 0.000 0.096 0.000 0.872 0.032
#> SRR1026871 4 0.2824 0.7455 0.000 0.096 0.000 0.872 0.032
#> SRR1026872 4 0.2723 0.7296 0.000 0.124 0.000 0.864 0.012
#> SRR1026873 1 0.1041 0.8006 0.964 0.000 0.000 0.004 0.032
#> SRR1026874 3 0.6383 0.3123 0.084 0.004 0.564 0.032 0.316
#> SRR1026875 4 0.3988 0.5887 0.000 0.252 0.000 0.732 0.016
#> SRR1026876 4 0.3934 0.5996 0.000 0.244 0.000 0.740 0.016
#> SRR1026877 3 0.0880 0.9289 0.000 0.000 0.968 0.000 0.032
#> SRR1026878 3 0.0880 0.9289 0.000 0.000 0.968 0.000 0.032
#> SRR1026879 1 0.3016 0.7808 0.848 0.020 0.000 0.000 0.132
#> SRR1026880 1 0.3441 0.7231 0.824 0.004 0.148 0.000 0.024
#> SRR1026881 4 0.1372 0.7745 0.004 0.016 0.000 0.956 0.024
#> SRR1026882 4 0.1278 0.7742 0.004 0.020 0.000 0.960 0.016
#> SRR1026883 4 0.1173 0.7724 0.012 0.004 0.000 0.964 0.020
#> SRR1026884 4 0.1507 0.7739 0.012 0.012 0.000 0.952 0.024
#> SRR1026885 1 0.7715 0.3171 0.448 0.080 0.000 0.256 0.216
#> SRR1026886 4 0.7726 0.1094 0.312 0.068 0.000 0.404 0.216
#> SRR1026887 3 0.4734 0.6702 0.008 0.004 0.736 0.052 0.200
#> SRR1026888 3 0.4699 0.6704 0.008 0.004 0.736 0.048 0.204
#> SRR1026889 4 0.3750 0.6224 0.000 0.232 0.000 0.756 0.012
#> SRR1026890 4 0.2221 0.7681 0.000 0.052 0.000 0.912 0.036
#> SRR1026891 1 0.4938 0.5318 0.640 0.000 0.000 0.312 0.048
#> SRR1026892 1 0.4697 0.5527 0.660 0.000 0.000 0.304 0.036
#> SRR1026893 3 0.0162 0.9448 0.000 0.000 0.996 0.000 0.004
#> SRR1026894 3 0.0162 0.9448 0.000 0.000 0.996 0.000 0.004
#> SRR1026895 4 0.1117 0.7722 0.000 0.016 0.000 0.964 0.020
#> SRR1026896 4 0.0798 0.7725 0.000 0.008 0.000 0.976 0.016
#> SRR1026897 4 0.5135 0.5102 0.008 0.052 0.000 0.656 0.284
#> SRR1026898 1 0.4763 0.4938 0.632 0.336 0.000 0.000 0.032
#> SRR1026899 1 0.1251 0.7992 0.956 0.008 0.000 0.000 0.036
#> SRR1026900 4 0.4561 0.0279 0.000 0.488 0.000 0.504 0.008
#> SRR1026901 5 0.7964 0.4539 0.000 0.116 0.216 0.232 0.436
#> SRR1026902 4 0.5527 0.5119 0.200 0.004 0.000 0.660 0.136
#> SRR1026903 4 0.6087 0.3914 0.276 0.004 0.000 0.572 0.148
#> SRR1026904 4 0.1365 0.7703 0.004 0.004 0.000 0.952 0.040
#> SRR1026905 4 0.1502 0.7648 0.000 0.004 0.000 0.940 0.056
#> SRR1026906 2 0.4824 -0.0104 0.000 0.512 0.000 0.468 0.020
#> SRR1026907 2 0.5036 0.0195 0.000 0.516 0.000 0.452 0.032
#> SRR1026908 4 0.4549 0.1536 0.000 0.464 0.000 0.528 0.008
#> SRR1026909 4 0.4560 0.0792 0.000 0.484 0.000 0.508 0.008
#> SRR1026910 4 0.3102 0.7319 0.056 0.000 0.000 0.860 0.084
#> SRR1026911 4 0.2616 0.7483 0.036 0.000 0.000 0.888 0.076
#> SRR1026912 3 0.4960 0.6021 0.000 0.000 0.708 0.180 0.112
#> SRR1026913 3 0.5072 0.5821 0.000 0.000 0.696 0.188 0.116
#> SRR1026914 4 0.2017 0.7599 0.000 0.080 0.000 0.912 0.008
#> SRR1026915 4 0.1831 0.7625 0.000 0.076 0.000 0.920 0.004
#> SRR1026916 4 0.1981 0.7718 0.000 0.048 0.000 0.924 0.028
#> SRR1026917 4 0.1981 0.7718 0.000 0.048 0.000 0.924 0.028
#> SRR1026918 4 0.0898 0.7734 0.008 0.000 0.000 0.972 0.020
#> SRR1026919 4 0.0771 0.7733 0.004 0.000 0.000 0.976 0.020
#> SRR1026920 4 0.1774 0.7687 0.000 0.052 0.000 0.932 0.016
#> SRR1026921 4 0.1774 0.7687 0.000 0.052 0.000 0.932 0.016
#> SRR1026922 2 0.5668 0.0909 0.000 0.504 0.000 0.416 0.080
#> SRR1026923 5 0.4701 0.6791 0.000 0.236 0.000 0.060 0.704
#> SRR1026924 4 0.0898 0.7728 0.000 0.008 0.000 0.972 0.020
#> SRR1026925 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1026926 4 0.1965 0.7639 0.024 0.000 0.000 0.924 0.052
#> SRR1026927 1 0.4769 0.6130 0.688 0.000 0.000 0.256 0.056
#> SRR1026928 4 0.1442 0.7741 0.032 0.012 0.000 0.952 0.004
#> SRR1026929 3 0.0000 0.9461 0.000 0.000 1.000 0.000 0.000
#> SRR1026930 2 0.6396 0.3156 0.124 0.548 0.000 0.308 0.020
#> SRR1026931 5 0.5072 0.6919 0.060 0.228 0.004 0.008 0.700
#> SRR1026932 2 0.4644 0.0730 0.000 0.528 0.000 0.460 0.012
#> SRR1026933 2 0.4641 0.0868 0.000 0.532 0.000 0.456 0.012
#> SRR1026934 4 0.4067 0.5187 0.000 0.300 0.000 0.692 0.008
#> SRR1026935 4 0.4127 0.5002 0.000 0.312 0.000 0.680 0.008
#> SRR1026936 4 0.2570 0.7377 0.084 0.000 0.000 0.888 0.028
#> SRR1026937 4 0.2595 0.7376 0.080 0.000 0.000 0.888 0.032
#> SRR1026938 4 0.1410 0.7686 0.000 0.060 0.000 0.940 0.000
#> SRR1026939 4 0.1908 0.7587 0.000 0.092 0.000 0.908 0.000
#> SRR1026940 1 0.6188 0.3306 0.492 0.364 0.000 0.000 0.144
#> SRR1026941 3 0.0000 0.9461 0.000 0.000 1.000 0.000 0.000
#> SRR1026942 1 0.2193 0.7840 0.912 0.000 0.000 0.060 0.028
#> SRR1026943 1 0.1300 0.7975 0.956 0.000 0.000 0.028 0.016
#> SRR1026944 1 0.2193 0.7827 0.912 0.000 0.000 0.060 0.028
#> SRR1026945 3 0.0609 0.9379 0.000 0.000 0.980 0.000 0.020
#> SRR1026947 4 0.4641 0.1685 0.000 0.456 0.000 0.532 0.012
#> SRR1026946 2 0.4666 0.1873 0.000 0.572 0.000 0.412 0.016
#> SRR1026948 2 0.3355 0.4816 0.000 0.804 0.000 0.184 0.012
#> SRR1026949 2 0.1569 0.5729 0.044 0.944 0.000 0.008 0.004
#> SRR1026950 1 0.1493 0.7944 0.948 0.000 0.000 0.024 0.028
#> SRR1026951 2 0.5383 0.2898 0.348 0.596 0.000 0.012 0.044
#> SRR1026952 1 0.1216 0.7966 0.960 0.000 0.000 0.020 0.020
#> SRR1026953 3 0.0290 0.9448 0.000 0.000 0.992 0.000 0.008
#> SRR1026954 4 0.5591 0.3177 0.352 0.008 0.000 0.576 0.064
#> SRR1026955 4 0.4537 0.3201 0.000 0.396 0.000 0.592 0.012
#> SRR1026956 1 0.3732 0.6996 0.792 0.000 0.000 0.176 0.032
#> SRR1026957 4 0.3700 0.6153 0.000 0.240 0.000 0.752 0.008
#> SRR1026958 1 0.5080 0.5365 0.628 0.316 0.000 0.000 0.056
#> SRR1026959 2 0.2628 0.5008 0.000 0.884 0.000 0.028 0.088
#> SRR1026960 4 0.5803 0.0244 0.440 0.008 0.000 0.484 0.068
#> SRR1026961 4 0.2409 0.7613 0.020 0.012 0.000 0.908 0.060
#> SRR1026962 1 0.2077 0.7924 0.920 0.000 0.000 0.040 0.040
#> SRR1026963 1 0.2947 0.7885 0.876 0.020 0.000 0.016 0.088
#> SRR1026964 4 0.4147 0.7060 0.016 0.064 0.000 0.804 0.116
#> SRR1026965 4 0.4154 0.7020 0.008 0.072 0.000 0.796 0.124
#> SRR1026966 3 0.0609 0.9368 0.000 0.000 0.980 0.000 0.020
#> SRR1026967 3 0.0609 0.9368 0.000 0.000 0.980 0.000 0.020
#> SRR1026968 4 0.2236 0.7499 0.068 0.000 0.000 0.908 0.024
#> SRR1026969 1 0.5100 0.5554 0.652 0.004 0.000 0.288 0.056
#> SRR1026970 1 0.4736 0.3241 0.576 0.000 0.000 0.404 0.020
#> SRR1026971 1 0.4687 0.4866 0.636 0.000 0.000 0.336 0.028
#> SRR1026972 4 0.1774 0.7675 0.016 0.000 0.000 0.932 0.052
#> SRR1026973 4 0.1697 0.7664 0.008 0.000 0.000 0.932 0.060
#> SRR1026974 1 0.3795 0.6817 0.780 0.000 0.000 0.192 0.028
#> SRR1026975 1 0.3694 0.6974 0.796 0.000 0.000 0.172 0.032
#> SRR1026976 4 0.4697 0.4740 0.304 0.000 0.000 0.660 0.036
#> SRR1026977 4 0.4550 0.5150 0.276 0.000 0.000 0.688 0.036
#> SRR1026978 1 0.4496 0.6952 0.756 0.188 0.000 0.020 0.036
#> SRR1026979 3 0.0510 0.9388 0.000 0.000 0.984 0.000 0.016
#> SRR1026980 4 0.5278 0.3768 0.012 0.356 0.004 0.600 0.028
#> SRR1026981 3 0.0000 0.9461 0.000 0.000 1.000 0.000 0.000
#> SRR1026982 4 0.5884 0.4676 0.268 0.020 0.000 0.620 0.092
#> SRR1026983 4 0.5448 0.5483 0.212 0.016 0.000 0.680 0.092
#> SRR1026984 4 0.2795 0.7419 0.056 0.000 0.000 0.880 0.064
#> SRR1026985 4 0.2592 0.7468 0.052 0.000 0.000 0.892 0.056
#> SRR1026986 2 0.3248 0.5440 0.104 0.852 0.000 0.004 0.040
#> SRR1026987 2 0.3697 0.5142 0.100 0.820 0.000 0.000 0.080
#> SRR1026988 1 0.3160 0.7734 0.876 0.000 0.040 0.052 0.032
#> SRR1026989 3 0.0000 0.9461 0.000 0.000 1.000 0.000 0.000
#> SRR1026990 1 0.4687 0.5747 0.672 0.000 0.000 0.288 0.040
#> SRR1026991 3 0.0000 0.9461 0.000 0.000 1.000 0.000 0.000
#> SRR1026992 1 0.1965 0.7964 0.924 0.052 0.000 0.000 0.024
#> SRR1026993 1 0.2086 0.7976 0.924 0.020 0.000 0.008 0.048
#> SRR1026994 2 0.3075 0.5342 0.000 0.860 0.000 0.092 0.048
#> SRR1026995 2 0.5398 0.3372 0.292 0.648 0.024 0.008 0.028
#> SRR1026996 4 0.2977 0.7392 0.040 0.008 0.000 0.876 0.076
#> SRR1026997 4 0.2792 0.7436 0.040 0.004 0.000 0.884 0.072
#> SRR1026998 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1026999 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1027000 2 0.2843 0.5106 0.144 0.848 0.000 0.000 0.008
#> SRR1027001 3 0.0000 0.9461 0.000 0.000 1.000 0.000 0.000
#> SRR1027002 2 0.3745 0.4647 0.196 0.780 0.000 0.000 0.024
#> SRR1027003 2 0.3756 0.4749 0.012 0.824 0.000 0.044 0.120
#> SRR1027004 1 0.1911 0.7989 0.932 0.028 0.000 0.004 0.036
#> SRR1027005 3 0.0290 0.9448 0.000 0.000 0.992 0.000 0.008
#> SRR1027006 1 0.2546 0.7882 0.904 0.000 0.012 0.048 0.036
#> SRR1027007 1 0.2437 0.7873 0.904 0.004 0.000 0.060 0.032
#> SRR1027008 1 0.2909 0.7567 0.848 0.140 0.000 0.000 0.012
#> SRR1027009 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1027010 1 0.3197 0.7832 0.852 0.024 0.008 0.000 0.116
#> SRR1027011 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1177668 1 0.2679 0.7894 0.892 0.004 0.048 0.000 0.056
#> SRR1177667 1 0.0932 0.8007 0.972 0.004 0.000 0.004 0.020
#> SRR1177669 1 0.7733 0.0951 0.388 0.056 0.344 0.004 0.208
#> SRR1177670 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1177671 5 0.4971 0.4493 0.028 0.460 0.000 0.000 0.512
#> SRR1177672 3 0.0000 0.9461 0.000 0.000 1.000 0.000 0.000
#> SRR1177673 1 0.3622 0.7508 0.816 0.136 0.000 0.000 0.048
#> SRR1177674 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1177675 1 0.0833 0.7996 0.976 0.004 0.000 0.004 0.016
#> SRR1177676 3 0.0290 0.9448 0.000 0.000 0.992 0.000 0.008
#> SRR1177677 1 0.4902 0.1657 0.508 0.468 0.000 0.000 0.024
#> SRR1177678 1 0.1195 0.7993 0.960 0.028 0.000 0.000 0.012
#> SRR1177679 2 0.1173 0.5740 0.004 0.964 0.000 0.012 0.020
#> SRR1177680 2 0.2564 0.5751 0.020 0.904 0.000 0.024 0.052
#> SRR1177681 1 0.4989 0.3079 0.552 0.416 0.000 0.000 0.032
#> SRR1177682 2 0.4031 0.4606 0.184 0.772 0.000 0.000 0.044
#> SRR1177683 2 0.2416 0.5431 0.000 0.888 0.000 0.100 0.012
#> SRR1177684 2 0.2304 0.5467 0.000 0.892 0.000 0.100 0.008
#> SRR1177685 1 0.0451 0.8003 0.988 0.008 0.000 0.000 0.004
#> SRR1177686 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1177687 2 0.3175 0.5654 0.044 0.872 0.000 0.020 0.064
#> SRR1177688 2 0.4786 0.3247 0.308 0.652 0.000 0.000 0.040
#> SRR1177689 2 0.4219 0.4037 0.260 0.716 0.000 0.000 0.024
#> SRR1177690 1 0.4651 0.4294 0.608 0.372 0.000 0.000 0.020
#> SRR1177691 2 0.1299 0.5766 0.012 0.960 0.000 0.020 0.008
#> SRR1177692 2 0.1281 0.5658 0.032 0.956 0.000 0.000 0.012
#> SRR1177693 4 0.5149 0.5618 0.000 0.104 0.000 0.680 0.216
#> SRR1177694 4 0.1282 0.7709 0.000 0.044 0.000 0.952 0.004
#> SRR1177695 2 0.4157 0.3930 0.264 0.716 0.000 0.000 0.020
#> SRR1177697 1 0.4023 0.7303 0.804 0.096 0.000 0.004 0.096
#> SRR1177696 3 0.1310 0.9080 0.020 0.024 0.956 0.000 0.000
#> SRR1177698 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1177700 1 0.3656 0.7807 0.844 0.100 0.016 0.008 0.032
#> SRR1177701 1 0.3242 0.7723 0.852 0.000 0.000 0.072 0.076
#> SRR1177702 5 0.5366 0.7114 0.044 0.116 0.112 0.000 0.728
#> SRR1177703 1 0.2325 0.7865 0.904 0.000 0.000 0.068 0.028
#> SRR1177704 5 0.4558 0.6517 0.000 0.060 0.216 0.000 0.724
#> SRR1177705 1 0.1788 0.8001 0.932 0.004 0.000 0.008 0.056
#> SRR1177706 2 0.1278 0.5691 0.004 0.960 0.000 0.020 0.016
#> SRR1177707 1 0.4240 0.7347 0.792 0.008 0.000 0.112 0.088
#> SRR1177708 1 0.6891 0.4405 0.512 0.248 0.000 0.024 0.216
#> SRR1177709 1 0.2464 0.7810 0.888 0.096 0.000 0.000 0.016
#> SRR1177710 3 0.1646 0.9012 0.032 0.004 0.944 0.000 0.020
#> SRR1177711 1 0.0960 0.7992 0.972 0.004 0.000 0.008 0.016
#> SRR1177712 5 0.5504 0.7147 0.012 0.156 0.036 0.072 0.724
#> SRR1177714 5 0.4632 0.4960 0.000 0.448 0.000 0.012 0.540
#> SRR1177713 5 0.5560 0.7033 0.084 0.120 0.076 0.000 0.720
#> SRR1177715 2 0.1043 0.5683 0.040 0.960 0.000 0.000 0.000
#> SRR1177716 3 0.0794 0.9321 0.000 0.000 0.972 0.000 0.028
#> SRR1177717 1 0.1117 0.8014 0.964 0.020 0.000 0.000 0.016
#> SRR1177718 1 0.2387 0.7942 0.908 0.048 0.000 0.004 0.040
#> SRR1177719 1 0.1845 0.7884 0.928 0.000 0.000 0.056 0.016
#> SRR1177720 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1177721 2 0.3053 0.5035 0.000 0.828 0.000 0.164 0.008
#> SRR1177722 2 0.4774 0.1741 0.000 0.556 0.000 0.424 0.020
#> SRR1177723 1 0.1564 0.8008 0.948 0.024 0.000 0.004 0.024
#> SRR1177725 1 0.2325 0.7971 0.904 0.028 0.000 0.000 0.068
#> SRR1177724 1 0.1661 0.7990 0.940 0.036 0.000 0.000 0.024
#> SRR1177726 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1177727 1 0.1282 0.8036 0.952 0.000 0.000 0.004 0.044
#> SRR1177728 3 0.0162 0.9462 0.000 0.000 0.996 0.000 0.004
#> SRR1177729 1 0.2074 0.7981 0.920 0.044 0.000 0.000 0.036
#> SRR1177730 3 0.0000 0.9461 0.000 0.000 1.000 0.000 0.000
#> SRR1177731 1 0.2304 0.7949 0.908 0.048 0.000 0.000 0.044
#> SRR1177732 1 0.2110 0.7969 0.912 0.016 0.000 0.000 0.072
#> SRR1177733 1 0.3478 0.7719 0.828 0.032 0.000 0.004 0.136
#> SRR1177734 1 0.3416 0.7781 0.840 0.088 0.000 0.000 0.072
#> SRR1177735 1 0.5837 0.3622 0.532 0.376 0.000 0.004 0.088
#> SRR1177736 1 0.5426 0.6734 0.672 0.132 0.000 0.004 0.192
#> SRR1177737 4 0.2903 0.7605 0.000 0.080 0.000 0.872 0.048
#> SRR1177738 3 0.1282 0.8999 0.000 0.000 0.952 0.044 0.004
#> SRR1177739 1 0.5364 0.6706 0.672 0.112 0.000 0.004 0.212
#> SRR1177740 1 0.6396 0.1293 0.416 0.416 0.000 0.000 0.168
#> SRR1177741 1 0.1251 0.7991 0.956 0.008 0.000 0.000 0.036
#> SRR1177742 3 0.0000 0.9461 0.000 0.000 1.000 0.000 0.000
#> SRR1177743 1 0.2685 0.7912 0.880 0.028 0.000 0.000 0.092
#> SRR1177744 1 0.3117 0.7687 0.860 0.004 0.100 0.000 0.036
#> SRR1177745 2 0.1413 0.5668 0.012 0.956 0.000 0.012 0.020
#> SRR1177746 2 0.1503 0.5751 0.020 0.952 0.000 0.008 0.020
#> SRR1177747 1 0.6273 0.5553 0.624 0.000 0.180 0.032 0.164
#> SRR1177748 3 0.0290 0.9448 0.000 0.000 0.992 0.000 0.008
#> SRR1177749 1 0.0324 0.8000 0.992 0.004 0.000 0.000 0.004
#> SRR1177750 1 0.4651 0.4316 0.608 0.372 0.000 0.000 0.020
#> SRR1177751 2 0.4309 0.3429 0.308 0.676 0.000 0.000 0.016
#> SRR1177752 1 0.0992 0.8028 0.968 0.008 0.000 0.000 0.024
#> SRR1177753 1 0.2625 0.7768 0.876 0.108 0.000 0.000 0.016
#> SRR1177754 1 0.5400 0.6969 0.732 0.116 0.068 0.000 0.084
#> SRR1177755 1 0.1883 0.7982 0.932 0.012 0.000 0.008 0.048
#> SRR1177756 1 0.4428 0.6043 0.700 0.268 0.000 0.000 0.032
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 4 0.2265 0.69381 0.000 0.068 0.000 0.900 0.024 0.008
#> SRR1026871 4 0.2322 0.69265 0.000 0.072 0.000 0.896 0.024 0.008
#> SRR1026872 4 0.2586 0.68687 0.000 0.080 0.000 0.880 0.032 0.008
#> SRR1026873 1 0.3447 0.66446 0.800 0.024 0.000 0.000 0.164 0.012
#> SRR1026874 3 0.7307 -0.06347 0.072 0.000 0.396 0.012 0.272 0.248
#> SRR1026875 4 0.3986 0.58875 0.000 0.204 0.000 0.748 0.036 0.012
#> SRR1026876 4 0.3834 0.61210 0.000 0.184 0.000 0.768 0.036 0.012
#> SRR1026877 3 0.0909 0.92402 0.000 0.000 0.968 0.000 0.020 0.012
#> SRR1026878 3 0.0806 0.92599 0.000 0.000 0.972 0.000 0.020 0.008
#> SRR1026879 5 0.5688 -0.18036 0.408 0.080 0.000 0.000 0.484 0.028
#> SRR1026880 1 0.5872 0.51608 0.636 0.040 0.200 0.000 0.104 0.020
#> SRR1026881 4 0.1914 0.69607 0.040 0.008 0.000 0.928 0.012 0.012
#> SRR1026882 4 0.1785 0.69792 0.028 0.008 0.000 0.936 0.016 0.012
#> SRR1026883 4 0.3192 0.65326 0.004 0.004 0.000 0.828 0.136 0.028
#> SRR1026884 4 0.3381 0.64935 0.004 0.008 0.000 0.816 0.144 0.028
#> SRR1026885 5 0.2755 0.56471 0.036 0.028 0.000 0.056 0.880 0.000
#> SRR1026886 5 0.2882 0.56108 0.024 0.024 0.000 0.076 0.872 0.004
#> SRR1026887 5 0.3883 0.44627 0.000 0.000 0.200 0.044 0.752 0.004
#> SRR1026888 5 0.3867 0.43162 0.000 0.000 0.216 0.036 0.744 0.004
#> SRR1026889 4 0.4613 0.59204 0.000 0.204 0.000 0.704 0.080 0.012
#> SRR1026890 4 0.4605 0.59671 0.000 0.060 0.000 0.704 0.216 0.020
#> SRR1026891 1 0.6079 0.11077 0.448 0.000 0.000 0.180 0.360 0.012
#> SRR1026892 1 0.6060 0.18418 0.476 0.000 0.000 0.188 0.324 0.012
#> SRR1026893 3 0.0508 0.93192 0.000 0.000 0.984 0.000 0.004 0.012
#> SRR1026894 3 0.0508 0.93192 0.000 0.000 0.984 0.000 0.004 0.012
#> SRR1026895 4 0.2517 0.67784 0.000 0.008 0.000 0.876 0.100 0.016
#> SRR1026896 4 0.2468 0.67925 0.000 0.008 0.000 0.880 0.096 0.016
#> SRR1026897 4 0.5517 0.53174 0.000 0.048 0.000 0.632 0.088 0.232
#> SRR1026898 1 0.5532 0.42622 0.540 0.348 0.000 0.000 0.096 0.016
#> SRR1026899 1 0.3958 0.65485 0.764 0.040 0.000 0.000 0.180 0.016
#> SRR1026900 4 0.4534 0.00192 0.004 0.460 0.000 0.516 0.012 0.008
#> SRR1026901 4 0.7322 -0.07227 0.008 0.052 0.220 0.380 0.012 0.328
#> SRR1026902 5 0.4380 0.52034 0.056 0.000 0.000 0.216 0.716 0.012
#> SRR1026903 5 0.4272 0.55769 0.080 0.000 0.000 0.160 0.748 0.012
#> SRR1026904 4 0.4346 0.53670 0.008 0.012 0.000 0.664 0.304 0.012
#> SRR1026905 4 0.4446 0.45522 0.004 0.012 0.000 0.612 0.360 0.012
#> SRR1026906 2 0.4861 0.12352 0.020 0.512 0.000 0.444 0.024 0.000
#> SRR1026907 2 0.4789 0.12168 0.016 0.512 0.000 0.448 0.024 0.000
#> SRR1026908 2 0.4463 0.07129 0.000 0.508 0.000 0.468 0.020 0.004
#> SRR1026909 2 0.4381 0.11238 0.000 0.524 0.000 0.456 0.016 0.004
#> SRR1026910 5 0.5132 -0.09457 0.036 0.012 0.000 0.456 0.488 0.008
#> SRR1026911 4 0.5006 0.16313 0.028 0.012 0.000 0.504 0.448 0.008
#> SRR1026912 3 0.6815 -0.07363 0.000 0.036 0.412 0.144 0.384 0.024
#> SRR1026913 3 0.6885 -0.08509 0.000 0.044 0.408 0.128 0.392 0.028
#> SRR1026914 4 0.2658 0.69283 0.000 0.100 0.000 0.864 0.036 0.000
#> SRR1026915 4 0.2509 0.69532 0.000 0.088 0.000 0.876 0.036 0.000
#> SRR1026916 4 0.2467 0.69390 0.020 0.048 0.000 0.896 0.036 0.000
#> SRR1026917 4 0.2532 0.69379 0.020 0.052 0.000 0.892 0.036 0.000
#> SRR1026918 4 0.1720 0.68863 0.032 0.000 0.000 0.928 0.040 0.000
#> SRR1026919 4 0.1334 0.69149 0.032 0.000 0.000 0.948 0.020 0.000
#> SRR1026920 4 0.1483 0.69800 0.000 0.036 0.000 0.944 0.008 0.012
#> SRR1026921 4 0.1523 0.69730 0.000 0.044 0.000 0.940 0.008 0.008
#> SRR1026922 4 0.5206 0.37728 0.012 0.308 0.000 0.608 0.008 0.064
#> SRR1026923 6 0.2380 0.81100 0.000 0.036 0.000 0.068 0.004 0.892
#> SRR1026924 4 0.3279 0.65055 0.000 0.028 0.000 0.796 0.176 0.000
#> SRR1026925 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026926 4 0.4453 0.51929 0.012 0.016 0.000 0.672 0.288 0.012
#> SRR1026927 1 0.5669 0.25653 0.500 0.000 0.000 0.104 0.380 0.016
#> SRR1026928 4 0.2291 0.69207 0.040 0.012 0.000 0.904 0.044 0.000
#> SRR1026929 3 0.0146 0.93581 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1026930 2 0.5925 0.16319 0.180 0.424 0.000 0.392 0.004 0.000
#> SRR1026931 6 0.1552 0.84987 0.020 0.036 0.000 0.004 0.000 0.940
#> SRR1026932 2 0.4284 0.26902 0.000 0.588 0.000 0.392 0.016 0.004
#> SRR1026933 2 0.4255 0.29665 0.000 0.600 0.000 0.380 0.016 0.004
#> SRR1026934 4 0.3672 0.46134 0.000 0.304 0.000 0.688 0.000 0.008
#> SRR1026935 4 0.3874 0.36474 0.000 0.356 0.000 0.636 0.000 0.008
#> SRR1026936 4 0.4012 0.59909 0.060 0.000 0.000 0.760 0.172 0.008
#> SRR1026937 4 0.4571 0.56727 0.068 0.004 0.000 0.716 0.200 0.012
#> SRR1026938 4 0.2189 0.69332 0.000 0.060 0.000 0.904 0.032 0.004
#> SRR1026939 4 0.2666 0.68659 0.000 0.092 0.000 0.872 0.028 0.008
#> SRR1026940 2 0.5654 -0.03091 0.152 0.444 0.000 0.000 0.404 0.000
#> SRR1026941 3 0.0146 0.93606 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026942 1 0.1789 0.66495 0.924 0.000 0.000 0.044 0.032 0.000
#> SRR1026943 1 0.1536 0.68717 0.940 0.000 0.000 0.016 0.040 0.004
#> SRR1026944 1 0.2511 0.64340 0.880 0.000 0.000 0.056 0.064 0.000
#> SRR1026945 3 0.0547 0.92728 0.000 0.000 0.980 0.000 0.000 0.020
#> SRR1026947 2 0.4461 0.07362 0.000 0.512 0.000 0.464 0.020 0.004
#> SRR1026946 2 0.4594 0.33699 0.000 0.608 0.000 0.340 0.052 0.000
#> SRR1026948 2 0.3309 0.53021 0.000 0.788 0.000 0.192 0.016 0.004
#> SRR1026949 2 0.2573 0.58941 0.036 0.892 0.000 0.036 0.036 0.000
#> SRR1026950 1 0.2106 0.66038 0.904 0.000 0.000 0.032 0.064 0.000
#> SRR1026951 1 0.5940 0.08023 0.484 0.396 0.000 0.088 0.016 0.016
#> SRR1026952 1 0.2039 0.66992 0.908 0.004 0.000 0.016 0.072 0.000
#> SRR1026953 3 0.0260 0.93376 0.000 0.000 0.992 0.000 0.000 0.008
#> SRR1026954 4 0.5863 0.23906 0.336 0.000 0.000 0.492 0.164 0.008
#> SRR1026955 4 0.4419 0.22420 0.000 0.408 0.000 0.568 0.016 0.008
#> SRR1026956 1 0.4870 0.46065 0.624 0.000 0.000 0.076 0.296 0.004
#> SRR1026957 4 0.4226 0.58065 0.000 0.216 0.000 0.724 0.052 0.008
#> SRR1026958 1 0.6174 0.14096 0.412 0.288 0.000 0.000 0.296 0.004
#> SRR1026959 2 0.3707 0.48592 0.000 0.784 0.000 0.080 0.000 0.136
#> SRR1026960 4 0.5383 0.18223 0.416 0.000 0.000 0.472 0.112 0.000
#> SRR1026961 4 0.4175 0.59846 0.136 0.000 0.000 0.752 0.108 0.004
#> SRR1026962 1 0.2575 0.65276 0.880 0.004 0.000 0.044 0.072 0.000
#> SRR1026963 1 0.3470 0.57038 0.772 0.000 0.000 0.028 0.200 0.000
#> SRR1026964 5 0.4908 0.19987 0.032 0.020 0.000 0.336 0.608 0.004
#> SRR1026965 5 0.4495 0.27946 0.008 0.032 0.000 0.296 0.660 0.004
#> SRR1026966 3 0.0363 0.93382 0.000 0.000 0.988 0.000 0.012 0.000
#> SRR1026967 3 0.0363 0.93389 0.000 0.000 0.988 0.000 0.012 0.000
#> SRR1026968 4 0.4582 0.50969 0.216 0.000 0.000 0.684 0.100 0.000
#> SRR1026969 1 0.5558 0.14589 0.524 0.000 0.000 0.316 0.160 0.000
#> SRR1026970 1 0.6076 0.08678 0.468 0.000 0.000 0.332 0.188 0.012
#> SRR1026971 1 0.5855 0.25268 0.532 0.000 0.000 0.248 0.212 0.008
#> SRR1026972 4 0.4952 0.49658 0.020 0.016 0.000 0.644 0.292 0.028
#> SRR1026973 4 0.4516 0.51546 0.004 0.016 0.000 0.664 0.292 0.024
#> SRR1026974 1 0.4204 0.52064 0.740 0.000 0.000 0.132 0.128 0.000
#> SRR1026975 1 0.3920 0.55228 0.768 0.000 0.000 0.120 0.112 0.000
#> SRR1026976 4 0.4926 0.27135 0.392 0.000 0.000 0.540 0.068 0.000
#> SRR1026977 4 0.4631 0.39702 0.320 0.000 0.000 0.620 0.060 0.000
#> SRR1026978 1 0.3850 0.62503 0.800 0.084 0.000 0.096 0.020 0.000
#> SRR1026979 3 0.1082 0.91203 0.000 0.000 0.956 0.000 0.040 0.004
#> SRR1026980 4 0.5670 0.50094 0.136 0.204 0.000 0.628 0.024 0.008
#> SRR1026981 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026982 4 0.6151 0.11762 0.268 0.000 0.000 0.420 0.308 0.004
#> SRR1026983 4 0.6102 0.16699 0.256 0.000 0.000 0.440 0.300 0.004
#> SRR1026984 4 0.4768 0.54160 0.168 0.000 0.000 0.688 0.140 0.004
#> SRR1026985 4 0.4771 0.53229 0.188 0.000 0.000 0.684 0.124 0.004
#> SRR1026986 2 0.3841 0.56317 0.132 0.800 0.000 0.032 0.032 0.004
#> SRR1026987 2 0.2750 0.56207 0.048 0.868 0.000 0.000 0.080 0.004
#> SRR1026988 1 0.3073 0.64001 0.868 0.000 0.032 0.060 0.032 0.008
#> SRR1026989 3 0.0291 0.93479 0.000 0.000 0.992 0.000 0.004 0.004
#> SRR1026990 1 0.6031 0.12193 0.456 0.000 0.000 0.192 0.344 0.008
#> SRR1026991 3 0.0146 0.93606 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026992 1 0.4469 0.64458 0.736 0.128 0.000 0.000 0.124 0.012
#> SRR1026993 1 0.3085 0.66320 0.868 0.044 0.000 0.052 0.028 0.008
#> SRR1026994 2 0.4077 0.57009 0.048 0.812 0.000 0.076 0.028 0.036
#> SRR1026995 2 0.6324 0.04307 0.400 0.476 0.060 0.016 0.028 0.020
#> SRR1026996 4 0.4766 0.44066 0.060 0.000 0.000 0.616 0.320 0.004
#> SRR1026997 4 0.4668 0.48689 0.056 0.000 0.000 0.652 0.284 0.008
#> SRR1026998 3 0.0146 0.93606 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026999 3 0.0146 0.93606 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1027000 2 0.3658 0.50989 0.188 0.776 0.000 0.000 0.020 0.016
#> SRR1027001 3 0.0767 0.92798 0.004 0.000 0.976 0.000 0.012 0.008
#> SRR1027002 2 0.4664 0.46138 0.284 0.660 0.000 0.040 0.012 0.004
#> SRR1027003 2 0.5842 0.51909 0.108 0.668 0.004 0.148 0.020 0.052
#> SRR1027004 1 0.2992 0.67229 0.872 0.024 0.016 0.020 0.068 0.000
#> SRR1027005 3 0.0146 0.93546 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1027006 1 0.3432 0.62143 0.840 0.000 0.028 0.092 0.032 0.008
#> SRR1027007 1 0.2740 0.61688 0.852 0.000 0.000 0.120 0.028 0.000
#> SRR1027008 1 0.4147 0.62319 0.744 0.196 0.000 0.000 0.044 0.016
#> SRR1027009 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1027010 1 0.5720 0.24186 0.452 0.072 0.008 0.000 0.448 0.020
#> SRR1027011 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177668 1 0.5748 0.55294 0.636 0.052 0.044 0.000 0.236 0.032
#> SRR1177667 1 0.3694 0.67036 0.808 0.048 0.000 0.000 0.120 0.024
#> SRR1177669 5 0.7168 0.30968 0.208 0.068 0.220 0.000 0.480 0.024
#> SRR1177670 3 0.0146 0.93558 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177671 6 0.3850 0.56792 0.004 0.340 0.000 0.004 0.000 0.652
#> SRR1177672 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177673 1 0.5888 0.43356 0.516 0.148 0.000 0.000 0.320 0.016
#> SRR1177674 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177675 1 0.1390 0.68941 0.948 0.016 0.000 0.000 0.032 0.004
#> SRR1177676 3 0.0748 0.92627 0.004 0.000 0.976 0.000 0.004 0.016
#> SRR1177677 1 0.4973 0.41145 0.572 0.368 0.000 0.000 0.044 0.016
#> SRR1177678 1 0.3956 0.65924 0.788 0.092 0.000 0.000 0.104 0.016
#> SRR1177679 2 0.1321 0.57975 0.004 0.952 0.000 0.020 0.024 0.000
#> SRR1177680 2 0.1592 0.58301 0.020 0.940 0.000 0.008 0.032 0.000
#> SRR1177681 2 0.5642 -0.15033 0.420 0.472 0.000 0.000 0.088 0.020
#> SRR1177682 2 0.3647 0.52190 0.104 0.812 0.000 0.000 0.068 0.016
#> SRR1177683 2 0.2446 0.56111 0.000 0.864 0.000 0.124 0.012 0.000
#> SRR1177684 2 0.2389 0.56132 0.000 0.864 0.000 0.128 0.008 0.000
#> SRR1177685 1 0.3364 0.68508 0.828 0.068 0.000 0.000 0.096 0.008
#> SRR1177686 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177687 2 0.2088 0.57056 0.028 0.904 0.000 0.000 0.068 0.000
#> SRR1177688 2 0.4967 0.35329 0.276 0.640 0.000 0.000 0.068 0.016
#> SRR1177689 2 0.4015 0.46648 0.244 0.720 0.000 0.000 0.028 0.008
#> SRR1177690 1 0.5210 0.46007 0.576 0.340 0.000 0.000 0.068 0.016
#> SRR1177691 2 0.1225 0.58524 0.012 0.952 0.000 0.036 0.000 0.000
#> SRR1177692 2 0.1713 0.57375 0.028 0.928 0.000 0.000 0.044 0.000
#> SRR1177693 4 0.4215 0.55357 0.000 0.024 0.000 0.688 0.012 0.276
#> SRR1177694 4 0.1605 0.69890 0.000 0.032 0.000 0.940 0.016 0.012
#> SRR1177695 2 0.4462 0.43941 0.248 0.692 0.000 0.000 0.048 0.012
#> SRR1177697 1 0.3317 0.64548 0.808 0.032 0.000 0.000 0.004 0.156
#> SRR1177696 3 0.1590 0.89177 0.028 0.008 0.944 0.000 0.008 0.012
#> SRR1177698 3 0.0146 0.93558 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177700 1 0.5627 0.59614 0.628 0.152 0.016 0.004 0.196 0.004
#> SRR1177701 1 0.3776 0.56641 0.760 0.000 0.000 0.052 0.188 0.000
#> SRR1177702 6 0.1476 0.84811 0.008 0.012 0.028 0.000 0.004 0.948
#> SRR1177703 1 0.4188 0.58327 0.712 0.000 0.000 0.048 0.236 0.004
#> SRR1177704 6 0.1285 0.82997 0.000 0.004 0.052 0.000 0.000 0.944
#> SRR1177705 1 0.4070 0.65551 0.764 0.048 0.000 0.000 0.168 0.020
#> SRR1177706 2 0.2547 0.58767 0.040 0.896 0.000 0.044 0.008 0.012
#> SRR1177707 1 0.5024 0.41237 0.640 0.000 0.000 0.116 0.240 0.004
#> SRR1177708 5 0.4415 0.51002 0.124 0.144 0.000 0.000 0.728 0.004
#> SRR1177709 1 0.4681 0.60648 0.708 0.200 0.000 0.000 0.068 0.024
#> SRR1177710 3 0.3370 0.77855 0.056 0.036 0.856 0.000 0.028 0.024
#> SRR1177711 1 0.0858 0.68642 0.968 0.004 0.000 0.000 0.028 0.000
#> SRR1177712 6 0.1689 0.85012 0.008 0.016 0.008 0.016 0.008 0.944
#> SRR1177714 6 0.3929 0.64950 0.000 0.272 0.000 0.028 0.000 0.700
#> SRR1177713 6 0.1630 0.84830 0.020 0.024 0.016 0.000 0.000 0.940
#> SRR1177715 2 0.1850 0.58453 0.052 0.924 0.000 0.016 0.008 0.000
#> SRR1177716 3 0.1007 0.90850 0.000 0.000 0.956 0.000 0.000 0.044
#> SRR1177717 1 0.2088 0.68806 0.904 0.068 0.000 0.000 0.028 0.000
#> SRR1177718 1 0.1714 0.68519 0.936 0.024 0.000 0.000 0.016 0.024
#> SRR1177719 1 0.3490 0.62363 0.784 0.000 0.000 0.040 0.176 0.000
#> SRR1177720 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177721 2 0.3014 0.53727 0.000 0.804 0.000 0.184 0.012 0.000
#> SRR1177722 2 0.4429 0.30774 0.000 0.600 0.000 0.372 0.016 0.012
#> SRR1177723 1 0.1769 0.68423 0.924 0.060 0.000 0.000 0.012 0.004
#> SRR1177725 1 0.3792 0.65732 0.764 0.044 0.000 0.000 0.188 0.004
#> SRR1177724 1 0.2056 0.67927 0.904 0.080 0.000 0.000 0.012 0.004
#> SRR1177726 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177727 1 0.3678 0.64370 0.748 0.016 0.000 0.000 0.228 0.008
#> SRR1177728 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177729 1 0.2442 0.68965 0.884 0.068 0.000 0.000 0.048 0.000
#> SRR1177730 3 0.0146 0.93549 0.004 0.000 0.996 0.000 0.000 0.000
#> SRR1177731 1 0.4869 0.62339 0.708 0.128 0.000 0.000 0.140 0.024
#> SRR1177732 1 0.5353 0.50124 0.588 0.068 0.000 0.000 0.316 0.028
#> SRR1177733 1 0.4975 0.32369 0.500 0.048 0.000 0.000 0.444 0.008
#> SRR1177734 1 0.5348 0.37561 0.508 0.096 0.000 0.000 0.392 0.004
#> SRR1177735 2 0.5990 0.06111 0.212 0.460 0.000 0.004 0.324 0.000
#> SRR1177736 5 0.5088 0.34551 0.220 0.124 0.000 0.000 0.648 0.008
#> SRR1177737 4 0.3910 0.66189 0.088 0.032 0.000 0.812 0.060 0.008
#> SRR1177738 3 0.1148 0.91213 0.000 0.000 0.960 0.020 0.004 0.016
#> SRR1177739 5 0.4039 0.50098 0.156 0.092 0.000 0.000 0.752 0.000
#> SRR1177740 2 0.5854 0.11918 0.172 0.508 0.000 0.000 0.312 0.008
#> SRR1177741 1 0.4116 0.65035 0.764 0.048 0.000 0.000 0.164 0.024
#> SRR1177742 3 0.0000 0.93639 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177743 1 0.5273 0.56002 0.624 0.084 0.000 0.000 0.268 0.024
#> SRR1177744 1 0.5763 0.50996 0.624 0.020 0.208 0.000 0.132 0.016
#> SRR1177745 2 0.4201 0.54209 0.008 0.796 0.000 0.076 0.052 0.068
#> SRR1177746 2 0.1743 0.58403 0.028 0.936 0.000 0.008 0.024 0.004
#> SRR1177747 5 0.4763 0.31339 0.284 0.008 0.016 0.012 0.664 0.016
#> SRR1177748 3 0.0146 0.93546 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177749 1 0.3239 0.68010 0.840 0.044 0.000 0.000 0.100 0.016
#> SRR1177750 1 0.4981 0.47789 0.600 0.332 0.000 0.000 0.052 0.016
#> SRR1177751 2 0.4570 0.38788 0.280 0.664 0.000 0.000 0.044 0.012
#> SRR1177752 1 0.3050 0.68654 0.852 0.044 0.000 0.000 0.092 0.012
#> SRR1177753 1 0.4926 0.58177 0.668 0.232 0.000 0.000 0.084 0.016
#> SRR1177754 1 0.6829 0.47660 0.548 0.160 0.060 0.000 0.200 0.032
#> SRR1177755 1 0.2271 0.66642 0.908 0.024 0.000 0.036 0.032 0.000
#> SRR1177756 1 0.3223 0.64720 0.824 0.144 0.000 0.008 0.020 0.004
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["MAD", "hclust"]
# you can also extract it by
# res = res_list["MAD:hclust"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'MAD' method.
#> Subgroups are detected by 'hclust' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 2.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.465 0.845 0.907 0.3993 0.614 0.614
#> 3 3 0.329 0.800 0.851 0.3762 0.806 0.684
#> 4 4 0.512 0.809 0.880 0.0946 0.988 0.973
#> 5 5 0.532 0.727 0.803 0.0896 1.000 1.000
#> 6 6 0.527 0.672 0.775 0.0700 0.807 0.554
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 2
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.908 0.000 1.000
#> SRR1026871 2 0.0000 0.908 0.000 1.000
#> SRR1026872 2 0.0000 0.908 0.000 1.000
#> SRR1026873 1 0.0000 0.892 1.000 0.000
#> SRR1026874 1 0.0000 0.892 1.000 0.000
#> SRR1026875 2 0.0000 0.908 0.000 1.000
#> SRR1026876 2 0.0000 0.908 0.000 1.000
#> SRR1026877 1 0.0938 0.894 0.988 0.012
#> SRR1026878 1 0.0938 0.894 0.988 0.012
#> SRR1026879 1 0.0000 0.892 1.000 0.000
#> SRR1026880 1 0.0000 0.892 1.000 0.000
#> SRR1026881 2 0.3431 0.891 0.064 0.936
#> SRR1026882 2 0.3431 0.891 0.064 0.936
#> SRR1026883 1 0.8955 0.686 0.688 0.312
#> SRR1026884 1 0.8955 0.686 0.688 0.312
#> SRR1026885 1 0.8016 0.780 0.756 0.244
#> SRR1026886 1 0.8016 0.780 0.756 0.244
#> SRR1026887 1 0.1184 0.893 0.984 0.016
#> SRR1026888 1 0.1184 0.893 0.984 0.016
#> SRR1026889 2 0.3114 0.895 0.056 0.944
#> SRR1026890 1 0.9881 0.392 0.564 0.436
#> SRR1026891 1 0.5519 0.872 0.872 0.128
#> SRR1026892 1 0.5519 0.872 0.872 0.128
#> SRR1026893 1 0.1184 0.893 0.984 0.016
#> SRR1026894 1 0.1184 0.893 0.984 0.016
#> SRR1026895 1 0.9866 0.403 0.568 0.432
#> SRR1026896 1 0.9866 0.403 0.568 0.432
#> SRR1026897 1 0.0000 0.892 1.000 0.000
#> SRR1026898 1 0.4298 0.888 0.912 0.088
#> SRR1026899 1 0.0000 0.892 1.000 0.000
#> SRR1026900 2 0.5519 0.834 0.128 0.872
#> SRR1026901 2 0.5519 0.834 0.128 0.872
#> SRR1026902 1 0.8016 0.780 0.756 0.244
#> SRR1026903 1 0.8016 0.780 0.756 0.244
#> SRR1026904 1 0.8081 0.775 0.752 0.248
#> SRR1026905 1 0.8081 0.775 0.752 0.248
#> SRR1026906 2 0.0000 0.908 0.000 1.000
#> SRR1026907 2 0.0000 0.908 0.000 1.000
#> SRR1026908 2 0.0000 0.908 0.000 1.000
#> SRR1026909 2 0.0000 0.908 0.000 1.000
#> SRR1026910 1 0.8813 0.705 0.700 0.300
#> SRR1026911 1 0.8813 0.705 0.700 0.300
#> SRR1026912 1 0.1414 0.893 0.980 0.020
#> SRR1026913 1 0.1414 0.893 0.980 0.020
#> SRR1026914 2 0.0376 0.907 0.004 0.996
#> SRR1026915 2 0.0376 0.907 0.004 0.996
#> SRR1026916 2 0.0376 0.907 0.004 0.996
#> SRR1026917 2 0.0376 0.907 0.004 0.996
#> SRR1026918 2 0.3584 0.888 0.068 0.932
#> SRR1026919 2 0.3584 0.888 0.068 0.932
#> SRR1026920 2 0.3584 0.888 0.068 0.932
#> SRR1026921 2 0.3584 0.888 0.068 0.932
#> SRR1026922 2 0.5408 0.838 0.124 0.876
#> SRR1026923 2 0.5408 0.838 0.124 0.876
#> SRR1026924 1 0.9209 0.648 0.664 0.336
#> SRR1026925 1 0.1184 0.893 0.984 0.016
#> SRR1026926 1 0.8813 0.705 0.700 0.300
#> SRR1026927 1 0.6973 0.834 0.812 0.188
#> SRR1026928 2 0.3431 0.891 0.064 0.936
#> SRR1026929 1 0.0938 0.894 0.988 0.012
#> SRR1026930 2 0.4690 0.860 0.100 0.900
#> SRR1026931 2 0.4690 0.860 0.100 0.900
#> SRR1026932 2 0.0000 0.908 0.000 1.000
#> SRR1026933 2 0.0000 0.908 0.000 1.000
#> SRR1026934 2 0.0000 0.908 0.000 1.000
#> SRR1026935 2 0.0000 0.908 0.000 1.000
#> SRR1026936 1 0.8813 0.705 0.700 0.300
#> SRR1026937 1 0.8813 0.705 0.700 0.300
#> SRR1026938 2 0.3114 0.895 0.056 0.944
#> SRR1026939 2 0.3114 0.895 0.056 0.944
#> SRR1026940 1 0.5178 0.877 0.884 0.116
#> SRR1026941 1 0.0376 0.893 0.996 0.004
#> SRR1026942 1 0.3431 0.893 0.936 0.064
#> SRR1026943 1 0.3431 0.893 0.936 0.064
#> SRR1026944 1 0.2236 0.895 0.964 0.036
#> SRR1026945 1 0.0000 0.892 1.000 0.000
#> SRR1026947 2 0.0000 0.908 0.000 1.000
#> SRR1026946 2 0.0000 0.908 0.000 1.000
#> SRR1026948 2 0.0000 0.908 0.000 1.000
#> SRR1026949 1 0.5737 0.868 0.864 0.136
#> SRR1026950 1 0.3274 0.893 0.940 0.060
#> SRR1026951 2 0.9710 0.319 0.400 0.600
#> SRR1026952 1 0.3274 0.893 0.940 0.060
#> SRR1026953 1 0.0000 0.892 1.000 0.000
#> SRR1026954 1 0.7883 0.792 0.764 0.236
#> SRR1026955 2 0.0000 0.908 0.000 1.000
#> SRR1026956 1 0.5519 0.872 0.872 0.128
#> SRR1026957 2 0.3114 0.895 0.056 0.944
#> SRR1026958 1 0.4815 0.882 0.896 0.104
#> SRR1026959 2 0.0000 0.908 0.000 1.000
#> SRR1026960 1 0.6887 0.835 0.816 0.184
#> SRR1026961 1 0.7815 0.793 0.768 0.232
#> SRR1026962 1 0.0376 0.893 0.996 0.004
#> SRR1026963 1 0.0000 0.892 1.000 0.000
#> SRR1026964 1 0.8813 0.705 0.700 0.300
#> SRR1026965 1 0.8813 0.705 0.700 0.300
#> SRR1026966 1 0.0938 0.894 0.988 0.012
#> SRR1026967 1 0.0938 0.894 0.988 0.012
#> SRR1026968 1 0.7950 0.786 0.760 0.240
#> SRR1026969 1 0.7950 0.786 0.760 0.240
#> SRR1026970 1 0.8081 0.776 0.752 0.248
#> SRR1026971 1 0.8081 0.776 0.752 0.248
#> SRR1026972 1 0.8207 0.767 0.744 0.256
#> SRR1026973 1 0.8207 0.767 0.744 0.256
#> SRR1026974 1 0.5842 0.865 0.860 0.140
#> SRR1026975 1 0.5842 0.865 0.860 0.140
#> SRR1026976 1 0.7376 0.817 0.792 0.208
#> SRR1026977 1 0.7376 0.817 0.792 0.208
#> SRR1026978 1 0.5629 0.873 0.868 0.132
#> SRR1026979 1 0.0000 0.892 1.000 0.000
#> SRR1026980 2 0.9732 0.281 0.404 0.596
#> SRR1026981 1 0.7139 0.745 0.804 0.196
#> SRR1026982 1 0.7815 0.793 0.768 0.232
#> SRR1026983 1 0.7815 0.793 0.768 0.232
#> SRR1026984 1 0.7815 0.793 0.768 0.232
#> SRR1026985 1 0.7815 0.793 0.768 0.232
#> SRR1026986 1 0.6801 0.842 0.820 0.180
#> SRR1026987 1 0.5629 0.873 0.868 0.132
#> SRR1026988 1 0.0000 0.892 1.000 0.000
#> SRR1026989 1 0.0000 0.892 1.000 0.000
#> SRR1026990 1 0.5519 0.872 0.872 0.128
#> SRR1026991 1 0.0000 0.892 1.000 0.000
#> SRR1026992 1 0.4161 0.890 0.916 0.084
#> SRR1026993 1 0.1633 0.895 0.976 0.024
#> SRR1026994 1 0.8016 0.782 0.756 0.244
#> SRR1026995 1 0.8016 0.782 0.756 0.244
#> SRR1026996 1 0.8813 0.705 0.700 0.300
#> SRR1026997 1 0.8813 0.705 0.700 0.300
#> SRR1026998 1 0.0938 0.894 0.988 0.012
#> SRR1026999 1 0.0938 0.894 0.988 0.012
#> SRR1027000 1 0.4562 0.886 0.904 0.096
#> SRR1027001 1 0.0000 0.892 1.000 0.000
#> SRR1027002 1 0.7674 0.805 0.776 0.224
#> SRR1027003 2 0.8909 0.566 0.308 0.692
#> SRR1027004 1 0.4298 0.886 0.912 0.088
#> SRR1027005 1 0.0938 0.894 0.988 0.012
#> SRR1027006 1 0.0000 0.892 1.000 0.000
#> SRR1027007 1 0.6148 0.862 0.848 0.152
#> SRR1027008 1 0.4939 0.882 0.892 0.108
#> SRR1027009 1 0.0000 0.892 1.000 0.000
#> SRR1027010 1 0.0672 0.894 0.992 0.008
#> SRR1027011 1 0.0000 0.892 1.000 0.000
#> SRR1177668 1 0.0000 0.892 1.000 0.000
#> SRR1177667 1 0.1184 0.895 0.984 0.016
#> SRR1177669 1 0.0672 0.894 0.992 0.008
#> SRR1177670 1 0.0000 0.892 1.000 0.000
#> SRR1177671 2 0.0000 0.908 0.000 1.000
#> SRR1177672 1 0.0000 0.892 1.000 0.000
#> SRR1177673 1 0.0000 0.892 1.000 0.000
#> SRR1177674 1 0.0000 0.892 1.000 0.000
#> SRR1177675 1 0.0376 0.893 0.996 0.004
#> SRR1177676 1 0.0000 0.892 1.000 0.000
#> SRR1177677 1 0.3274 0.894 0.940 0.060
#> SRR1177678 1 0.0000 0.892 1.000 0.000
#> SRR1177679 2 0.0000 0.908 0.000 1.000
#> SRR1177680 2 0.9286 0.450 0.344 0.656
#> SRR1177681 1 0.4298 0.888 0.912 0.088
#> SRR1177682 1 0.4298 0.888 0.912 0.088
#> SRR1177683 2 0.0000 0.908 0.000 1.000
#> SRR1177684 2 0.0000 0.908 0.000 1.000
#> SRR1177685 1 0.0672 0.894 0.992 0.008
#> SRR1177686 1 0.0938 0.894 0.988 0.012
#> SRR1177687 2 0.9286 0.450 0.344 0.656
#> SRR1177688 1 0.5294 0.877 0.880 0.120
#> SRR1177689 1 0.5059 0.881 0.888 0.112
#> SRR1177690 1 0.2236 0.895 0.964 0.036
#> SRR1177691 2 0.0000 0.908 0.000 1.000
#> SRR1177692 2 0.9286 0.450 0.344 0.656
#> SRR1177693 2 0.0000 0.908 0.000 1.000
#> SRR1177694 2 0.0000 0.908 0.000 1.000
#> SRR1177695 1 0.4815 0.884 0.896 0.104
#> SRR1177697 1 0.3274 0.894 0.940 0.060
#> SRR1177696 1 0.5294 0.877 0.880 0.120
#> SRR1177698 1 0.0000 0.892 1.000 0.000
#> SRR1177700 1 0.5842 0.866 0.860 0.140
#> SRR1177701 1 0.5294 0.877 0.880 0.120
#> SRR1177702 1 0.0000 0.892 1.000 0.000
#> SRR1177703 1 0.5519 0.872 0.872 0.128
#> SRR1177704 1 0.7528 0.806 0.784 0.216
#> SRR1177705 1 0.5408 0.877 0.876 0.124
#> SRR1177706 2 0.6801 0.769 0.180 0.820
#> SRR1177707 1 0.5737 0.867 0.864 0.136
#> SRR1177708 1 0.5629 0.870 0.868 0.132
#> SRR1177709 1 0.0672 0.894 0.992 0.008
#> SRR1177710 1 0.0672 0.894 0.992 0.008
#> SRR1177711 1 0.0376 0.893 0.996 0.004
#> SRR1177712 1 0.7299 0.816 0.796 0.204
#> SRR1177714 2 0.0000 0.908 0.000 1.000
#> SRR1177713 1 0.0000 0.892 1.000 0.000
#> SRR1177715 2 0.3584 0.884 0.068 0.932
#> SRR1177716 1 0.0376 0.893 0.996 0.004
#> SRR1177717 1 0.0938 0.894 0.988 0.012
#> SRR1177718 1 0.0376 0.893 0.996 0.004
#> SRR1177719 1 0.4690 0.884 0.900 0.100
#> SRR1177720 1 0.0938 0.894 0.988 0.012
#> SRR1177721 2 0.0000 0.908 0.000 1.000
#> SRR1177722 2 0.0000 0.908 0.000 1.000
#> SRR1177723 1 0.1633 0.895 0.976 0.024
#> SRR1177725 1 0.0938 0.894 0.988 0.012
#> SRR1177724 1 0.1633 0.895 0.976 0.024
#> SRR1177726 1 0.0000 0.892 1.000 0.000
#> SRR1177727 1 0.0000 0.892 1.000 0.000
#> SRR1177728 1 0.0000 0.892 1.000 0.000
#> SRR1177729 1 0.1633 0.895 0.976 0.024
#> SRR1177730 1 0.0000 0.892 1.000 0.000
#> SRR1177731 1 0.0672 0.894 0.992 0.008
#> SRR1177732 1 0.0000 0.892 1.000 0.000
#> SRR1177733 1 0.5294 0.876 0.880 0.120
#> SRR1177734 1 0.5294 0.876 0.880 0.120
#> SRR1177735 1 0.5178 0.877 0.884 0.116
#> SRR1177736 1 0.5178 0.877 0.884 0.116
#> SRR1177737 2 0.4298 0.874 0.088 0.912
#> SRR1177738 1 0.2778 0.890 0.952 0.048
#> SRR1177739 1 0.5294 0.876 0.880 0.120
#> SRR1177740 1 0.5294 0.876 0.880 0.120
#> SRR1177741 1 0.0000 0.892 1.000 0.000
#> SRR1177742 1 0.0000 0.892 1.000 0.000
#> SRR1177743 1 0.0000 0.892 1.000 0.000
#> SRR1177744 1 0.0000 0.892 1.000 0.000
#> SRR1177745 2 0.9286 0.450 0.344 0.656
#> SRR1177746 2 0.9286 0.450 0.344 0.656
#> SRR1177747 1 0.0672 0.894 0.992 0.008
#> SRR1177748 1 0.0000 0.892 1.000 0.000
#> SRR1177749 1 0.0376 0.893 0.996 0.004
#> SRR1177750 1 0.2236 0.895 0.964 0.036
#> SRR1177751 1 0.2236 0.895 0.964 0.036
#> SRR1177752 1 0.2236 0.895 0.964 0.036
#> SRR1177753 1 0.0672 0.894 0.992 0.008
#> SRR1177754 1 0.0672 0.894 0.992 0.008
#> SRR1177755 1 0.1184 0.895 0.984 0.016
#> SRR1177756 1 0.3274 0.893 0.940 0.060
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026873 1 0.1753 0.7754 0.952 0.000 0.048
#> SRR1026874 3 0.5948 0.5594 0.360 0.000 0.640
#> SRR1026875 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026877 3 0.4605 0.9147 0.204 0.000 0.796
#> SRR1026878 3 0.4605 0.9147 0.204 0.000 0.796
#> SRR1026879 1 0.2448 0.7504 0.924 0.000 0.076
#> SRR1026880 1 0.2959 0.7287 0.900 0.000 0.100
#> SRR1026881 2 0.2261 0.8802 0.068 0.932 0.000
#> SRR1026882 2 0.2261 0.8802 0.068 0.932 0.000
#> SRR1026883 1 0.5621 0.7148 0.692 0.308 0.000
#> SRR1026884 1 0.5621 0.7148 0.692 0.308 0.000
#> SRR1026885 1 0.5016 0.7880 0.760 0.240 0.000
#> SRR1026886 1 0.5016 0.7880 0.760 0.240 0.000
#> SRR1026887 3 0.4883 0.9147 0.208 0.004 0.788
#> SRR1026888 3 0.4883 0.9147 0.208 0.004 0.788
#> SRR1026889 2 0.2066 0.8840 0.060 0.940 0.000
#> SRR1026890 1 0.6754 0.4287 0.556 0.432 0.012
#> SRR1026891 1 0.3412 0.8401 0.876 0.124 0.000
#> SRR1026892 1 0.3412 0.8401 0.876 0.124 0.000
#> SRR1026893 3 0.4883 0.9147 0.208 0.004 0.788
#> SRR1026894 3 0.4883 0.9147 0.208 0.004 0.788
#> SRR1026895 1 0.7112 0.4319 0.552 0.424 0.024
#> SRR1026896 1 0.7112 0.4319 0.552 0.424 0.024
#> SRR1026897 3 0.5948 0.5594 0.360 0.000 0.640
#> SRR1026898 1 0.2625 0.8374 0.916 0.084 0.000
#> SRR1026899 1 0.2356 0.7563 0.928 0.000 0.072
#> SRR1026900 2 0.3551 0.8220 0.132 0.868 0.000
#> SRR1026901 2 0.3551 0.8220 0.132 0.868 0.000
#> SRR1026902 1 0.5016 0.7880 0.760 0.240 0.000
#> SRR1026903 1 0.5016 0.7880 0.760 0.240 0.000
#> SRR1026904 1 0.5058 0.7851 0.756 0.244 0.000
#> SRR1026905 1 0.5058 0.7851 0.756 0.244 0.000
#> SRR1026906 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026910 1 0.5529 0.7316 0.704 0.296 0.000
#> SRR1026911 1 0.5529 0.7316 0.704 0.296 0.000
#> SRR1026912 3 0.5061 0.9132 0.208 0.008 0.784
#> SRR1026913 3 0.5061 0.9132 0.208 0.008 0.784
#> SRR1026914 2 0.0475 0.8962 0.004 0.992 0.004
#> SRR1026915 2 0.0475 0.8962 0.004 0.992 0.004
#> SRR1026916 2 0.0475 0.8962 0.004 0.992 0.004
#> SRR1026917 2 0.0475 0.8962 0.004 0.992 0.004
#> SRR1026918 2 0.2356 0.8776 0.072 0.928 0.000
#> SRR1026919 2 0.2356 0.8776 0.072 0.928 0.000
#> SRR1026920 2 0.2356 0.8776 0.072 0.928 0.000
#> SRR1026921 2 0.2356 0.8776 0.072 0.928 0.000
#> SRR1026922 2 0.3482 0.8264 0.128 0.872 0.000
#> SRR1026923 2 0.3482 0.8264 0.128 0.872 0.000
#> SRR1026924 1 0.6307 0.6790 0.660 0.328 0.012
#> SRR1026925 3 0.4883 0.9147 0.208 0.004 0.788
#> SRR1026926 1 0.5529 0.7316 0.704 0.296 0.000
#> SRR1026927 1 0.4346 0.8211 0.816 0.184 0.000
#> SRR1026928 2 0.2261 0.8802 0.068 0.932 0.000
#> SRR1026929 3 0.4605 0.9147 0.204 0.000 0.796
#> SRR1026930 2 0.3038 0.8500 0.104 0.896 0.000
#> SRR1026931 2 0.3038 0.8500 0.104 0.896 0.000
#> SRR1026932 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026936 1 0.5529 0.7316 0.704 0.296 0.000
#> SRR1026937 1 0.5529 0.7316 0.704 0.296 0.000
#> SRR1026938 2 0.2066 0.8840 0.060 0.940 0.000
#> SRR1026939 2 0.2066 0.8840 0.060 0.940 0.000
#> SRR1026940 1 0.3192 0.8411 0.888 0.112 0.000
#> SRR1026941 3 0.4887 0.9141 0.228 0.000 0.772
#> SRR1026942 1 0.2301 0.8300 0.936 0.060 0.004
#> SRR1026943 1 0.2301 0.8300 0.936 0.060 0.004
#> SRR1026944 1 0.1711 0.8187 0.960 0.032 0.008
#> SRR1026945 3 0.5178 0.8985 0.256 0.000 0.744
#> SRR1026947 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026949 1 0.3551 0.8392 0.868 0.132 0.000
#> SRR1026950 1 0.2384 0.8313 0.936 0.056 0.008
#> SRR1026951 2 0.8212 0.4645 0.296 0.600 0.104
#> SRR1026952 1 0.2384 0.8313 0.936 0.056 0.008
#> SRR1026953 3 0.5016 0.9109 0.240 0.000 0.760
#> SRR1026954 1 0.5450 0.7945 0.760 0.228 0.012
#> SRR1026955 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026956 1 0.3412 0.8401 0.876 0.124 0.000
#> SRR1026957 2 0.2066 0.8840 0.060 0.940 0.000
#> SRR1026958 1 0.2959 0.8405 0.900 0.100 0.000
#> SRR1026959 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1026960 1 0.4291 0.8225 0.820 0.180 0.000
#> SRR1026961 1 0.5070 0.7975 0.772 0.224 0.004
#> SRR1026962 1 0.0592 0.7954 0.988 0.000 0.012
#> SRR1026963 1 0.0892 0.7907 0.980 0.000 0.020
#> SRR1026964 1 0.5529 0.7316 0.704 0.296 0.000
#> SRR1026965 1 0.5529 0.7316 0.704 0.296 0.000
#> SRR1026966 3 0.4605 0.9147 0.204 0.000 0.796
#> SRR1026967 3 0.4605 0.9147 0.204 0.000 0.796
#> SRR1026968 1 0.5158 0.7936 0.764 0.232 0.004
#> SRR1026969 1 0.5158 0.7936 0.764 0.232 0.004
#> SRR1026970 1 0.5058 0.7866 0.756 0.244 0.000
#> SRR1026971 1 0.5058 0.7866 0.756 0.244 0.000
#> SRR1026972 1 0.5365 0.7795 0.744 0.252 0.004
#> SRR1026973 1 0.5365 0.7795 0.744 0.252 0.004
#> SRR1026974 1 0.3619 0.8371 0.864 0.136 0.000
#> SRR1026975 1 0.3619 0.8371 0.864 0.136 0.000
#> SRR1026976 1 0.5122 0.8094 0.788 0.200 0.012
#> SRR1026977 1 0.5122 0.8094 0.788 0.200 0.012
#> SRR1026978 1 0.3715 0.8369 0.868 0.128 0.004
#> SRR1026979 3 0.4931 0.9135 0.232 0.000 0.768
#> SRR1026980 2 0.8371 0.4360 0.292 0.592 0.116
#> SRR1026981 3 0.9021 0.6127 0.264 0.184 0.552
#> SRR1026982 1 0.5070 0.7975 0.772 0.224 0.004
#> SRR1026983 1 0.5070 0.7975 0.772 0.224 0.004
#> SRR1026984 1 0.5070 0.7975 0.772 0.224 0.004
#> SRR1026985 1 0.5070 0.7975 0.772 0.224 0.004
#> SRR1026986 1 0.4235 0.8252 0.824 0.176 0.000
#> SRR1026987 1 0.3482 0.8390 0.872 0.128 0.000
#> SRR1026988 1 0.4121 0.6443 0.832 0.000 0.168
#> SRR1026989 1 0.4654 0.5605 0.792 0.000 0.208
#> SRR1026990 1 0.3412 0.8401 0.876 0.124 0.000
#> SRR1026991 3 0.4887 0.9142 0.228 0.000 0.772
#> SRR1026992 1 0.2772 0.8390 0.916 0.080 0.004
#> SRR1026993 1 0.1315 0.8113 0.972 0.020 0.008
#> SRR1026994 1 0.5244 0.7890 0.756 0.240 0.004
#> SRR1026995 1 0.5244 0.7890 0.756 0.240 0.004
#> SRR1026996 1 0.5529 0.7316 0.704 0.296 0.000
#> SRR1026997 1 0.5529 0.7316 0.704 0.296 0.000
#> SRR1026998 3 0.4605 0.9147 0.204 0.000 0.796
#> SRR1026999 3 0.4605 0.9147 0.204 0.000 0.796
#> SRR1027000 1 0.2796 0.8389 0.908 0.092 0.000
#> SRR1027001 1 0.4062 0.6517 0.836 0.000 0.164
#> SRR1027002 1 0.4796 0.8046 0.780 0.220 0.000
#> SRR1027003 2 0.5650 0.5330 0.312 0.688 0.000
#> SRR1027004 1 0.3293 0.8395 0.900 0.088 0.012
#> SRR1027005 3 0.4605 0.9147 0.204 0.000 0.796
#> SRR1027006 1 0.4121 0.6443 0.832 0.000 0.168
#> SRR1027007 1 0.4047 0.8345 0.848 0.148 0.004
#> SRR1027008 1 0.3038 0.8402 0.896 0.104 0.000
#> SRR1027009 3 0.5016 0.9109 0.240 0.000 0.760
#> SRR1027010 1 0.2955 0.7510 0.912 0.008 0.080
#> SRR1027011 3 0.5016 0.9109 0.240 0.000 0.760
#> SRR1177668 1 0.2448 0.7552 0.924 0.000 0.076
#> SRR1177667 1 0.1015 0.8068 0.980 0.012 0.008
#> SRR1177669 1 0.4164 0.6812 0.848 0.008 0.144
#> SRR1177670 3 0.5988 0.7579 0.368 0.000 0.632
#> SRR1177671 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1177672 3 0.6111 0.7155 0.396 0.000 0.604
#> SRR1177673 1 0.2356 0.7524 0.928 0.000 0.072
#> SRR1177674 3 0.5926 0.7747 0.356 0.000 0.644
#> SRR1177675 1 0.0424 0.7968 0.992 0.000 0.008
#> SRR1177676 1 0.3038 0.7262 0.896 0.000 0.104
#> SRR1177677 1 0.2384 0.8309 0.936 0.056 0.008
#> SRR1177678 1 0.1411 0.7809 0.964 0.000 0.036
#> SRR1177679 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1177680 2 0.7778 0.5708 0.240 0.656 0.104
#> SRR1177681 1 0.2625 0.8374 0.916 0.084 0.000
#> SRR1177682 1 0.2625 0.8374 0.916 0.084 0.000
#> SRR1177683 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1177685 1 0.0829 0.7995 0.984 0.004 0.012
#> SRR1177686 3 0.4605 0.9147 0.204 0.000 0.796
#> SRR1177687 2 0.7778 0.5708 0.240 0.656 0.104
#> SRR1177688 1 0.3573 0.8431 0.876 0.120 0.004
#> SRR1177689 1 0.3116 0.8404 0.892 0.108 0.000
#> SRR1177690 1 0.1525 0.8182 0.964 0.032 0.004
#> SRR1177691 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1177692 2 0.7778 0.5708 0.240 0.656 0.104
#> SRR1177693 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1177695 1 0.2959 0.8395 0.900 0.100 0.000
#> SRR1177697 1 0.2200 0.8306 0.940 0.056 0.004
#> SRR1177696 1 0.3573 0.8431 0.876 0.120 0.004
#> SRR1177698 3 0.5016 0.9109 0.240 0.000 0.760
#> SRR1177700 1 0.3619 0.8388 0.864 0.136 0.000
#> SRR1177701 1 0.3267 0.8422 0.884 0.116 0.000
#> SRR1177702 3 0.6062 0.5313 0.384 0.000 0.616
#> SRR1177703 1 0.3412 0.8401 0.876 0.124 0.000
#> SRR1177704 1 0.9663 0.0244 0.416 0.212 0.372
#> SRR1177705 1 0.3340 0.8422 0.880 0.120 0.000
#> SRR1177706 2 0.4291 0.7506 0.180 0.820 0.000
#> SRR1177707 1 0.3551 0.8382 0.868 0.132 0.000
#> SRR1177708 1 0.3715 0.8403 0.868 0.128 0.004
#> SRR1177709 1 0.3532 0.7374 0.884 0.008 0.108
#> SRR1177710 1 0.3532 0.7374 0.884 0.008 0.108
#> SRR1177711 1 0.0424 0.7968 0.992 0.000 0.008
#> SRR1177712 1 0.9573 0.0738 0.436 0.200 0.364
#> SRR1177714 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1177713 3 0.5948 0.5594 0.360 0.000 0.640
#> SRR1177715 2 0.2261 0.8717 0.068 0.932 0.000
#> SRR1177716 3 0.4974 0.9123 0.236 0.000 0.764
#> SRR1177717 1 0.0848 0.8031 0.984 0.008 0.008
#> SRR1177718 1 0.0424 0.7968 0.992 0.000 0.008
#> SRR1177719 1 0.2878 0.8413 0.904 0.096 0.000
#> SRR1177720 3 0.4605 0.9147 0.204 0.000 0.796
#> SRR1177721 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.8982 0.000 1.000 0.000
#> SRR1177723 1 0.1315 0.8113 0.972 0.020 0.008
#> SRR1177725 1 0.0848 0.8031 0.984 0.008 0.008
#> SRR1177724 1 0.1315 0.8113 0.972 0.020 0.008
#> SRR1177726 3 0.5016 0.9109 0.240 0.000 0.760
#> SRR1177727 1 0.1964 0.7735 0.944 0.000 0.056
#> SRR1177728 3 0.5016 0.9109 0.240 0.000 0.760
#> SRR1177729 1 0.1315 0.8113 0.972 0.020 0.008
#> SRR1177730 1 0.6095 -0.0989 0.608 0.000 0.392
#> SRR1177731 1 0.2774 0.7649 0.920 0.008 0.072
#> SRR1177732 1 0.1964 0.7735 0.944 0.000 0.056
#> SRR1177733 1 0.3267 0.8415 0.884 0.116 0.000
#> SRR1177734 1 0.3267 0.8415 0.884 0.116 0.000
#> SRR1177735 1 0.3192 0.8411 0.888 0.112 0.000
#> SRR1177736 1 0.3192 0.8411 0.888 0.112 0.000
#> SRR1177737 2 0.2796 0.8627 0.092 0.908 0.000
#> SRR1177738 3 0.5940 0.8957 0.204 0.036 0.760
#> SRR1177739 1 0.3267 0.8415 0.884 0.116 0.000
#> SRR1177740 1 0.3267 0.8415 0.884 0.116 0.000
#> SRR1177741 1 0.1964 0.7735 0.944 0.000 0.056
#> SRR1177742 3 0.4931 0.9135 0.232 0.000 0.768
#> SRR1177743 1 0.2356 0.7563 0.928 0.000 0.072
#> SRR1177744 1 0.2356 0.7563 0.928 0.000 0.072
#> SRR1177745 2 0.7778 0.5708 0.240 0.656 0.104
#> SRR1177746 2 0.7778 0.5708 0.240 0.656 0.104
#> SRR1177747 1 0.2955 0.7510 0.912 0.008 0.080
#> SRR1177748 3 0.4931 0.9135 0.232 0.000 0.768
#> SRR1177749 1 0.0424 0.7968 0.992 0.000 0.008
#> SRR1177750 1 0.1525 0.8182 0.964 0.032 0.004
#> SRR1177751 1 0.1525 0.8182 0.964 0.032 0.004
#> SRR1177752 1 0.1525 0.8182 0.964 0.032 0.004
#> SRR1177753 1 0.2774 0.7649 0.920 0.008 0.072
#> SRR1177754 1 0.2774 0.7649 0.920 0.008 0.072
#> SRR1177755 1 0.1015 0.8059 0.980 0.012 0.008
#> SRR1177756 1 0.2200 0.8286 0.940 0.056 0.004
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026871 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026872 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026873 1 0.3301 0.815 0.876 0.000 0.076 0.048
#> SRR1026874 4 0.0592 0.978 0.016 0.000 0.000 0.984
#> SRR1026875 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1026876 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1026877 3 0.0000 0.905 0.000 0.000 1.000 0.000
#> SRR1026878 3 0.0000 0.905 0.000 0.000 1.000 0.000
#> SRR1026879 1 0.3934 0.787 0.836 0.000 0.116 0.048
#> SRR1026880 1 0.4259 0.777 0.816 0.000 0.128 0.056
#> SRR1026881 2 0.2859 0.835 0.112 0.880 0.000 0.008
#> SRR1026882 2 0.2859 0.835 0.112 0.880 0.000 0.008
#> SRR1026883 1 0.4434 0.738 0.756 0.228 0.000 0.016
#> SRR1026884 1 0.4434 0.738 0.756 0.228 0.000 0.016
#> SRR1026885 1 0.3695 0.811 0.828 0.156 0.000 0.016
#> SRR1026886 1 0.3695 0.811 0.828 0.156 0.000 0.016
#> SRR1026887 3 0.0524 0.906 0.008 0.004 0.988 0.000
#> SRR1026888 3 0.0524 0.906 0.008 0.004 0.988 0.000
#> SRR1026889 2 0.2737 0.839 0.104 0.888 0.000 0.008
#> SRR1026890 1 0.5851 0.459 0.604 0.360 0.028 0.008
#> SRR1026891 1 0.1661 0.862 0.944 0.052 0.000 0.004
#> SRR1026892 1 0.1661 0.862 0.944 0.052 0.000 0.004
#> SRR1026893 3 0.0524 0.906 0.008 0.004 0.988 0.000
#> SRR1026894 3 0.0524 0.906 0.008 0.004 0.988 0.000
#> SRR1026895 1 0.6265 0.470 0.600 0.344 0.040 0.016
#> SRR1026896 1 0.6265 0.470 0.600 0.344 0.040 0.016
#> SRR1026897 4 0.0592 0.978 0.016 0.000 0.000 0.984
#> SRR1026898 1 0.2573 0.862 0.920 0.044 0.024 0.012
#> SRR1026899 1 0.4015 0.789 0.832 0.000 0.116 0.052
#> SRR1026900 2 0.3710 0.761 0.192 0.804 0.000 0.004
#> SRR1026901 2 0.3710 0.761 0.192 0.804 0.000 0.004
#> SRR1026902 1 0.3695 0.811 0.828 0.156 0.000 0.016
#> SRR1026903 1 0.3695 0.811 0.828 0.156 0.000 0.016
#> SRR1026904 1 0.3743 0.808 0.824 0.160 0.000 0.016
#> SRR1026905 1 0.3743 0.808 0.824 0.160 0.000 0.016
#> SRR1026906 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026907 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026908 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026909 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026910 1 0.4327 0.753 0.768 0.216 0.000 0.016
#> SRR1026911 1 0.4327 0.753 0.768 0.216 0.000 0.016
#> SRR1026912 3 0.0672 0.904 0.008 0.008 0.984 0.000
#> SRR1026913 3 0.0672 0.904 0.008 0.008 0.984 0.000
#> SRR1026914 2 0.1822 0.852 0.044 0.944 0.004 0.008
#> SRR1026915 2 0.1822 0.852 0.044 0.944 0.004 0.008
#> SRR1026916 2 0.1822 0.852 0.044 0.944 0.004 0.008
#> SRR1026917 2 0.1822 0.852 0.044 0.944 0.004 0.008
#> SRR1026918 2 0.3047 0.831 0.116 0.872 0.000 0.012
#> SRR1026919 2 0.3047 0.831 0.116 0.872 0.000 0.012
#> SRR1026920 2 0.3047 0.831 0.116 0.872 0.000 0.012
#> SRR1026921 2 0.3047 0.831 0.116 0.872 0.000 0.012
#> SRR1026922 2 0.3668 0.766 0.188 0.808 0.000 0.004
#> SRR1026923 2 0.3668 0.766 0.188 0.808 0.000 0.004
#> SRR1026924 1 0.5041 0.710 0.724 0.248 0.012 0.016
#> SRR1026925 3 0.0524 0.906 0.008 0.004 0.988 0.000
#> SRR1026926 1 0.4327 0.753 0.768 0.216 0.000 0.016
#> SRR1026927 1 0.2799 0.846 0.884 0.108 0.000 0.008
#> SRR1026928 2 0.2859 0.836 0.112 0.880 0.000 0.008
#> SRR1026929 3 0.0000 0.905 0.000 0.000 1.000 0.000
#> SRR1026930 2 0.3105 0.809 0.140 0.856 0.000 0.004
#> SRR1026931 2 0.3105 0.809 0.140 0.856 0.000 0.004
#> SRR1026932 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1026933 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1026934 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026935 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026936 1 0.4327 0.753 0.768 0.216 0.000 0.016
#> SRR1026937 1 0.4327 0.753 0.768 0.216 0.000 0.016
#> SRR1026938 2 0.2737 0.839 0.104 0.888 0.000 0.008
#> SRR1026939 2 0.2737 0.839 0.104 0.888 0.000 0.008
#> SRR1026940 1 0.1452 0.863 0.956 0.036 0.000 0.008
#> SRR1026941 3 0.1151 0.907 0.024 0.000 0.968 0.008
#> SRR1026942 1 0.2742 0.857 0.916 0.032 0.028 0.024
#> SRR1026943 1 0.2742 0.857 0.916 0.032 0.028 0.024
#> SRR1026944 1 0.1520 0.847 0.956 0.000 0.020 0.024
#> SRR1026945 3 0.1938 0.883 0.052 0.000 0.936 0.012
#> SRR1026947 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026946 2 0.0921 0.853 0.028 0.972 0.000 0.000
#> SRR1026948 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1026949 1 0.2142 0.862 0.928 0.056 0.000 0.016
#> SRR1026950 1 0.1958 0.856 0.944 0.008 0.028 0.020
#> SRR1026951 2 0.7163 0.467 0.340 0.540 0.108 0.012
#> SRR1026952 1 0.1958 0.856 0.944 0.008 0.028 0.020
#> SRR1026953 3 0.1584 0.901 0.036 0.000 0.952 0.012
#> SRR1026954 1 0.4000 0.821 0.828 0.144 0.012 0.016
#> SRR1026955 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1026956 1 0.1661 0.862 0.944 0.052 0.000 0.004
#> SRR1026957 2 0.2737 0.839 0.104 0.888 0.000 0.008
#> SRR1026958 1 0.1109 0.862 0.968 0.028 0.000 0.004
#> SRR1026959 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1026960 1 0.2799 0.846 0.884 0.108 0.000 0.008
#> SRR1026961 1 0.3662 0.820 0.836 0.148 0.004 0.012
#> SRR1026962 1 0.2385 0.834 0.920 0.000 0.028 0.052
#> SRR1026963 1 0.2578 0.831 0.912 0.000 0.036 0.052
#> SRR1026964 1 0.4327 0.753 0.768 0.216 0.000 0.016
#> SRR1026965 1 0.4327 0.753 0.768 0.216 0.000 0.016
#> SRR1026966 3 0.0000 0.905 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.905 0.000 0.000 1.000 0.000
#> SRR1026968 1 0.3760 0.817 0.828 0.156 0.004 0.012
#> SRR1026969 1 0.3760 0.817 0.828 0.156 0.004 0.012
#> SRR1026970 1 0.3591 0.809 0.824 0.168 0.000 0.008
#> SRR1026971 1 0.3591 0.809 0.824 0.168 0.000 0.008
#> SRR1026972 1 0.3808 0.801 0.812 0.176 0.000 0.012
#> SRR1026973 1 0.3808 0.801 0.812 0.176 0.000 0.012
#> SRR1026974 1 0.1970 0.860 0.932 0.060 0.000 0.008
#> SRR1026975 1 0.1970 0.860 0.932 0.060 0.000 0.008
#> SRR1026976 1 0.3489 0.835 0.856 0.124 0.012 0.008
#> SRR1026977 1 0.3489 0.835 0.856 0.124 0.012 0.008
#> SRR1026978 1 0.2300 0.862 0.920 0.064 0.000 0.016
#> SRR1026979 3 0.1256 0.906 0.028 0.000 0.964 0.008
#> SRR1026980 2 0.7401 0.427 0.340 0.524 0.120 0.016
#> SRR1026981 3 0.5763 0.499 0.132 0.156 0.712 0.000
#> SRR1026982 1 0.3662 0.820 0.836 0.148 0.004 0.012
#> SRR1026983 1 0.3662 0.820 0.836 0.148 0.004 0.012
#> SRR1026984 1 0.3662 0.820 0.836 0.148 0.004 0.012
#> SRR1026985 1 0.3662 0.820 0.836 0.148 0.004 0.012
#> SRR1026986 1 0.2928 0.850 0.880 0.108 0.000 0.012
#> SRR1026987 1 0.2179 0.863 0.924 0.064 0.000 0.012
#> SRR1026988 1 0.5213 0.686 0.724 0.000 0.224 0.052
#> SRR1026989 1 0.5546 0.618 0.680 0.000 0.268 0.052
#> SRR1026990 1 0.1661 0.862 0.944 0.052 0.000 0.004
#> SRR1026991 3 0.1151 0.907 0.024 0.000 0.968 0.008
#> SRR1026992 1 0.3008 0.864 0.904 0.044 0.020 0.032
#> SRR1026993 1 0.1837 0.842 0.944 0.000 0.028 0.028
#> SRR1026994 1 0.3672 0.811 0.824 0.164 0.000 0.012
#> SRR1026995 1 0.3672 0.811 0.824 0.164 0.000 0.012
#> SRR1026996 1 0.4327 0.753 0.768 0.216 0.000 0.016
#> SRR1026997 1 0.4327 0.753 0.768 0.216 0.000 0.016
#> SRR1026998 3 0.0000 0.905 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.905 0.000 0.000 1.000 0.000
#> SRR1027000 1 0.2780 0.863 0.912 0.048 0.024 0.016
#> SRR1027001 1 0.5179 0.692 0.728 0.000 0.220 0.052
#> SRR1027002 1 0.3300 0.829 0.848 0.144 0.000 0.008
#> SRR1027003 2 0.5085 0.494 0.376 0.616 0.000 0.008
#> SRR1027004 1 0.1648 0.862 0.956 0.016 0.012 0.016
#> SRR1027005 3 0.0000 0.905 0.000 0.000 1.000 0.000
#> SRR1027006 1 0.5213 0.686 0.724 0.000 0.224 0.052
#> SRR1027007 1 0.2662 0.860 0.900 0.084 0.000 0.016
#> SRR1027008 1 0.2402 0.864 0.924 0.052 0.012 0.012
#> SRR1027009 3 0.1584 0.901 0.036 0.000 0.952 0.012
#> SRR1027010 1 0.4123 0.776 0.820 0.000 0.136 0.044
#> SRR1027011 3 0.1584 0.901 0.036 0.000 0.952 0.012
#> SRR1177668 1 0.3919 0.796 0.840 0.000 0.104 0.056
#> SRR1177667 1 0.2319 0.839 0.924 0.000 0.036 0.040
#> SRR1177669 1 0.5035 0.721 0.748 0.000 0.196 0.056
#> SRR1177670 3 0.4057 0.687 0.160 0.000 0.812 0.028
#> SRR1177671 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.4466 0.641 0.180 0.000 0.784 0.036
#> SRR1177673 1 0.3991 0.784 0.832 0.000 0.120 0.048
#> SRR1177674 3 0.3913 0.706 0.148 0.000 0.824 0.028
#> SRR1177675 1 0.2385 0.835 0.920 0.000 0.028 0.052
#> SRR1177676 1 0.4415 0.767 0.804 0.000 0.140 0.056
#> SRR1177677 1 0.2643 0.857 0.920 0.024 0.028 0.028
#> SRR1177678 1 0.3164 0.819 0.884 0.000 0.064 0.052
#> SRR1177679 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1177680 2 0.6920 0.543 0.284 0.596 0.108 0.012
#> SRR1177681 1 0.2573 0.862 0.920 0.044 0.024 0.012
#> SRR1177682 1 0.2573 0.862 0.920 0.044 0.024 0.012
#> SRR1177683 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.2660 0.835 0.908 0.000 0.036 0.056
#> SRR1177686 3 0.0000 0.905 0.000 0.000 1.000 0.000
#> SRR1177687 2 0.6920 0.543 0.284 0.596 0.108 0.012
#> SRR1177688 1 0.1930 0.866 0.936 0.056 0.004 0.004
#> SRR1177689 1 0.2684 0.864 0.912 0.060 0.016 0.012
#> SRR1177690 1 0.2170 0.848 0.936 0.008 0.028 0.028
#> SRR1177691 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1177692 2 0.6920 0.543 0.284 0.596 0.108 0.012
#> SRR1177693 2 0.1305 0.853 0.036 0.960 0.000 0.004
#> SRR1177694 2 0.1305 0.853 0.036 0.960 0.000 0.004
#> SRR1177695 1 0.2522 0.863 0.920 0.052 0.016 0.012
#> SRR1177697 1 0.2432 0.857 0.928 0.024 0.028 0.020
#> SRR1177696 1 0.1930 0.866 0.936 0.056 0.004 0.004
#> SRR1177698 3 0.1584 0.901 0.036 0.000 0.952 0.012
#> SRR1177700 1 0.2222 0.862 0.924 0.060 0.000 0.016
#> SRR1177701 1 0.1661 0.865 0.944 0.052 0.000 0.004
#> SRR1177702 4 0.1824 0.933 0.060 0.000 0.004 0.936
#> SRR1177703 1 0.1661 0.862 0.944 0.052 0.000 0.004
#> SRR1177704 1 0.7979 0.103 0.416 0.164 0.020 0.400
#> SRR1177705 1 0.2010 0.865 0.932 0.060 0.004 0.004
#> SRR1177706 2 0.3831 0.703 0.204 0.792 0.000 0.004
#> SRR1177707 1 0.1890 0.861 0.936 0.056 0.000 0.008
#> SRR1177708 1 0.2222 0.863 0.928 0.056 0.008 0.008
#> SRR1177709 1 0.4578 0.763 0.788 0.000 0.160 0.052
#> SRR1177710 1 0.4578 0.763 0.788 0.000 0.160 0.052
#> SRR1177711 1 0.2385 0.835 0.920 0.000 0.028 0.052
#> SRR1177712 1 0.7797 0.169 0.440 0.152 0.016 0.392
#> SRR1177714 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1177713 4 0.0592 0.978 0.016 0.000 0.000 0.984
#> SRR1177715 2 0.2048 0.818 0.064 0.928 0.000 0.008
#> SRR1177716 3 0.1488 0.903 0.032 0.000 0.956 0.012
#> SRR1177717 1 0.2214 0.838 0.928 0.000 0.028 0.044
#> SRR1177718 1 0.2300 0.835 0.924 0.000 0.028 0.048
#> SRR1177719 1 0.1256 0.863 0.964 0.028 0.000 0.008
#> SRR1177720 3 0.0000 0.905 0.000 0.000 1.000 0.000
#> SRR1177721 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.839 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.1936 0.842 0.940 0.000 0.028 0.032
#> SRR1177725 1 0.2214 0.838 0.928 0.000 0.028 0.044
#> SRR1177724 1 0.1936 0.842 0.940 0.000 0.028 0.032
#> SRR1177726 3 0.1584 0.901 0.036 0.000 0.952 0.012
#> SRR1177727 1 0.3601 0.811 0.860 0.000 0.084 0.056
#> SRR1177728 3 0.1584 0.901 0.036 0.000 0.952 0.012
#> SRR1177729 1 0.1837 0.842 0.944 0.000 0.028 0.028
#> SRR1177730 3 0.6007 0.219 0.408 0.000 0.548 0.044
#> SRR1177731 1 0.3978 0.796 0.836 0.000 0.108 0.056
#> SRR1177732 1 0.3601 0.811 0.860 0.000 0.084 0.056
#> SRR1177733 1 0.1389 0.864 0.952 0.048 0.000 0.000
#> SRR1177734 1 0.1389 0.864 0.952 0.048 0.000 0.000
#> SRR1177735 1 0.1452 0.863 0.956 0.036 0.000 0.008
#> SRR1177736 1 0.1452 0.863 0.956 0.036 0.000 0.008
#> SRR1177737 2 0.3196 0.819 0.136 0.856 0.000 0.008
#> SRR1177738 3 0.1610 0.873 0.016 0.032 0.952 0.000
#> SRR1177739 1 0.1389 0.864 0.952 0.048 0.000 0.000
#> SRR1177740 1 0.1389 0.864 0.952 0.048 0.000 0.000
#> SRR1177741 1 0.3601 0.811 0.860 0.000 0.084 0.056
#> SRR1177742 3 0.1256 0.906 0.028 0.000 0.964 0.008
#> SRR1177743 1 0.4015 0.789 0.832 0.000 0.116 0.052
#> SRR1177744 1 0.4015 0.789 0.832 0.000 0.116 0.052
#> SRR1177745 2 0.6920 0.543 0.284 0.596 0.108 0.012
#> SRR1177746 2 0.6920 0.543 0.284 0.596 0.108 0.012
#> SRR1177747 1 0.4123 0.776 0.820 0.000 0.136 0.044
#> SRR1177748 3 0.1256 0.906 0.028 0.000 0.964 0.008
#> SRR1177749 1 0.2385 0.835 0.920 0.000 0.028 0.052
#> SRR1177750 1 0.2170 0.848 0.936 0.008 0.028 0.028
#> SRR1177751 1 0.2170 0.848 0.936 0.008 0.028 0.028
#> SRR1177752 1 0.2170 0.848 0.936 0.008 0.028 0.028
#> SRR1177753 1 0.3978 0.796 0.836 0.000 0.108 0.056
#> SRR1177754 1 0.3978 0.796 0.836 0.000 0.108 0.056
#> SRR1177755 1 0.2032 0.839 0.936 0.000 0.028 0.036
#> SRR1177756 1 0.2643 0.856 0.920 0.028 0.028 0.024
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.1197 0.8096 0.048 0.952 0.000 0.000 0.000
#> SRR1026871 2 0.1197 0.8096 0.048 0.952 0.000 0.000 0.000
#> SRR1026872 2 0.1197 0.8096 0.048 0.952 0.000 0.000 0.000
#> SRR1026873 1 0.4841 0.6431 0.560 0.000 0.024 0.416 0.000
#> SRR1026874 5 0.0162 0.9220 0.000 0.000 0.000 0.004 0.996
#> SRR1026875 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1026876 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1026877 3 0.0000 0.8968 0.000 0.000 1.000 0.000 0.000
#> SRR1026878 3 0.0000 0.8968 0.000 0.000 1.000 0.000 0.000
#> SRR1026879 1 0.5492 0.6204 0.536 0.000 0.068 0.396 0.000
#> SRR1026880 1 0.5611 0.6042 0.516 0.000 0.076 0.408 0.000
#> SRR1026881 2 0.3368 0.7903 0.156 0.820 0.000 0.024 0.000
#> SRR1026882 2 0.3368 0.7903 0.156 0.820 0.000 0.024 0.000
#> SRR1026883 1 0.3238 0.6730 0.836 0.136 0.000 0.028 0.000
#> SRR1026884 1 0.3238 0.6730 0.836 0.136 0.000 0.028 0.000
#> SRR1026885 1 0.2278 0.7335 0.908 0.060 0.000 0.032 0.000
#> SRR1026886 1 0.2278 0.7335 0.908 0.060 0.000 0.032 0.000
#> SRR1026887 3 0.0451 0.8948 0.008 0.004 0.988 0.000 0.000
#> SRR1026888 3 0.0451 0.8948 0.008 0.004 0.988 0.000 0.000
#> SRR1026889 2 0.3694 0.7827 0.172 0.796 0.000 0.032 0.000
#> SRR1026890 1 0.5148 0.4189 0.664 0.280 0.028 0.028 0.000
#> SRR1026891 1 0.1124 0.7702 0.960 0.004 0.000 0.036 0.000
#> SRR1026892 1 0.1124 0.7702 0.960 0.004 0.000 0.036 0.000
#> SRR1026893 3 0.0451 0.8948 0.008 0.004 0.988 0.000 0.000
#> SRR1026894 3 0.0451 0.8948 0.008 0.004 0.988 0.000 0.000
#> SRR1026895 1 0.5403 0.4229 0.656 0.272 0.040 0.032 0.000
#> SRR1026896 1 0.5403 0.4229 0.656 0.272 0.040 0.032 0.000
#> SRR1026897 5 0.0000 0.9192 0.000 0.000 0.000 0.000 1.000
#> SRR1026898 1 0.2890 0.7685 0.836 0.004 0.000 0.160 0.000
#> SRR1026899 1 0.5506 0.6159 0.528 0.000 0.068 0.404 0.000
#> SRR1026900 2 0.4219 0.7063 0.260 0.716 0.000 0.024 0.000
#> SRR1026901 2 0.4219 0.7063 0.260 0.716 0.000 0.024 0.000
#> SRR1026902 1 0.2278 0.7335 0.908 0.060 0.000 0.032 0.000
#> SRR1026903 1 0.2278 0.7335 0.908 0.060 0.000 0.032 0.000
#> SRR1026904 1 0.2344 0.7306 0.904 0.064 0.000 0.032 0.000
#> SRR1026905 1 0.2344 0.7306 0.904 0.064 0.000 0.032 0.000
#> SRR1026906 2 0.1043 0.8076 0.040 0.960 0.000 0.000 0.000
#> SRR1026907 2 0.1043 0.8076 0.040 0.960 0.000 0.000 0.000
#> SRR1026908 2 0.1043 0.8076 0.040 0.960 0.000 0.000 0.000
#> SRR1026909 2 0.1043 0.8076 0.040 0.960 0.000 0.000 0.000
#> SRR1026910 1 0.3085 0.6883 0.852 0.116 0.000 0.032 0.000
#> SRR1026911 1 0.3085 0.6883 0.852 0.116 0.000 0.032 0.000
#> SRR1026912 3 0.0579 0.8923 0.008 0.008 0.984 0.000 0.000
#> SRR1026913 3 0.0579 0.8923 0.008 0.008 0.984 0.000 0.000
#> SRR1026914 2 0.2664 0.8085 0.092 0.884 0.004 0.020 0.000
#> SRR1026915 2 0.2664 0.8085 0.092 0.884 0.004 0.020 0.000
#> SRR1026916 2 0.2664 0.8085 0.092 0.884 0.004 0.020 0.000
#> SRR1026917 2 0.2664 0.8085 0.092 0.884 0.004 0.020 0.000
#> SRR1026918 2 0.3449 0.7871 0.164 0.812 0.000 0.024 0.000
#> SRR1026919 2 0.3449 0.7871 0.164 0.812 0.000 0.024 0.000
#> SRR1026920 2 0.3449 0.7871 0.164 0.812 0.000 0.024 0.000
#> SRR1026921 2 0.3449 0.7871 0.164 0.812 0.000 0.024 0.000
#> SRR1026922 2 0.4193 0.7102 0.256 0.720 0.000 0.024 0.000
#> SRR1026923 2 0.4193 0.7102 0.256 0.720 0.000 0.024 0.000
#> SRR1026924 1 0.4004 0.6513 0.792 0.164 0.012 0.032 0.000
#> SRR1026925 3 0.0451 0.8948 0.008 0.004 0.988 0.000 0.000
#> SRR1026926 1 0.3085 0.6883 0.852 0.116 0.000 0.032 0.000
#> SRR1026927 1 0.1981 0.7577 0.924 0.028 0.000 0.048 0.000
#> SRR1026928 2 0.3565 0.7820 0.176 0.800 0.000 0.024 0.000
#> SRR1026929 3 0.0000 0.8968 0.000 0.000 1.000 0.000 0.000
#> SRR1026930 2 0.3602 0.7741 0.180 0.796 0.000 0.024 0.000
#> SRR1026931 2 0.3602 0.7741 0.180 0.796 0.000 0.024 0.000
#> SRR1026932 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1026933 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1026934 2 0.1043 0.8076 0.040 0.960 0.000 0.000 0.000
#> SRR1026935 2 0.1043 0.8076 0.040 0.960 0.000 0.000 0.000
#> SRR1026936 1 0.3085 0.6883 0.852 0.116 0.000 0.032 0.000
#> SRR1026937 1 0.3085 0.6883 0.852 0.116 0.000 0.032 0.000
#> SRR1026938 2 0.3656 0.7844 0.168 0.800 0.000 0.032 0.000
#> SRR1026939 2 0.3656 0.7844 0.168 0.800 0.000 0.032 0.000
#> SRR1026940 1 0.1197 0.7726 0.952 0.000 0.000 0.048 0.000
#> SRR1026941 3 0.1430 0.8948 0.004 0.000 0.944 0.052 0.000
#> SRR1026942 1 0.3809 0.7451 0.736 0.008 0.000 0.256 0.000
#> SRR1026943 1 0.3809 0.7451 0.736 0.008 0.000 0.256 0.000
#> SRR1026944 1 0.3684 0.7324 0.720 0.000 0.000 0.280 0.000
#> SRR1026945 3 0.2069 0.8751 0.012 0.000 0.912 0.076 0.000
#> SRR1026947 2 0.1043 0.8076 0.040 0.960 0.000 0.000 0.000
#> SRR1026946 2 0.1043 0.8076 0.040 0.960 0.000 0.000 0.000
#> SRR1026948 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1026949 1 0.1484 0.7722 0.944 0.008 0.000 0.048 0.000
#> SRR1026950 1 0.3266 0.7572 0.796 0.000 0.004 0.200 0.000
#> SRR1026951 2 0.6579 0.4058 0.412 0.456 0.104 0.028 0.000
#> SRR1026952 1 0.3266 0.7572 0.796 0.000 0.004 0.200 0.000
#> SRR1026953 3 0.1704 0.8888 0.004 0.000 0.928 0.068 0.000
#> SRR1026954 1 0.2502 0.7374 0.904 0.060 0.012 0.024 0.000
#> SRR1026955 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1026956 1 0.1124 0.7702 0.960 0.004 0.000 0.036 0.000
#> SRR1026957 2 0.3656 0.7844 0.168 0.800 0.000 0.032 0.000
#> SRR1026958 1 0.1831 0.7750 0.920 0.004 0.000 0.076 0.000
#> SRR1026959 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1026960 1 0.1386 0.7560 0.952 0.032 0.000 0.016 0.000
#> SRR1026961 1 0.2172 0.7369 0.916 0.060 0.004 0.020 0.000
#> SRR1026962 1 0.4138 0.6782 0.616 0.000 0.000 0.384 0.000
#> SRR1026963 1 0.4171 0.6692 0.604 0.000 0.000 0.396 0.000
#> SRR1026964 1 0.3085 0.6883 0.852 0.116 0.000 0.032 0.000
#> SRR1026965 1 0.3085 0.6883 0.852 0.116 0.000 0.032 0.000
#> SRR1026966 3 0.0000 0.8968 0.000 0.000 1.000 0.000 0.000
#> SRR1026967 3 0.0000 0.8968 0.000 0.000 1.000 0.000 0.000
#> SRR1026968 1 0.2331 0.7333 0.908 0.064 0.004 0.024 0.000
#> SRR1026969 1 0.2331 0.7333 0.908 0.064 0.004 0.024 0.000
#> SRR1026970 1 0.2694 0.7334 0.884 0.076 0.000 0.040 0.000
#> SRR1026971 1 0.2694 0.7334 0.884 0.076 0.000 0.040 0.000
#> SRR1026972 1 0.2754 0.7267 0.880 0.080 0.000 0.040 0.000
#> SRR1026973 1 0.2754 0.7267 0.880 0.080 0.000 0.040 0.000
#> SRR1026974 1 0.1331 0.7713 0.952 0.008 0.000 0.040 0.000
#> SRR1026975 1 0.1331 0.7713 0.952 0.008 0.000 0.040 0.000
#> SRR1026976 1 0.1949 0.7464 0.932 0.040 0.012 0.016 0.000
#> SRR1026977 1 0.1949 0.7464 0.932 0.040 0.012 0.016 0.000
#> SRR1026978 1 0.2900 0.7737 0.864 0.028 0.000 0.108 0.000
#> SRR1026979 3 0.1502 0.8940 0.004 0.000 0.940 0.056 0.000
#> SRR1026980 2 0.6816 0.3761 0.416 0.432 0.116 0.036 0.000
#> SRR1026981 3 0.5121 0.4580 0.136 0.152 0.708 0.004 0.000
#> SRR1026982 1 0.2172 0.7369 0.916 0.060 0.004 0.020 0.000
#> SRR1026983 1 0.2172 0.7369 0.916 0.060 0.004 0.020 0.000
#> SRR1026984 1 0.2172 0.7369 0.916 0.060 0.004 0.020 0.000
#> SRR1026985 1 0.2172 0.7369 0.916 0.060 0.004 0.020 0.000
#> SRR1026986 1 0.2153 0.7658 0.916 0.040 0.000 0.044 0.000
#> SRR1026987 1 0.2669 0.7740 0.876 0.020 0.000 0.104 0.000
#> SRR1026988 1 0.6330 0.5282 0.472 0.000 0.164 0.364 0.000
#> SRR1026989 1 0.6581 0.4521 0.432 0.000 0.212 0.356 0.000
#> SRR1026990 1 0.1282 0.7724 0.952 0.004 0.000 0.044 0.000
#> SRR1026991 3 0.1430 0.8946 0.004 0.000 0.944 0.052 0.000
#> SRR1026992 1 0.3916 0.7462 0.732 0.012 0.000 0.256 0.000
#> SRR1026993 1 0.3999 0.7008 0.656 0.000 0.000 0.344 0.000
#> SRR1026994 1 0.2754 0.7344 0.880 0.080 0.000 0.040 0.000
#> SRR1026995 1 0.2754 0.7344 0.880 0.080 0.000 0.040 0.000
#> SRR1026996 1 0.3085 0.6883 0.852 0.116 0.000 0.032 0.000
#> SRR1026997 1 0.3085 0.6883 0.852 0.116 0.000 0.032 0.000
#> SRR1026998 3 0.0000 0.8968 0.000 0.000 1.000 0.000 0.000
#> SRR1026999 3 0.0000 0.8968 0.000 0.000 1.000 0.000 0.000
#> SRR1027000 1 0.2971 0.7713 0.836 0.008 0.000 0.156 0.000
#> SRR1027001 1 0.6309 0.5299 0.472 0.000 0.160 0.368 0.000
#> SRR1027002 1 0.2359 0.7501 0.904 0.060 0.000 0.036 0.000
#> SRR1027003 2 0.5024 0.4584 0.440 0.528 0.000 0.032 0.000
#> SRR1027004 1 0.1952 0.7750 0.912 0.000 0.004 0.084 0.000
#> SRR1027005 3 0.0162 0.8962 0.000 0.000 0.996 0.004 0.000
#> SRR1027006 1 0.6330 0.5282 0.472 0.000 0.164 0.364 0.000
#> SRR1027007 1 0.2535 0.7719 0.892 0.032 0.000 0.076 0.000
#> SRR1027008 1 0.2953 0.7713 0.844 0.012 0.000 0.144 0.000
#> SRR1027009 3 0.1704 0.8888 0.004 0.000 0.928 0.068 0.000
#> SRR1027010 1 0.5708 0.6253 0.556 0.000 0.096 0.348 0.000
#> SRR1027011 3 0.1704 0.8888 0.004 0.000 0.928 0.068 0.000
#> SRR1177668 1 0.5261 0.6215 0.528 0.000 0.048 0.424 0.000
#> SRR1177667 1 0.4074 0.6954 0.636 0.000 0.000 0.364 0.000
#> SRR1177669 1 0.6163 0.5688 0.504 0.000 0.144 0.352 0.000
#> SRR1177670 3 0.4262 0.6774 0.100 0.000 0.776 0.124 0.000
#> SRR1177671 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1177672 3 0.4583 0.6350 0.112 0.000 0.748 0.140 0.000
#> SRR1177673 1 0.5550 0.6278 0.548 0.000 0.076 0.376 0.000
#> SRR1177674 3 0.4111 0.6952 0.092 0.000 0.788 0.120 0.000
#> SRR1177675 1 0.4114 0.6840 0.624 0.000 0.000 0.376 0.000
#> SRR1177676 1 0.5697 0.6000 0.512 0.000 0.084 0.404 0.000
#> SRR1177677 1 0.3231 0.7619 0.800 0.004 0.000 0.196 0.000
#> SRR1177678 1 0.4744 0.6539 0.572 0.000 0.020 0.408 0.000
#> SRR1177679 2 0.0609 0.7755 0.000 0.980 0.000 0.020 0.000
#> SRR1177680 2 0.6578 0.4769 0.360 0.504 0.104 0.032 0.000
#> SRR1177681 1 0.2848 0.7690 0.840 0.004 0.000 0.156 0.000
#> SRR1177682 1 0.2848 0.7690 0.840 0.004 0.000 0.156 0.000
#> SRR1177683 2 0.0771 0.7758 0.004 0.976 0.000 0.020 0.000
#> SRR1177684 2 0.0771 0.7758 0.004 0.976 0.000 0.020 0.000
#> SRR1177685 1 0.4238 0.6877 0.628 0.000 0.004 0.368 0.000
#> SRR1177686 3 0.0162 0.8962 0.000 0.000 0.996 0.004 0.000
#> SRR1177687 2 0.6578 0.4769 0.360 0.504 0.104 0.032 0.000
#> SRR1177688 1 0.2248 0.7773 0.900 0.012 0.000 0.088 0.000
#> SRR1177689 1 0.3011 0.7720 0.844 0.016 0.000 0.140 0.000
#> SRR1177690 1 0.3857 0.7201 0.688 0.000 0.000 0.312 0.000
#> SRR1177691 2 0.0609 0.7755 0.000 0.980 0.000 0.020 0.000
#> SRR1177692 2 0.6636 0.4772 0.356 0.504 0.104 0.036 0.000
#> SRR1177693 2 0.1764 0.8108 0.064 0.928 0.000 0.008 0.000
#> SRR1177694 2 0.1764 0.8108 0.064 0.928 0.000 0.008 0.000
#> SRR1177695 1 0.2997 0.7705 0.840 0.012 0.000 0.148 0.000
#> SRR1177697 1 0.3835 0.7392 0.732 0.008 0.000 0.260 0.000
#> SRR1177696 1 0.2248 0.7773 0.900 0.012 0.000 0.088 0.000
#> SRR1177698 3 0.1704 0.8888 0.004 0.000 0.928 0.068 0.000
#> SRR1177700 1 0.1597 0.7725 0.940 0.012 0.000 0.048 0.000
#> SRR1177701 1 0.2233 0.7769 0.904 0.016 0.000 0.080 0.000
#> SRR1177702 4 0.5042 0.0000 0.032 0.000 0.000 0.508 0.460
#> SRR1177703 1 0.1357 0.7733 0.948 0.004 0.000 0.048 0.000
#> SRR1177704 1 0.7558 -0.0411 0.472 0.072 0.016 0.332 0.108
#> SRR1177705 1 0.2362 0.7761 0.900 0.024 0.000 0.076 0.000
#> SRR1177706 2 0.4276 0.6522 0.256 0.716 0.000 0.028 0.000
#> SRR1177707 1 0.1205 0.7721 0.956 0.004 0.000 0.040 0.000
#> SRR1177708 1 0.1443 0.7741 0.948 0.004 0.004 0.044 0.000
#> SRR1177709 1 0.5883 0.6074 0.524 0.000 0.108 0.368 0.000
#> SRR1177710 1 0.5883 0.6074 0.524 0.000 0.108 0.368 0.000
#> SRR1177711 1 0.4114 0.6840 0.624 0.000 0.000 0.376 0.000
#> SRR1177712 1 0.7302 0.0312 0.496 0.060 0.012 0.324 0.108
#> SRR1177714 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1177713 5 0.1831 0.8454 0.004 0.000 0.000 0.076 0.920
#> SRR1177715 2 0.2632 0.7696 0.072 0.888 0.000 0.040 0.000
#> SRR1177716 3 0.1638 0.8909 0.004 0.000 0.932 0.064 0.000
#> SRR1177717 1 0.4074 0.6913 0.636 0.000 0.000 0.364 0.000
#> SRR1177718 1 0.4126 0.6801 0.620 0.000 0.000 0.380 0.000
#> SRR1177719 1 0.2513 0.7759 0.876 0.008 0.000 0.116 0.000
#> SRR1177720 3 0.0162 0.8962 0.000 0.000 0.996 0.004 0.000
#> SRR1177721 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1177722 2 0.0703 0.7741 0.000 0.976 0.000 0.024 0.000
#> SRR1177723 1 0.4015 0.7003 0.652 0.000 0.000 0.348 0.000
#> SRR1177725 1 0.4074 0.6913 0.636 0.000 0.000 0.364 0.000
#> SRR1177724 1 0.4015 0.7003 0.652 0.000 0.000 0.348 0.000
#> SRR1177726 3 0.1704 0.8888 0.004 0.000 0.928 0.068 0.000
#> SRR1177727 1 0.4937 0.6368 0.544 0.000 0.028 0.428 0.000
#> SRR1177728 3 0.1704 0.8888 0.004 0.000 0.928 0.068 0.000
#> SRR1177729 1 0.3999 0.7008 0.656 0.000 0.000 0.344 0.000
#> SRR1177730 3 0.6433 0.1928 0.268 0.000 0.504 0.228 0.000
#> SRR1177731 1 0.5458 0.6415 0.552 0.000 0.068 0.380 0.000
#> SRR1177732 1 0.4937 0.6368 0.544 0.000 0.028 0.428 0.000
#> SRR1177733 1 0.1830 0.7756 0.924 0.008 0.000 0.068 0.000
#> SRR1177734 1 0.1830 0.7756 0.924 0.008 0.000 0.068 0.000
#> SRR1177735 1 0.1197 0.7726 0.952 0.000 0.000 0.048 0.000
#> SRR1177736 1 0.1197 0.7726 0.952 0.000 0.000 0.048 0.000
#> SRR1177737 2 0.3812 0.7665 0.204 0.772 0.000 0.024 0.000
#> SRR1177738 3 0.1498 0.8663 0.024 0.016 0.952 0.008 0.000
#> SRR1177739 1 0.1830 0.7756 0.924 0.008 0.000 0.068 0.000
#> SRR1177740 1 0.1830 0.7756 0.924 0.008 0.000 0.068 0.000
#> SRR1177741 1 0.4937 0.6368 0.544 0.000 0.028 0.428 0.000
#> SRR1177742 3 0.1502 0.8940 0.004 0.000 0.940 0.056 0.000
#> SRR1177743 1 0.5506 0.6159 0.528 0.000 0.068 0.404 0.000
#> SRR1177744 1 0.5506 0.6159 0.528 0.000 0.068 0.404 0.000
#> SRR1177745 2 0.6578 0.4769 0.360 0.504 0.104 0.032 0.000
#> SRR1177746 2 0.6578 0.4769 0.360 0.504 0.104 0.032 0.000
#> SRR1177747 1 0.5675 0.6265 0.556 0.000 0.092 0.352 0.000
#> SRR1177748 3 0.1502 0.8940 0.004 0.000 0.940 0.056 0.000
#> SRR1177749 1 0.4114 0.6840 0.624 0.000 0.000 0.376 0.000
#> SRR1177750 1 0.3857 0.7201 0.688 0.000 0.000 0.312 0.000
#> SRR1177751 1 0.3857 0.7201 0.688 0.000 0.000 0.312 0.000
#> SRR1177752 1 0.3857 0.7201 0.688 0.000 0.000 0.312 0.000
#> SRR1177753 1 0.5458 0.6415 0.552 0.000 0.068 0.380 0.000
#> SRR1177754 1 0.5458 0.6415 0.552 0.000 0.068 0.380 0.000
#> SRR1177755 1 0.4030 0.6965 0.648 0.000 0.000 0.352 0.000
#> SRR1177756 1 0.4127 0.7256 0.680 0.008 0.000 0.312 0.000
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.1714 0.8009 0.000 0.908 0.000 0.092 0.000 0.000
#> SRR1026871 2 0.1714 0.8009 0.000 0.908 0.000 0.092 0.000 0.000
#> SRR1026872 2 0.1714 0.8009 0.000 0.908 0.000 0.092 0.000 0.000
#> SRR1026873 1 0.1794 0.7672 0.924 0.000 0.000 0.040 0.000 0.036
#> SRR1026874 5 0.0146 0.8682 0.000 0.000 0.000 0.000 0.996 0.004
#> SRR1026875 2 0.1814 0.7225 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1026876 2 0.1814 0.7225 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1026877 3 0.0692 0.8754 0.004 0.000 0.976 0.020 0.000 0.000
#> SRR1026878 3 0.0692 0.8754 0.004 0.000 0.976 0.020 0.000 0.000
#> SRR1026879 1 0.2245 0.7579 0.908 0.000 0.040 0.016 0.000 0.036
#> SRR1026880 1 0.2007 0.7420 0.916 0.000 0.044 0.004 0.000 0.036
#> SRR1026881 2 0.3175 0.7665 0.000 0.744 0.000 0.256 0.000 0.000
#> SRR1026882 2 0.3175 0.7665 0.000 0.744 0.000 0.256 0.000 0.000
#> SRR1026883 4 0.4032 0.7089 0.192 0.068 0.000 0.740 0.000 0.000
#> SRR1026884 4 0.4032 0.7089 0.192 0.068 0.000 0.740 0.000 0.000
#> SRR1026885 4 0.3245 0.7451 0.228 0.008 0.000 0.764 0.000 0.000
#> SRR1026886 4 0.3245 0.7451 0.228 0.008 0.000 0.764 0.000 0.000
#> SRR1026887 3 0.1010 0.8709 0.000 0.000 0.960 0.036 0.000 0.004
#> SRR1026888 3 0.1010 0.8709 0.000 0.000 0.960 0.036 0.000 0.004
#> SRR1026889 2 0.3266 0.7559 0.000 0.728 0.000 0.272 0.000 0.000
#> SRR1026890 4 0.5909 0.5349 0.188 0.208 0.028 0.576 0.000 0.000
#> SRR1026891 4 0.3714 0.7074 0.340 0.000 0.000 0.656 0.000 0.004
#> SRR1026892 4 0.3714 0.7074 0.340 0.000 0.000 0.656 0.000 0.004
#> SRR1026893 3 0.1010 0.8709 0.000 0.000 0.960 0.036 0.000 0.004
#> SRR1026894 3 0.1010 0.8709 0.000 0.000 0.960 0.036 0.000 0.004
#> SRR1026895 4 0.6164 0.5334 0.188 0.200 0.032 0.572 0.000 0.008
#> SRR1026896 4 0.6164 0.5334 0.188 0.200 0.032 0.572 0.000 0.008
#> SRR1026897 5 0.0000 0.8670 0.000 0.000 0.000 0.000 1.000 0.000
#> SRR1026898 4 0.3857 0.4447 0.468 0.000 0.000 0.532 0.000 0.000
#> SRR1026899 1 0.1723 0.7493 0.928 0.000 0.036 0.000 0.000 0.036
#> SRR1026900 2 0.3769 0.6569 0.004 0.640 0.000 0.356 0.000 0.000
#> SRR1026901 2 0.3769 0.6569 0.004 0.640 0.000 0.356 0.000 0.000
#> SRR1026902 4 0.3245 0.7451 0.228 0.008 0.000 0.764 0.000 0.000
#> SRR1026903 4 0.3245 0.7451 0.228 0.008 0.000 0.764 0.000 0.000
#> SRR1026904 4 0.3217 0.7441 0.224 0.008 0.000 0.768 0.000 0.000
#> SRR1026905 4 0.3217 0.7441 0.224 0.008 0.000 0.768 0.000 0.000
#> SRR1026906 2 0.1610 0.7991 0.000 0.916 0.000 0.084 0.000 0.000
#> SRR1026907 2 0.1610 0.7991 0.000 0.916 0.000 0.084 0.000 0.000
#> SRR1026908 2 0.1610 0.7991 0.000 0.916 0.000 0.084 0.000 0.000
#> SRR1026909 2 0.1610 0.7991 0.000 0.916 0.000 0.084 0.000 0.000
#> SRR1026910 4 0.3806 0.7213 0.200 0.048 0.000 0.752 0.000 0.000
#> SRR1026911 4 0.3806 0.7213 0.200 0.048 0.000 0.752 0.000 0.000
#> SRR1026912 3 0.1082 0.8690 0.000 0.000 0.956 0.040 0.000 0.004
#> SRR1026913 3 0.1082 0.8690 0.000 0.000 0.956 0.040 0.000 0.004
#> SRR1026914 2 0.2738 0.7947 0.000 0.820 0.000 0.176 0.000 0.004
#> SRR1026915 2 0.2738 0.7947 0.000 0.820 0.000 0.176 0.000 0.004
#> SRR1026916 2 0.2738 0.7947 0.000 0.820 0.000 0.176 0.000 0.004
#> SRR1026917 2 0.2738 0.7947 0.000 0.820 0.000 0.176 0.000 0.004
#> SRR1026918 2 0.3221 0.7619 0.000 0.736 0.000 0.264 0.000 0.000
#> SRR1026919 2 0.3221 0.7619 0.000 0.736 0.000 0.264 0.000 0.000
#> SRR1026920 2 0.3221 0.7619 0.000 0.736 0.000 0.264 0.000 0.000
#> SRR1026921 2 0.3221 0.7619 0.000 0.736 0.000 0.264 0.000 0.000
#> SRR1026922 2 0.3756 0.6618 0.004 0.644 0.000 0.352 0.000 0.000
#> SRR1026923 2 0.3756 0.6618 0.004 0.644 0.000 0.352 0.000 0.000
#> SRR1026924 4 0.4682 0.6847 0.188 0.092 0.004 0.708 0.000 0.008
#> SRR1026925 3 0.1124 0.8707 0.000 0.000 0.956 0.036 0.000 0.008
#> SRR1026926 4 0.3806 0.7213 0.200 0.048 0.000 0.752 0.000 0.000
#> SRR1026927 4 0.3309 0.7363 0.280 0.000 0.000 0.720 0.000 0.000
#> SRR1026928 2 0.3288 0.7542 0.000 0.724 0.000 0.276 0.000 0.000
#> SRR1026929 3 0.0806 0.8738 0.000 0.000 0.972 0.020 0.000 0.008
#> SRR1026930 2 0.3290 0.7452 0.004 0.744 0.000 0.252 0.000 0.000
#> SRR1026931 2 0.3290 0.7452 0.004 0.744 0.000 0.252 0.000 0.000
#> SRR1026932 2 0.1814 0.7225 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1026933 2 0.1814 0.7225 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1026934 2 0.1610 0.7991 0.000 0.916 0.000 0.084 0.000 0.000
#> SRR1026935 2 0.1610 0.7991 0.000 0.916 0.000 0.084 0.000 0.000
#> SRR1026936 4 0.3806 0.7213 0.200 0.048 0.000 0.752 0.000 0.000
#> SRR1026937 4 0.3806 0.7213 0.200 0.048 0.000 0.752 0.000 0.000
#> SRR1026938 2 0.3244 0.7582 0.000 0.732 0.000 0.268 0.000 0.000
#> SRR1026939 2 0.3244 0.7582 0.000 0.732 0.000 0.268 0.000 0.000
#> SRR1026940 4 0.3756 0.6951 0.352 0.000 0.000 0.644 0.000 0.004
#> SRR1026941 3 0.2134 0.8750 0.052 0.000 0.904 0.000 0.000 0.044
#> SRR1026942 1 0.3578 0.4081 0.660 0.000 0.000 0.340 0.000 0.000
#> SRR1026943 1 0.3578 0.4081 0.660 0.000 0.000 0.340 0.000 0.000
#> SRR1026944 1 0.3490 0.5448 0.724 0.000 0.000 0.268 0.000 0.008
#> SRR1026945 3 0.2737 0.8558 0.084 0.000 0.868 0.004 0.000 0.044
#> SRR1026947 2 0.1610 0.7991 0.000 0.916 0.000 0.084 0.000 0.000
#> SRR1026946 2 0.1610 0.7991 0.000 0.916 0.000 0.084 0.000 0.000
#> SRR1026948 2 0.1814 0.7225 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1026949 4 0.3699 0.7089 0.336 0.000 0.000 0.660 0.000 0.004
#> SRR1026950 1 0.4343 0.1695 0.592 0.000 0.004 0.384 0.000 0.020
#> SRR1026951 4 0.5235 -0.2517 0.056 0.392 0.012 0.536 0.000 0.004
#> SRR1026952 1 0.4343 0.1695 0.592 0.000 0.004 0.384 0.000 0.020
#> SRR1026953 3 0.2519 0.8682 0.068 0.000 0.884 0.004 0.000 0.044
#> SRR1026954 4 0.4189 0.7450 0.232 0.024 0.004 0.724 0.000 0.016
#> SRR1026955 2 0.1814 0.7225 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1026956 4 0.3714 0.7074 0.340 0.000 0.000 0.656 0.000 0.004
#> SRR1026957 2 0.3244 0.7582 0.000 0.732 0.000 0.268 0.000 0.000
#> SRR1026958 4 0.3706 0.6654 0.380 0.000 0.000 0.620 0.000 0.000
#> SRR1026959 2 0.1814 0.7225 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1026960 4 0.3767 0.7406 0.276 0.012 0.000 0.708 0.000 0.004
#> SRR1026961 4 0.3813 0.7444 0.236 0.020 0.000 0.736 0.000 0.008
#> SRR1026962 1 0.2070 0.7557 0.892 0.000 0.000 0.100 0.000 0.008
#> SRR1026963 1 0.1462 0.7626 0.936 0.000 0.000 0.056 0.000 0.008
#> SRR1026964 4 0.3806 0.7213 0.200 0.048 0.000 0.752 0.000 0.000
#> SRR1026965 4 0.3806 0.7213 0.200 0.048 0.000 0.752 0.000 0.000
#> SRR1026966 3 0.0260 0.8780 0.008 0.000 0.992 0.000 0.000 0.000
#> SRR1026967 3 0.0260 0.8780 0.008 0.000 0.992 0.000 0.000 0.000
#> SRR1026968 4 0.3866 0.7432 0.232 0.024 0.000 0.736 0.000 0.008
#> SRR1026969 4 0.3866 0.7432 0.232 0.024 0.000 0.736 0.000 0.008
#> SRR1026970 4 0.3619 0.7438 0.232 0.024 0.000 0.744 0.000 0.000
#> SRR1026971 4 0.3619 0.7438 0.232 0.024 0.000 0.744 0.000 0.000
#> SRR1026972 4 0.3678 0.7418 0.220 0.024 0.000 0.752 0.000 0.004
#> SRR1026973 4 0.3678 0.7418 0.220 0.024 0.000 0.752 0.000 0.004
#> SRR1026974 4 0.3714 0.7081 0.340 0.000 0.000 0.656 0.000 0.004
#> SRR1026975 4 0.3714 0.7081 0.340 0.000 0.000 0.656 0.000 0.004
#> SRR1026976 4 0.3997 0.7444 0.256 0.012 0.004 0.716 0.000 0.012
#> SRR1026977 4 0.3997 0.7444 0.256 0.012 0.004 0.716 0.000 0.012
#> SRR1026978 4 0.4099 0.6449 0.372 0.016 0.000 0.612 0.000 0.000
#> SRR1026979 3 0.2197 0.8743 0.056 0.000 0.900 0.000 0.000 0.044
#> SRR1026980 4 0.5051 -0.1988 0.028 0.368 0.016 0.576 0.000 0.012
#> SRR1026981 3 0.5390 0.3410 0.012 0.140 0.616 0.232 0.000 0.000
#> SRR1026982 4 0.3813 0.7444 0.236 0.020 0.000 0.736 0.000 0.008
#> SRR1026983 4 0.3813 0.7444 0.236 0.020 0.000 0.736 0.000 0.008
#> SRR1026984 4 0.3813 0.7444 0.236 0.020 0.000 0.736 0.000 0.008
#> SRR1026985 4 0.3813 0.7444 0.236 0.020 0.000 0.736 0.000 0.008
#> SRR1026986 4 0.4186 0.7243 0.312 0.032 0.000 0.656 0.000 0.000
#> SRR1026987 4 0.3955 0.6349 0.384 0.008 0.000 0.608 0.000 0.000
#> SRR1026988 1 0.3292 0.6504 0.824 0.000 0.120 0.004 0.000 0.052
#> SRR1026989 1 0.3752 0.5657 0.776 0.000 0.168 0.004 0.000 0.052
#> SRR1026990 4 0.3742 0.7007 0.348 0.000 0.000 0.648 0.000 0.004
#> SRR1026991 3 0.2070 0.8757 0.048 0.000 0.908 0.000 0.000 0.044
#> SRR1026992 1 0.3515 0.4526 0.676 0.000 0.000 0.324 0.000 0.000
#> SRR1026993 1 0.2848 0.7053 0.816 0.000 0.000 0.176 0.000 0.008
#> SRR1026994 4 0.3784 0.7444 0.236 0.024 0.000 0.736 0.000 0.004
#> SRR1026995 4 0.3784 0.7444 0.236 0.024 0.000 0.736 0.000 0.004
#> SRR1026996 4 0.3806 0.7213 0.200 0.048 0.000 0.752 0.000 0.000
#> SRR1026997 4 0.3806 0.7213 0.200 0.048 0.000 0.752 0.000 0.000
#> SRR1026998 3 0.0260 0.8780 0.008 0.000 0.992 0.000 0.000 0.000
#> SRR1026999 3 0.0260 0.8780 0.008 0.000 0.992 0.000 0.000 0.000
#> SRR1027000 4 0.3843 0.4800 0.452 0.000 0.000 0.548 0.000 0.000
#> SRR1027001 1 0.3248 0.6532 0.828 0.000 0.116 0.004 0.000 0.052
#> SRR1027002 4 0.3978 0.7364 0.268 0.032 0.000 0.700 0.000 0.000
#> SRR1027003 2 0.4948 0.2947 0.064 0.476 0.000 0.460 0.000 0.000
#> SRR1027004 4 0.4302 0.6589 0.368 0.000 0.004 0.608 0.000 0.020
#> SRR1027005 3 0.1918 0.8320 0.008 0.000 0.904 0.088 0.000 0.000
#> SRR1027006 1 0.3292 0.6504 0.824 0.000 0.120 0.004 0.000 0.052
#> SRR1027007 4 0.4026 0.6867 0.348 0.016 0.000 0.636 0.000 0.000
#> SRR1027008 4 0.3966 0.5015 0.444 0.004 0.000 0.552 0.000 0.000
#> SRR1027009 3 0.2519 0.8682 0.068 0.000 0.884 0.004 0.000 0.044
#> SRR1027010 1 0.2724 0.7491 0.880 0.000 0.064 0.032 0.000 0.024
#> SRR1027011 3 0.2519 0.8682 0.068 0.000 0.884 0.004 0.000 0.044
#> SRR1177668 1 0.1536 0.7522 0.940 0.000 0.016 0.004 0.000 0.040
#> SRR1177667 1 0.2896 0.7309 0.824 0.000 0.000 0.160 0.000 0.016
#> SRR1177669 1 0.3583 0.6928 0.820 0.000 0.108 0.032 0.000 0.040
#> SRR1177670 3 0.4024 0.6880 0.220 0.000 0.732 0.004 0.000 0.044
#> SRR1177671 2 0.1765 0.7216 0.000 0.904 0.000 0.096 0.000 0.000
#> SRR1177672 3 0.4237 0.6439 0.244 0.000 0.704 0.004 0.000 0.048
#> SRR1177673 1 0.2240 0.7614 0.908 0.000 0.044 0.032 0.000 0.016
#> SRR1177674 3 0.3941 0.7053 0.208 0.000 0.744 0.004 0.000 0.044
#> SRR1177675 1 0.2234 0.7477 0.872 0.000 0.000 0.124 0.000 0.004
#> SRR1177676 1 0.2209 0.7360 0.904 0.000 0.052 0.004 0.000 0.040
#> SRR1177677 1 0.4184 -0.3251 0.504 0.000 0.000 0.484 0.000 0.012
#> SRR1177678 1 0.1367 0.7676 0.944 0.000 0.000 0.044 0.000 0.012
#> SRR1177679 2 0.1714 0.7243 0.000 0.908 0.000 0.092 0.000 0.000
#> SRR1177680 4 0.4635 -0.3628 0.020 0.444 0.012 0.524 0.000 0.000
#> SRR1177681 4 0.3854 0.4563 0.464 0.000 0.000 0.536 0.000 0.000
#> SRR1177682 4 0.3854 0.4563 0.464 0.000 0.000 0.536 0.000 0.000
#> SRR1177683 2 0.1814 0.7237 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1177684 2 0.1814 0.7237 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1177685 1 0.2714 0.7476 0.848 0.000 0.004 0.136 0.000 0.012
#> SRR1177686 3 0.1918 0.8320 0.008 0.000 0.904 0.088 0.000 0.000
#> SRR1177687 4 0.4635 -0.3628 0.020 0.444 0.012 0.524 0.000 0.000
#> SRR1177688 4 0.3872 0.6444 0.392 0.000 0.000 0.604 0.000 0.004
#> SRR1177689 4 0.3955 0.5171 0.436 0.004 0.000 0.560 0.000 0.000
#> SRR1177690 1 0.3163 0.6493 0.764 0.000 0.000 0.232 0.000 0.004
#> SRR1177691 2 0.1714 0.7243 0.000 0.908 0.000 0.092 0.000 0.000
#> SRR1177692 4 0.4642 -0.3715 0.020 0.452 0.012 0.516 0.000 0.000
#> SRR1177693 2 0.2219 0.8007 0.000 0.864 0.000 0.136 0.000 0.000
#> SRR1177694 2 0.2219 0.8007 0.000 0.864 0.000 0.136 0.000 0.000
#> SRR1177695 4 0.3971 0.4884 0.448 0.004 0.000 0.548 0.000 0.000
#> SRR1177697 1 0.3330 0.5383 0.716 0.000 0.000 0.284 0.000 0.000
#> SRR1177696 4 0.3872 0.6444 0.392 0.000 0.000 0.604 0.000 0.004
#> SRR1177698 3 0.2519 0.8682 0.068 0.000 0.884 0.004 0.000 0.044
#> SRR1177700 4 0.3774 0.7128 0.328 0.000 0.000 0.664 0.000 0.008
#> SRR1177701 4 0.3830 0.6671 0.376 0.004 0.000 0.620 0.000 0.000
#> SRR1177702 6 0.1492 0.0000 0.024 0.000 0.000 0.000 0.036 0.940
#> SRR1177703 4 0.3756 0.6978 0.352 0.000 0.000 0.644 0.000 0.004
#> SRR1177704 4 0.5378 0.0269 0.040 0.024 0.008 0.516 0.000 0.412
#> SRR1177705 4 0.3887 0.6815 0.360 0.008 0.000 0.632 0.000 0.000
#> SRR1177706 2 0.3881 0.5443 0.004 0.600 0.000 0.396 0.000 0.000
#> SRR1177707 4 0.3728 0.7016 0.344 0.000 0.000 0.652 0.000 0.004
#> SRR1177708 4 0.3905 0.6947 0.356 0.000 0.004 0.636 0.000 0.004
#> SRR1177709 1 0.3659 0.7372 0.824 0.000 0.068 0.064 0.000 0.044
#> SRR1177710 1 0.3659 0.7372 0.824 0.000 0.068 0.064 0.000 0.044
#> SRR1177711 1 0.2234 0.7477 0.872 0.000 0.000 0.124 0.000 0.004
#> SRR1177712 4 0.5284 0.0936 0.052 0.016 0.004 0.524 0.000 0.404
#> SRR1177714 2 0.1765 0.7216 0.000 0.904 0.000 0.096 0.000 0.000
#> SRR1177713 5 0.3163 0.7009 0.004 0.000 0.000 0.000 0.764 0.232
#> SRR1177715 2 0.3283 0.7082 0.036 0.804 0.000 0.160 0.000 0.000
#> SRR1177716 3 0.2461 0.8705 0.064 0.000 0.888 0.004 0.000 0.044
#> SRR1177717 1 0.2520 0.7305 0.844 0.000 0.000 0.152 0.000 0.004
#> SRR1177718 1 0.2118 0.7542 0.888 0.000 0.000 0.104 0.000 0.008
#> SRR1177719 4 0.3843 0.5187 0.452 0.000 0.000 0.548 0.000 0.000
#> SRR1177720 3 0.1918 0.8320 0.008 0.000 0.904 0.088 0.000 0.000
#> SRR1177721 2 0.1814 0.7225 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1177722 2 0.1814 0.7225 0.000 0.900 0.000 0.100 0.000 0.000
#> SRR1177723 1 0.2778 0.7160 0.824 0.000 0.000 0.168 0.000 0.008
#> SRR1177725 1 0.2520 0.7305 0.844 0.000 0.000 0.152 0.000 0.004
#> SRR1177724 1 0.2778 0.7160 0.824 0.000 0.000 0.168 0.000 0.008
#> SRR1177726 3 0.2519 0.8682 0.068 0.000 0.884 0.004 0.000 0.044
#> SRR1177727 1 0.1480 0.7598 0.940 0.000 0.000 0.020 0.000 0.040
#> SRR1177728 3 0.2376 0.8696 0.068 0.000 0.888 0.000 0.000 0.044
#> SRR1177729 1 0.2882 0.7041 0.812 0.000 0.000 0.180 0.000 0.008
#> SRR1177730 1 0.4935 -0.2166 0.484 0.000 0.460 0.004 0.000 0.052
#> SRR1177731 1 0.2917 0.7580 0.868 0.000 0.032 0.072 0.000 0.028
#> SRR1177732 1 0.1480 0.7598 0.940 0.000 0.000 0.020 0.000 0.040
#> SRR1177733 4 0.3672 0.6812 0.368 0.000 0.000 0.632 0.000 0.000
#> SRR1177734 4 0.3672 0.6812 0.368 0.000 0.000 0.632 0.000 0.000
#> SRR1177735 4 0.3756 0.6951 0.352 0.000 0.000 0.644 0.000 0.004
#> SRR1177736 4 0.3756 0.6951 0.352 0.000 0.000 0.644 0.000 0.004
#> SRR1177737 2 0.3528 0.7342 0.004 0.700 0.000 0.296 0.000 0.000
#> SRR1177738 3 0.2765 0.8004 0.008 0.008 0.860 0.116 0.000 0.008
#> SRR1177739 4 0.3672 0.6812 0.368 0.000 0.000 0.632 0.000 0.000
#> SRR1177740 4 0.3672 0.6812 0.368 0.000 0.000 0.632 0.000 0.000
#> SRR1177741 1 0.1720 0.7639 0.928 0.000 0.000 0.032 0.000 0.040
#> SRR1177742 3 0.2197 0.8743 0.056 0.000 0.900 0.000 0.000 0.044
#> SRR1177743 1 0.1723 0.7493 0.928 0.000 0.036 0.000 0.000 0.036
#> SRR1177744 1 0.1723 0.7493 0.928 0.000 0.036 0.000 0.000 0.036
#> SRR1177745 4 0.4635 -0.3628 0.020 0.444 0.012 0.524 0.000 0.000
#> SRR1177746 4 0.4635 -0.3628 0.020 0.444 0.012 0.524 0.000 0.000
#> SRR1177747 1 0.2665 0.7512 0.884 0.000 0.060 0.032 0.000 0.024
#> SRR1177748 3 0.2340 0.8733 0.056 0.000 0.896 0.004 0.000 0.044
#> SRR1177749 1 0.2234 0.7477 0.872 0.000 0.000 0.124 0.000 0.004
#> SRR1177750 1 0.3163 0.6493 0.764 0.000 0.000 0.232 0.000 0.004
#> SRR1177751 1 0.3163 0.6493 0.764 0.000 0.000 0.232 0.000 0.004
#> SRR1177752 1 0.3163 0.6493 0.764 0.000 0.000 0.232 0.000 0.004
#> SRR1177753 1 0.2917 0.7580 0.868 0.000 0.032 0.072 0.000 0.028
#> SRR1177754 1 0.2917 0.7580 0.868 0.000 0.032 0.072 0.000 0.028
#> SRR1177755 1 0.2778 0.7138 0.824 0.000 0.000 0.168 0.000 0.008
#> SRR1177756 1 0.3221 0.6000 0.736 0.000 0.000 0.264 0.000 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["MAD", "kmeans"]
# you can also extract it by
# res = res_list["MAD:kmeans"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'MAD' method.
#> Subgroups are detected by 'kmeans' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 2.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.828 0.882 0.954 0.4886 0.508 0.508
#> 3 3 0.655 0.857 0.910 0.2970 0.742 0.541
#> 4 4 0.673 0.747 0.849 0.1420 0.804 0.518
#> 5 5 0.685 0.622 0.753 0.0787 0.932 0.753
#> 6 6 0.672 0.584 0.717 0.0409 0.879 0.540
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 2
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.000 0.93794 0.000 1.000
#> SRR1026871 2 0.000 0.93794 0.000 1.000
#> SRR1026872 2 0.000 0.93794 0.000 1.000
#> SRR1026873 1 0.000 0.95886 1.000 0.000
#> SRR1026874 1 0.000 0.95886 1.000 0.000
#> SRR1026875 2 0.000 0.93794 0.000 1.000
#> SRR1026876 2 0.000 0.93794 0.000 1.000
#> SRR1026877 1 0.722 0.74233 0.800 0.200
#> SRR1026878 1 0.722 0.74233 0.800 0.200
#> SRR1026879 1 0.000 0.95886 1.000 0.000
#> SRR1026880 1 0.000 0.95886 1.000 0.000
#> SRR1026881 2 0.000 0.93794 0.000 1.000
#> SRR1026882 2 0.000 0.93794 0.000 1.000
#> SRR1026883 2 0.000 0.93794 0.000 1.000
#> SRR1026884 2 0.000 0.93794 0.000 1.000
#> SRR1026885 1 1.000 -0.01343 0.500 0.500
#> SRR1026886 2 1.000 -0.00422 0.500 0.500
#> SRR1026887 1 0.224 0.92863 0.964 0.036
#> SRR1026888 1 0.224 0.92863 0.964 0.036
#> SRR1026889 2 0.000 0.93794 0.000 1.000
#> SRR1026890 2 0.000 0.93794 0.000 1.000
#> SRR1026891 1 0.000 0.95886 1.000 0.000
#> SRR1026892 1 0.000 0.95886 1.000 0.000
#> SRR1026893 1 0.141 0.94246 0.980 0.020
#> SRR1026894 1 0.204 0.93216 0.968 0.032
#> SRR1026895 2 0.000 0.93794 0.000 1.000
#> SRR1026896 2 0.000 0.93794 0.000 1.000
#> SRR1026897 1 0.000 0.95886 1.000 0.000
#> SRR1026898 1 0.000 0.95886 1.000 0.000
#> SRR1026899 1 0.000 0.95886 1.000 0.000
#> SRR1026900 2 0.000 0.93794 0.000 1.000
#> SRR1026901 2 0.000 0.93794 0.000 1.000
#> SRR1026902 1 0.895 0.54977 0.688 0.312
#> SRR1026903 1 0.895 0.54977 0.688 0.312
#> SRR1026904 2 0.118 0.92504 0.016 0.984
#> SRR1026905 2 0.118 0.92504 0.016 0.984
#> SRR1026906 2 0.000 0.93794 0.000 1.000
#> SRR1026907 2 0.000 0.93794 0.000 1.000
#> SRR1026908 2 0.000 0.93794 0.000 1.000
#> SRR1026909 2 0.000 0.93794 0.000 1.000
#> SRR1026910 2 0.000 0.93794 0.000 1.000
#> SRR1026911 2 0.000 0.93794 0.000 1.000
#> SRR1026912 2 0.990 0.21103 0.440 0.560
#> SRR1026913 2 0.990 0.21103 0.440 0.560
#> SRR1026914 2 0.000 0.93794 0.000 1.000
#> SRR1026915 2 0.000 0.93794 0.000 1.000
#> SRR1026916 2 0.000 0.93794 0.000 1.000
#> SRR1026917 2 0.000 0.93794 0.000 1.000
#> SRR1026918 2 0.000 0.93794 0.000 1.000
#> SRR1026919 2 0.000 0.93794 0.000 1.000
#> SRR1026920 2 0.000 0.93794 0.000 1.000
#> SRR1026921 2 0.000 0.93794 0.000 1.000
#> SRR1026922 2 0.000 0.93794 0.000 1.000
#> SRR1026923 2 0.000 0.93794 0.000 1.000
#> SRR1026924 2 0.000 0.93794 0.000 1.000
#> SRR1026925 1 0.584 0.82060 0.860 0.140
#> SRR1026926 2 0.000 0.93794 0.000 1.000
#> SRR1026927 1 0.000 0.95886 1.000 0.000
#> SRR1026928 2 0.000 0.93794 0.000 1.000
#> SRR1026929 1 0.402 0.88627 0.920 0.080
#> SRR1026930 2 0.000 0.93794 0.000 1.000
#> SRR1026931 2 0.000 0.93794 0.000 1.000
#> SRR1026932 2 0.000 0.93794 0.000 1.000
#> SRR1026933 2 0.000 0.93794 0.000 1.000
#> SRR1026934 2 0.000 0.93794 0.000 1.000
#> SRR1026935 2 0.000 0.93794 0.000 1.000
#> SRR1026936 2 0.000 0.93794 0.000 1.000
#> SRR1026937 2 0.000 0.93794 0.000 1.000
#> SRR1026938 2 0.000 0.93794 0.000 1.000
#> SRR1026939 2 0.000 0.93794 0.000 1.000
#> SRR1026940 1 0.000 0.95886 1.000 0.000
#> SRR1026941 1 0.000 0.95886 1.000 0.000
#> SRR1026942 1 0.000 0.95886 1.000 0.000
#> SRR1026943 1 0.000 0.95886 1.000 0.000
#> SRR1026944 1 0.000 0.95886 1.000 0.000
#> SRR1026945 1 0.000 0.95886 1.000 0.000
#> SRR1026947 2 0.000 0.93794 0.000 1.000
#> SRR1026946 2 0.000 0.93794 0.000 1.000
#> SRR1026948 2 0.000 0.93794 0.000 1.000
#> SRR1026949 1 0.795 0.66229 0.760 0.240
#> SRR1026950 1 0.000 0.95886 1.000 0.000
#> SRR1026951 2 0.000 0.93794 0.000 1.000
#> SRR1026952 1 0.000 0.95886 1.000 0.000
#> SRR1026953 1 0.000 0.95886 1.000 0.000
#> SRR1026954 2 0.952 0.39729 0.372 0.628
#> SRR1026955 2 0.000 0.93794 0.000 1.000
#> SRR1026956 1 0.000 0.95886 1.000 0.000
#> SRR1026957 2 0.000 0.93794 0.000 1.000
#> SRR1026958 1 0.000 0.95886 1.000 0.000
#> SRR1026959 2 0.000 0.93794 0.000 1.000
#> SRR1026960 2 0.000 0.93794 0.000 1.000
#> SRR1026961 2 0.000 0.93794 0.000 1.000
#> SRR1026962 1 0.000 0.95886 1.000 0.000
#> SRR1026963 1 0.000 0.95886 1.000 0.000
#> SRR1026964 2 0.000 0.93794 0.000 1.000
#> SRR1026965 2 0.000 0.93794 0.000 1.000
#> SRR1026966 1 0.000 0.95886 1.000 0.000
#> SRR1026967 1 0.000 0.95886 1.000 0.000
#> SRR1026968 2 0.000 0.93794 0.000 1.000
#> SRR1026969 2 0.963 0.35825 0.388 0.612
#> SRR1026970 1 0.913 0.51564 0.672 0.328
#> SRR1026971 1 0.913 0.51564 0.672 0.328
#> SRR1026972 2 1.000 0.01235 0.496 0.504
#> SRR1026973 2 1.000 0.01235 0.496 0.504
#> SRR1026974 1 0.000 0.95886 1.000 0.000
#> SRR1026975 1 0.000 0.95886 1.000 0.000
#> SRR1026976 1 0.998 0.09835 0.528 0.472
#> SRR1026977 1 0.998 0.09835 0.528 0.472
#> SRR1026978 2 0.634 0.78303 0.160 0.840
#> SRR1026979 1 0.000 0.95886 1.000 0.000
#> SRR1026980 2 0.000 0.93794 0.000 1.000
#> SRR1026981 1 0.000 0.95886 1.000 0.000
#> SRR1026982 2 0.000 0.93794 0.000 1.000
#> SRR1026983 2 0.000 0.93794 0.000 1.000
#> SRR1026984 2 0.000 0.93794 0.000 1.000
#> SRR1026985 2 0.000 0.93794 0.000 1.000
#> SRR1026986 2 0.358 0.87773 0.068 0.932
#> SRR1026987 1 0.000 0.95886 1.000 0.000
#> SRR1026988 1 0.000 0.95886 1.000 0.000
#> SRR1026989 1 0.000 0.95886 1.000 0.000
#> SRR1026990 2 0.999 0.05904 0.484 0.516
#> SRR1026991 1 0.000 0.95886 1.000 0.000
#> SRR1026992 1 0.000 0.95886 1.000 0.000
#> SRR1026993 1 0.000 0.95886 1.000 0.000
#> SRR1026994 2 0.000 0.93794 0.000 1.000
#> SRR1026995 1 0.000 0.95886 1.000 0.000
#> SRR1026996 2 0.987 0.23586 0.432 0.568
#> SRR1026997 2 0.987 0.23586 0.432 0.568
#> SRR1026998 1 0.722 0.74233 0.800 0.200
#> SRR1026999 1 0.722 0.74233 0.800 0.200
#> SRR1027000 1 0.000 0.95886 1.000 0.000
#> SRR1027001 1 0.000 0.95886 1.000 0.000
#> SRR1027002 2 0.494 0.83700 0.108 0.892
#> SRR1027003 2 0.662 0.76253 0.172 0.828
#> SRR1027004 1 0.000 0.95886 1.000 0.000
#> SRR1027005 1 0.000 0.95886 1.000 0.000
#> SRR1027006 1 0.000 0.95886 1.000 0.000
#> SRR1027007 2 0.895 0.55376 0.312 0.688
#> SRR1027008 1 0.000 0.95886 1.000 0.000
#> SRR1027009 1 0.000 0.95886 1.000 0.000
#> SRR1027010 1 0.000 0.95886 1.000 0.000
#> SRR1027011 1 0.000 0.95886 1.000 0.000
#> SRR1177668 1 0.000 0.95886 1.000 0.000
#> SRR1177667 1 0.000 0.95886 1.000 0.000
#> SRR1177669 1 0.000 0.95886 1.000 0.000
#> SRR1177670 1 0.000 0.95886 1.000 0.000
#> SRR1177671 2 0.000 0.93794 0.000 1.000
#> SRR1177672 1 0.000 0.95886 1.000 0.000
#> SRR1177673 1 0.000 0.95886 1.000 0.000
#> SRR1177674 1 0.000 0.95886 1.000 0.000
#> SRR1177675 1 0.000 0.95886 1.000 0.000
#> SRR1177676 1 0.000 0.95886 1.000 0.000
#> SRR1177677 1 0.000 0.95886 1.000 0.000
#> SRR1177678 1 0.000 0.95886 1.000 0.000
#> SRR1177679 2 0.000 0.93794 0.000 1.000
#> SRR1177680 2 0.000 0.93794 0.000 1.000
#> SRR1177681 1 0.000 0.95886 1.000 0.000
#> SRR1177682 1 0.000 0.95886 1.000 0.000
#> SRR1177683 2 0.000 0.93794 0.000 1.000
#> SRR1177684 2 0.000 0.93794 0.000 1.000
#> SRR1177685 1 0.000 0.95886 1.000 0.000
#> SRR1177686 1 0.000 0.95886 1.000 0.000
#> SRR1177687 2 0.000 0.93794 0.000 1.000
#> SRR1177688 1 0.000 0.95886 1.000 0.000
#> SRR1177689 2 0.833 0.63806 0.264 0.736
#> SRR1177690 1 0.000 0.95886 1.000 0.000
#> SRR1177691 2 0.000 0.93794 0.000 1.000
#> SRR1177692 2 0.000 0.93794 0.000 1.000
#> SRR1177693 2 0.000 0.93794 0.000 1.000
#> SRR1177694 2 0.000 0.93794 0.000 1.000
#> SRR1177695 1 0.000 0.95886 1.000 0.000
#> SRR1177697 1 0.000 0.95886 1.000 0.000
#> SRR1177696 1 0.000 0.95886 1.000 0.000
#> SRR1177698 1 0.000 0.95886 1.000 0.000
#> SRR1177700 1 0.000 0.95886 1.000 0.000
#> SRR1177701 1 0.000 0.95886 1.000 0.000
#> SRR1177702 1 0.000 0.95886 1.000 0.000
#> SRR1177703 1 0.000 0.95886 1.000 0.000
#> SRR1177704 1 0.767 0.70741 0.776 0.224
#> SRR1177705 1 0.000 0.95886 1.000 0.000
#> SRR1177706 2 0.000 0.93794 0.000 1.000
#> SRR1177707 1 0.000 0.95886 1.000 0.000
#> SRR1177708 1 0.000 0.95886 1.000 0.000
#> SRR1177709 1 0.000 0.95886 1.000 0.000
#> SRR1177710 1 0.000 0.95886 1.000 0.000
#> SRR1177711 1 0.000 0.95886 1.000 0.000
#> SRR1177712 1 0.494 0.85695 0.892 0.108
#> SRR1177714 2 0.000 0.93794 0.000 1.000
#> SRR1177713 1 0.000 0.95886 1.000 0.000
#> SRR1177715 2 0.000 0.93794 0.000 1.000
#> SRR1177716 1 0.000 0.95886 1.000 0.000
#> SRR1177717 1 0.000 0.95886 1.000 0.000
#> SRR1177718 1 0.000 0.95886 1.000 0.000
#> SRR1177719 1 0.000 0.95886 1.000 0.000
#> SRR1177720 1 0.595 0.81580 0.856 0.144
#> SRR1177721 2 0.000 0.93794 0.000 1.000
#> SRR1177722 2 0.000 0.93794 0.000 1.000
#> SRR1177723 1 0.000 0.95886 1.000 0.000
#> SRR1177725 1 0.000 0.95886 1.000 0.000
#> SRR1177724 1 0.000 0.95886 1.000 0.000
#> SRR1177726 1 0.000 0.95886 1.000 0.000
#> SRR1177727 1 0.000 0.95886 1.000 0.000
#> SRR1177728 1 0.000 0.95886 1.000 0.000
#> SRR1177729 1 0.000 0.95886 1.000 0.000
#> SRR1177730 1 0.000 0.95886 1.000 0.000
#> SRR1177731 1 0.000 0.95886 1.000 0.000
#> SRR1177732 1 0.000 0.95886 1.000 0.000
#> SRR1177733 1 0.000 0.95886 1.000 0.000
#> SRR1177734 1 0.000 0.95886 1.000 0.000
#> SRR1177735 1 0.943 0.40814 0.640 0.360
#> SRR1177736 1 0.000 0.95886 1.000 0.000
#> SRR1177737 2 0.000 0.93794 0.000 1.000
#> SRR1177738 2 0.000 0.93794 0.000 1.000
#> SRR1177739 1 0.000 0.95886 1.000 0.000
#> SRR1177740 1 0.000 0.95886 1.000 0.000
#> SRR1177741 1 0.000 0.95886 1.000 0.000
#> SRR1177742 1 0.000 0.95886 1.000 0.000
#> SRR1177743 1 0.000 0.95886 1.000 0.000
#> SRR1177744 1 0.000 0.95886 1.000 0.000
#> SRR1177745 2 0.000 0.93794 0.000 1.000
#> SRR1177746 2 0.000 0.93794 0.000 1.000
#> SRR1177747 1 0.000 0.95886 1.000 0.000
#> SRR1177748 1 0.000 0.95886 1.000 0.000
#> SRR1177749 1 0.000 0.95886 1.000 0.000
#> SRR1177750 1 0.000 0.95886 1.000 0.000
#> SRR1177751 1 0.000 0.95886 1.000 0.000
#> SRR1177752 1 0.000 0.95886 1.000 0.000
#> SRR1177753 1 0.000 0.95886 1.000 0.000
#> SRR1177754 1 0.000 0.95886 1.000 0.000
#> SRR1177755 1 0.000 0.95886 1.000 0.000
#> SRR1177756 1 0.000 0.95886 1.000 0.000
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026873 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026874 3 0.6111 0.505 0.396 0.000 0.604
#> SRR1026875 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026877 3 0.1989 0.884 0.048 0.004 0.948
#> SRR1026878 3 0.1989 0.884 0.048 0.004 0.948
#> SRR1026879 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026880 1 0.2448 0.832 0.924 0.000 0.076
#> SRR1026881 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026883 2 0.5319 0.856 0.072 0.824 0.104
#> SRR1026884 2 0.5319 0.856 0.072 0.824 0.104
#> SRR1026885 1 0.7027 0.696 0.724 0.172 0.104
#> SRR1026886 1 0.7027 0.696 0.724 0.172 0.104
#> SRR1026887 3 0.1860 0.887 0.052 0.000 0.948
#> SRR1026888 3 0.1860 0.887 0.052 0.000 0.948
#> SRR1026889 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026890 2 0.5319 0.856 0.072 0.824 0.104
#> SRR1026891 1 0.2959 0.858 0.900 0.000 0.100
#> SRR1026892 1 0.2959 0.858 0.900 0.000 0.100
#> SRR1026893 3 0.1860 0.887 0.052 0.000 0.948
#> SRR1026894 3 0.1860 0.887 0.052 0.000 0.948
#> SRR1026895 2 0.5319 0.856 0.072 0.824 0.104
#> SRR1026896 2 0.5319 0.856 0.072 0.824 0.104
#> SRR1026897 3 0.5363 0.727 0.276 0.000 0.724
#> SRR1026898 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026899 1 0.3116 0.795 0.892 0.000 0.108
#> SRR1026900 2 0.2173 0.909 0.008 0.944 0.048
#> SRR1026901 2 0.4921 0.867 0.072 0.844 0.084
#> SRR1026902 1 0.6752 0.716 0.744 0.152 0.104
#> SRR1026903 1 0.6752 0.716 0.744 0.152 0.104
#> SRR1026904 2 0.6383 0.808 0.128 0.768 0.104
#> SRR1026905 2 0.6383 0.808 0.128 0.768 0.104
#> SRR1026906 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026910 2 0.6383 0.808 0.128 0.768 0.104
#> SRR1026911 2 0.6383 0.808 0.128 0.768 0.104
#> SRR1026912 3 0.2187 0.865 0.028 0.024 0.948
#> SRR1026913 3 0.2187 0.865 0.028 0.024 0.948
#> SRR1026914 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026918 2 0.2486 0.905 0.008 0.932 0.060
#> SRR1026919 2 0.2486 0.905 0.008 0.932 0.060
#> SRR1026920 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026924 2 0.5319 0.856 0.072 0.824 0.104
#> SRR1026925 3 0.1860 0.887 0.052 0.000 0.948
#> SRR1026926 2 0.5319 0.856 0.072 0.824 0.104
#> SRR1026927 1 0.2959 0.858 0.900 0.000 0.100
#> SRR1026928 2 0.4075 0.883 0.072 0.880 0.048
#> SRR1026929 3 0.1860 0.887 0.052 0.000 0.948
#> SRR1026930 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026931 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026936 2 0.6317 0.812 0.124 0.772 0.104
#> SRR1026937 2 0.6317 0.812 0.124 0.772 0.104
#> SRR1026938 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026940 1 0.2448 0.873 0.924 0.000 0.076
#> SRR1026941 3 0.3116 0.903 0.108 0.000 0.892
#> SRR1026942 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026943 1 0.1860 0.884 0.948 0.000 0.052
#> SRR1026944 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026945 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1026947 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026949 1 0.2866 0.871 0.916 0.008 0.076
#> SRR1026950 1 0.0000 0.897 1.000 0.000 0.000
#> SRR1026951 2 0.6031 0.825 0.116 0.788 0.096
#> SRR1026952 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026953 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1026954 1 0.8132 0.500 0.612 0.284 0.104
#> SRR1026955 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026956 1 0.2261 0.877 0.932 0.000 0.068
#> SRR1026957 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026958 1 0.1163 0.892 0.972 0.000 0.028
#> SRR1026959 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1026960 1 0.6810 0.686 0.720 0.212 0.068
#> SRR1026961 2 0.4749 0.870 0.072 0.852 0.076
#> SRR1026962 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026963 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026964 2 0.6383 0.808 0.128 0.768 0.104
#> SRR1026965 2 0.6383 0.808 0.128 0.768 0.104
#> SRR1026966 3 0.1860 0.892 0.052 0.000 0.948
#> SRR1026967 3 0.1860 0.892 0.052 0.000 0.948
#> SRR1026968 2 0.6309 0.811 0.128 0.772 0.100
#> SRR1026969 1 0.7079 0.691 0.720 0.176 0.104
#> SRR1026970 1 0.3193 0.856 0.896 0.004 0.100
#> SRR1026971 1 0.3193 0.856 0.896 0.004 0.100
#> SRR1026972 1 0.6955 0.700 0.728 0.172 0.100
#> SRR1026973 1 0.6955 0.700 0.728 0.172 0.100
#> SRR1026974 1 0.1643 0.887 0.956 0.000 0.044
#> SRR1026975 1 0.1643 0.887 0.956 0.000 0.044
#> SRR1026976 1 0.6974 0.700 0.728 0.168 0.104
#> SRR1026977 1 0.6974 0.700 0.728 0.168 0.104
#> SRR1026978 1 0.3369 0.865 0.908 0.040 0.052
#> SRR1026979 3 0.3482 0.903 0.128 0.000 0.872
#> SRR1026980 2 0.4921 0.867 0.072 0.844 0.084
#> SRR1026981 3 0.1860 0.887 0.052 0.000 0.948
#> SRR1026982 2 0.6374 0.807 0.132 0.768 0.100
#> SRR1026983 2 0.6374 0.807 0.132 0.768 0.100
#> SRR1026984 2 0.4179 0.881 0.072 0.876 0.052
#> SRR1026985 2 0.4179 0.881 0.072 0.876 0.052
#> SRR1026986 1 0.3947 0.844 0.884 0.076 0.040
#> SRR1026987 1 0.1860 0.884 0.948 0.000 0.052
#> SRR1026988 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026989 3 0.3752 0.901 0.144 0.000 0.856
#> SRR1026990 1 0.6902 0.705 0.732 0.168 0.100
#> SRR1026991 3 0.2066 0.894 0.060 0.000 0.940
#> SRR1026992 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026993 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1026994 1 0.8117 0.322 0.552 0.372 0.076
#> SRR1026995 1 0.0592 0.896 0.988 0.000 0.012
#> SRR1026996 1 0.8332 0.421 0.580 0.316 0.104
#> SRR1026997 1 0.8332 0.421 0.580 0.316 0.104
#> SRR1026998 3 0.1989 0.884 0.048 0.004 0.948
#> SRR1026999 3 0.1989 0.884 0.048 0.004 0.948
#> SRR1027000 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1027001 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1027002 1 0.5470 0.755 0.796 0.168 0.036
#> SRR1027003 2 0.7291 0.453 0.356 0.604 0.040
#> SRR1027004 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1027005 3 0.3116 0.903 0.108 0.000 0.892
#> SRR1027006 1 0.3686 0.783 0.860 0.000 0.140
#> SRR1027007 1 0.2982 0.873 0.920 0.024 0.056
#> SRR1027008 1 0.0000 0.897 1.000 0.000 0.000
#> SRR1027009 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1027010 3 0.6180 0.529 0.416 0.000 0.584
#> SRR1027011 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177668 1 0.3816 0.739 0.852 0.000 0.148
#> SRR1177667 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177669 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177670 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177671 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177672 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177673 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177674 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177675 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177676 3 0.5859 0.671 0.344 0.000 0.656
#> SRR1177677 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177678 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177679 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177680 2 0.2063 0.910 0.008 0.948 0.044
#> SRR1177681 1 0.0000 0.897 1.000 0.000 0.000
#> SRR1177682 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177683 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177685 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177686 3 0.3192 0.903 0.112 0.000 0.888
#> SRR1177687 2 0.2063 0.910 0.008 0.948 0.044
#> SRR1177688 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177689 1 0.3134 0.871 0.916 0.032 0.052
#> SRR1177690 1 0.0000 0.897 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177692 2 0.2680 0.902 0.008 0.924 0.068
#> SRR1177693 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177695 1 0.0000 0.897 1.000 0.000 0.000
#> SRR1177697 1 0.0000 0.897 1.000 0.000 0.000
#> SRR1177696 1 0.0892 0.892 0.980 0.000 0.020
#> SRR1177698 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177700 1 0.2625 0.869 0.916 0.000 0.084
#> SRR1177701 1 0.2448 0.873 0.924 0.000 0.076
#> SRR1177702 1 0.6111 0.207 0.604 0.000 0.396
#> SRR1177703 1 0.2066 0.881 0.940 0.000 0.060
#> SRR1177704 3 0.7878 0.556 0.160 0.172 0.668
#> SRR1177705 1 0.1860 0.884 0.948 0.000 0.052
#> SRR1177706 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177707 1 0.1964 0.883 0.944 0.000 0.056
#> SRR1177708 1 0.3038 0.855 0.896 0.000 0.104
#> SRR1177709 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177710 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177711 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177712 1 0.3715 0.845 0.868 0.004 0.128
#> SRR1177714 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177713 3 0.6204 0.434 0.424 0.000 0.576
#> SRR1177715 2 0.4483 0.815 0.128 0.848 0.024
#> SRR1177716 3 0.3116 0.903 0.108 0.000 0.892
#> SRR1177717 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177718 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177719 1 0.0237 0.897 0.996 0.000 0.004
#> SRR1177720 3 0.1860 0.887 0.052 0.000 0.948
#> SRR1177721 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.923 0.000 1.000 0.000
#> SRR1177723 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177725 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177724 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177726 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177727 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177728 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177729 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177730 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177731 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177732 1 0.3038 0.800 0.896 0.000 0.104
#> SRR1177733 1 0.1964 0.883 0.944 0.000 0.056
#> SRR1177734 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177735 1 0.2866 0.871 0.916 0.008 0.076
#> SRR1177736 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177737 2 0.1163 0.916 0.000 0.972 0.028
#> SRR1177738 3 0.2063 0.842 0.008 0.044 0.948
#> SRR1177739 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177740 1 0.1860 0.884 0.948 0.000 0.052
#> SRR1177741 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177742 3 0.3752 0.901 0.144 0.000 0.856
#> SRR1177743 1 0.3116 0.795 0.892 0.000 0.108
#> SRR1177744 3 0.3816 0.900 0.148 0.000 0.852
#> SRR1177745 2 0.2584 0.904 0.008 0.928 0.064
#> SRR1177746 2 0.2063 0.910 0.008 0.948 0.044
#> SRR1177747 3 0.3340 0.903 0.120 0.000 0.880
#> SRR1177748 3 0.3551 0.903 0.132 0.000 0.868
#> SRR1177749 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177750 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177751 1 0.0000 0.897 1.000 0.000 0.000
#> SRR1177752 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177753 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177754 1 0.2796 0.815 0.908 0.000 0.092
#> SRR1177755 1 0.0424 0.897 0.992 0.000 0.008
#> SRR1177756 1 0.0000 0.897 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026871 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026872 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026873 1 0.0927 0.86112 0.976 0.000 0.016 0.008
#> SRR1026874 3 0.6532 0.18124 0.420 0.000 0.504 0.076
#> SRR1026875 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1026876 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1026877 3 0.3074 0.87787 0.000 0.000 0.848 0.152
#> SRR1026878 3 0.3074 0.87787 0.000 0.000 0.848 0.152
#> SRR1026879 1 0.2329 0.82221 0.916 0.000 0.072 0.012
#> SRR1026880 1 0.2944 0.77256 0.868 0.000 0.128 0.004
#> SRR1026881 2 0.2704 0.84490 0.000 0.876 0.000 0.124
#> SRR1026882 2 0.2530 0.85809 0.000 0.888 0.000 0.112
#> SRR1026883 4 0.3933 0.74625 0.004 0.196 0.004 0.796
#> SRR1026884 4 0.3933 0.74625 0.004 0.196 0.004 0.796
#> SRR1026885 4 0.4370 0.76032 0.148 0.040 0.004 0.808
#> SRR1026886 4 0.4370 0.76032 0.148 0.040 0.004 0.808
#> SRR1026887 3 0.3123 0.87610 0.000 0.000 0.844 0.156
#> SRR1026888 3 0.3123 0.87610 0.000 0.000 0.844 0.156
#> SRR1026889 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1026890 4 0.3933 0.74625 0.004 0.196 0.004 0.796
#> SRR1026891 4 0.4936 0.50324 0.372 0.000 0.004 0.624
#> SRR1026892 4 0.4936 0.50324 0.372 0.000 0.004 0.624
#> SRR1026893 3 0.3074 0.87787 0.000 0.000 0.848 0.152
#> SRR1026894 3 0.3074 0.87787 0.000 0.000 0.848 0.152
#> SRR1026895 4 0.3933 0.74625 0.004 0.196 0.004 0.796
#> SRR1026896 4 0.3933 0.74625 0.004 0.196 0.004 0.796
#> SRR1026897 3 0.6052 0.51796 0.284 0.000 0.640 0.076
#> SRR1026898 1 0.0188 0.86691 0.996 0.000 0.000 0.004
#> SRR1026899 1 0.3300 0.75609 0.848 0.000 0.144 0.008
#> SRR1026900 4 0.4905 0.51376 0.004 0.364 0.000 0.632
#> SRR1026901 4 0.4188 0.69736 0.004 0.244 0.000 0.752
#> SRR1026902 4 0.4239 0.75283 0.160 0.028 0.004 0.808
#> SRR1026903 4 0.4239 0.75283 0.160 0.028 0.004 0.808
#> SRR1026904 4 0.3892 0.74887 0.004 0.192 0.004 0.800
#> SRR1026905 4 0.3892 0.74887 0.004 0.192 0.004 0.800
#> SRR1026906 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026907 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026908 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026909 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026910 4 0.3710 0.74798 0.004 0.192 0.000 0.804
#> SRR1026911 4 0.3710 0.74798 0.004 0.192 0.000 0.804
#> SRR1026912 3 0.3400 0.86006 0.000 0.000 0.820 0.180
#> SRR1026913 3 0.3400 0.86006 0.000 0.000 0.820 0.180
#> SRR1026914 2 0.2081 0.88401 0.000 0.916 0.000 0.084
#> SRR1026915 2 0.2081 0.88401 0.000 0.916 0.000 0.084
#> SRR1026916 2 0.2081 0.88401 0.000 0.916 0.000 0.084
#> SRR1026917 2 0.2081 0.88401 0.000 0.916 0.000 0.084
#> SRR1026918 4 0.3801 0.72734 0.000 0.220 0.000 0.780
#> SRR1026919 4 0.3801 0.72734 0.000 0.220 0.000 0.780
#> SRR1026920 2 0.2868 0.83085 0.000 0.864 0.000 0.136
#> SRR1026921 2 0.2868 0.83085 0.000 0.864 0.000 0.136
#> SRR1026922 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026923 2 0.2216 0.85893 0.000 0.908 0.000 0.092
#> SRR1026924 4 0.3933 0.74625 0.004 0.196 0.004 0.796
#> SRR1026925 3 0.3074 0.87787 0.000 0.000 0.848 0.152
#> SRR1026926 4 0.3933 0.74625 0.004 0.196 0.004 0.796
#> SRR1026927 4 0.4889 0.52514 0.360 0.000 0.004 0.636
#> SRR1026928 4 0.3837 0.72437 0.000 0.224 0.000 0.776
#> SRR1026929 3 0.3074 0.87787 0.000 0.000 0.848 0.152
#> SRR1026930 2 0.5158 -0.07852 0.004 0.524 0.000 0.472
#> SRR1026931 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026932 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1026933 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1026934 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026935 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026936 4 0.3892 0.74887 0.004 0.192 0.004 0.800
#> SRR1026937 4 0.3892 0.74887 0.004 0.192 0.004 0.800
#> SRR1026938 2 0.1302 0.91051 0.000 0.956 0.000 0.044
#> SRR1026939 2 0.1302 0.91051 0.000 0.956 0.000 0.044
#> SRR1026940 4 0.4331 0.63462 0.288 0.000 0.000 0.712
#> SRR1026941 3 0.2796 0.88723 0.016 0.000 0.892 0.092
#> SRR1026942 1 0.0707 0.86893 0.980 0.000 0.000 0.020
#> SRR1026943 1 0.4406 0.49028 0.700 0.000 0.000 0.300
#> SRR1026944 1 0.0707 0.86839 0.980 0.000 0.000 0.020
#> SRR1026945 3 0.1209 0.88378 0.032 0.000 0.964 0.004
#> SRR1026947 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1026946 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1026948 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1026949 4 0.3837 0.70600 0.224 0.000 0.000 0.776
#> SRR1026950 1 0.2868 0.76619 0.864 0.000 0.000 0.136
#> SRR1026951 4 0.3668 0.74688 0.004 0.188 0.000 0.808
#> SRR1026952 1 0.0707 0.86839 0.980 0.000 0.000 0.020
#> SRR1026953 3 0.1109 0.88493 0.028 0.000 0.968 0.004
#> SRR1026954 4 0.4439 0.76431 0.140 0.048 0.004 0.808
#> SRR1026955 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1026956 4 0.4855 0.44612 0.400 0.000 0.000 0.600
#> SRR1026957 2 0.1211 0.91136 0.000 0.960 0.000 0.040
#> SRR1026958 1 0.3444 0.70401 0.816 0.000 0.000 0.184
#> SRR1026959 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.4136 0.72985 0.196 0.016 0.000 0.788
#> SRR1026961 4 0.3610 0.74063 0.000 0.200 0.000 0.800
#> SRR1026962 1 0.0592 0.86857 0.984 0.000 0.000 0.016
#> SRR1026963 1 0.0927 0.86112 0.976 0.000 0.016 0.008
#> SRR1026964 4 0.3892 0.74887 0.004 0.192 0.004 0.800
#> SRR1026965 4 0.3892 0.74887 0.004 0.192 0.004 0.800
#> SRR1026966 3 0.2831 0.88387 0.004 0.000 0.876 0.120
#> SRR1026967 3 0.2831 0.88387 0.004 0.000 0.876 0.120
#> SRR1026968 4 0.3710 0.74798 0.004 0.192 0.000 0.804
#> SRR1026969 4 0.4050 0.74936 0.168 0.024 0.000 0.808
#> SRR1026970 4 0.4889 0.52328 0.360 0.000 0.004 0.636
#> SRR1026971 4 0.4889 0.52328 0.360 0.000 0.004 0.636
#> SRR1026972 4 0.5733 0.58664 0.324 0.036 0.004 0.636
#> SRR1026973 4 0.5733 0.58664 0.324 0.036 0.004 0.636
#> SRR1026974 1 0.4981 -0.00907 0.536 0.000 0.000 0.464
#> SRR1026975 1 0.4981 -0.00907 0.536 0.000 0.000 0.464
#> SRR1026976 4 0.4370 0.76032 0.148 0.040 0.004 0.808
#> SRR1026977 4 0.4370 0.76032 0.148 0.040 0.004 0.808
#> SRR1026978 1 0.4730 0.33903 0.636 0.000 0.000 0.364
#> SRR1026979 3 0.0779 0.88728 0.016 0.000 0.980 0.004
#> SRR1026980 4 0.4252 0.68782 0.004 0.252 0.000 0.744
#> SRR1026981 3 0.2868 0.88020 0.000 0.000 0.864 0.136
#> SRR1026982 4 0.4199 0.75741 0.032 0.164 0.000 0.804
#> SRR1026983 4 0.4199 0.75741 0.032 0.164 0.000 0.804
#> SRR1026984 4 0.3764 0.73138 0.000 0.216 0.000 0.784
#> SRR1026985 4 0.3764 0.73138 0.000 0.216 0.000 0.784
#> SRR1026986 1 0.4905 0.33513 0.632 0.004 0.000 0.364
#> SRR1026987 1 0.4776 0.30285 0.624 0.000 0.000 0.376
#> SRR1026988 1 0.2198 0.82877 0.920 0.000 0.072 0.008
#> SRR1026989 3 0.1411 0.88837 0.020 0.000 0.960 0.020
#> SRR1026990 4 0.4225 0.74138 0.184 0.024 0.000 0.792
#> SRR1026991 3 0.2401 0.88813 0.004 0.000 0.904 0.092
#> SRR1026992 1 0.0707 0.86839 0.980 0.000 0.000 0.020
#> SRR1026993 1 0.0707 0.86893 0.980 0.000 0.000 0.020
#> SRR1026994 4 0.5753 0.68902 0.248 0.072 0.000 0.680
#> SRR1026995 1 0.0921 0.86621 0.972 0.000 0.000 0.028
#> SRR1026996 4 0.4626 0.76902 0.120 0.072 0.004 0.804
#> SRR1026997 4 0.4626 0.76902 0.120 0.072 0.004 0.804
#> SRR1026998 3 0.3074 0.87787 0.000 0.000 0.848 0.152
#> SRR1026999 3 0.3074 0.87787 0.000 0.000 0.848 0.152
#> SRR1027000 1 0.0707 0.86785 0.980 0.000 0.000 0.020
#> SRR1027001 3 0.4699 0.53947 0.320 0.000 0.676 0.004
#> SRR1027002 1 0.5203 0.35368 0.636 0.016 0.000 0.348
#> SRR1027003 4 0.7220 0.54135 0.196 0.260 0.000 0.544
#> SRR1027004 1 0.0817 0.86789 0.976 0.000 0.000 0.024
#> SRR1027005 3 0.2796 0.88723 0.016 0.000 0.892 0.092
#> SRR1027006 1 0.3893 0.70224 0.796 0.000 0.196 0.008
#> SRR1027007 4 0.4907 0.37121 0.420 0.000 0.000 0.580
#> SRR1027008 1 0.0817 0.86681 0.976 0.000 0.000 0.024
#> SRR1027009 3 0.1109 0.88493 0.028 0.000 0.968 0.004
#> SRR1027010 1 0.5295 -0.05315 0.504 0.000 0.488 0.008
#> SRR1027011 3 0.1109 0.88493 0.028 0.000 0.968 0.004
#> SRR1177668 1 0.2944 0.77256 0.868 0.000 0.128 0.004
#> SRR1177667 1 0.0469 0.86869 0.988 0.000 0.000 0.012
#> SRR1177669 3 0.1305 0.88204 0.036 0.000 0.960 0.004
#> SRR1177670 3 0.1209 0.88378 0.032 0.000 0.964 0.004
#> SRR1177671 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.1209 0.88378 0.032 0.000 0.964 0.004
#> SRR1177673 1 0.2271 0.81708 0.916 0.000 0.076 0.008
#> SRR1177674 3 0.1209 0.88378 0.032 0.000 0.964 0.004
#> SRR1177675 1 0.0336 0.86721 0.992 0.000 0.000 0.008
#> SRR1177676 1 0.4720 0.44053 0.672 0.000 0.324 0.004
#> SRR1177677 1 0.0707 0.86785 0.980 0.000 0.000 0.020
#> SRR1177678 1 0.0188 0.86762 0.996 0.000 0.000 0.004
#> SRR1177679 2 0.0376 0.92548 0.004 0.992 0.000 0.004
#> SRR1177680 4 0.5167 0.17362 0.004 0.488 0.000 0.508
#> SRR1177681 1 0.0817 0.86707 0.976 0.000 0.000 0.024
#> SRR1177682 1 0.1211 0.86008 0.960 0.000 0.000 0.040
#> SRR1177683 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.0336 0.86721 0.992 0.000 0.000 0.008
#> SRR1177686 3 0.2730 0.88761 0.016 0.000 0.896 0.088
#> SRR1177687 4 0.5167 0.17362 0.004 0.488 0.000 0.508
#> SRR1177688 1 0.0817 0.86761 0.976 0.000 0.000 0.024
#> SRR1177689 1 0.4761 0.31630 0.628 0.000 0.000 0.372
#> SRR1177690 1 0.0707 0.86785 0.980 0.000 0.000 0.020
#> SRR1177691 2 0.0376 0.92548 0.004 0.992 0.000 0.004
#> SRR1177692 4 0.5158 0.21993 0.004 0.472 0.000 0.524
#> SRR1177693 2 0.0188 0.92882 0.000 0.996 0.000 0.004
#> SRR1177694 2 0.2011 0.88679 0.000 0.920 0.000 0.080
#> SRR1177695 1 0.1211 0.86008 0.960 0.000 0.000 0.040
#> SRR1177697 1 0.0817 0.86781 0.976 0.000 0.000 0.024
#> SRR1177696 1 0.3239 0.81806 0.880 0.000 0.068 0.052
#> SRR1177698 3 0.1209 0.88378 0.032 0.000 0.964 0.004
#> SRR1177700 4 0.3764 0.71143 0.216 0.000 0.000 0.784
#> SRR1177701 4 0.4746 0.51008 0.368 0.000 0.000 0.632
#> SRR1177702 1 0.6688 0.20955 0.536 0.000 0.368 0.096
#> SRR1177703 4 0.4776 0.49373 0.376 0.000 0.000 0.624
#> SRR1177704 4 0.6637 0.26146 0.036 0.040 0.324 0.600
#> SRR1177705 1 0.4866 0.21283 0.596 0.000 0.000 0.404
#> SRR1177706 2 0.2737 0.82905 0.008 0.888 0.000 0.104
#> SRR1177707 4 0.4730 0.51843 0.364 0.000 0.000 0.636
#> SRR1177708 4 0.4220 0.67637 0.248 0.000 0.004 0.748
#> SRR1177709 1 0.0592 0.86888 0.984 0.000 0.000 0.016
#> SRR1177710 3 0.1109 0.88493 0.028 0.000 0.968 0.004
#> SRR1177711 1 0.0336 0.86721 0.992 0.000 0.000 0.008
#> SRR1177712 4 0.4277 0.62325 0.280 0.000 0.000 0.720
#> SRR1177714 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1177713 3 0.6506 0.05639 0.460 0.000 0.468 0.072
#> SRR1177715 2 0.7139 0.03109 0.140 0.500 0.000 0.360
#> SRR1177716 3 0.2796 0.88723 0.016 0.000 0.892 0.092
#> SRR1177717 1 0.0707 0.86839 0.980 0.000 0.000 0.020
#> SRR1177718 1 0.0336 0.86766 0.992 0.000 0.000 0.008
#> SRR1177719 1 0.1716 0.84052 0.936 0.000 0.000 0.064
#> SRR1177720 3 0.3074 0.87787 0.000 0.000 0.848 0.152
#> SRR1177721 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.92844 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.0707 0.86893 0.980 0.000 0.000 0.020
#> SRR1177725 1 0.0707 0.86839 0.980 0.000 0.000 0.020
#> SRR1177724 1 0.0707 0.86893 0.980 0.000 0.000 0.020
#> SRR1177726 3 0.1109 0.88493 0.028 0.000 0.968 0.004
#> SRR1177727 1 0.1584 0.84773 0.952 0.000 0.036 0.012
#> SRR1177728 3 0.1109 0.88493 0.028 0.000 0.968 0.004
#> SRR1177729 1 0.0707 0.86893 0.980 0.000 0.000 0.020
#> SRR1177730 3 0.3257 0.78498 0.152 0.000 0.844 0.004
#> SRR1177731 1 0.0895 0.85938 0.976 0.000 0.020 0.004
#> SRR1177732 1 0.2944 0.77256 0.868 0.000 0.128 0.004
#> SRR1177733 1 0.4888 0.18367 0.588 0.000 0.000 0.412
#> SRR1177734 1 0.0921 0.86615 0.972 0.000 0.000 0.028
#> SRR1177735 4 0.3907 0.69992 0.232 0.000 0.000 0.768
#> SRR1177736 1 0.0817 0.86789 0.976 0.000 0.000 0.024
#> SRR1177737 4 0.4804 0.48387 0.000 0.384 0.000 0.616
#> SRR1177738 3 0.4454 0.71641 0.000 0.000 0.692 0.308
#> SRR1177739 1 0.0921 0.86615 0.972 0.000 0.000 0.028
#> SRR1177740 1 0.4624 0.39823 0.660 0.000 0.000 0.340
#> SRR1177741 1 0.0188 0.86762 0.996 0.000 0.000 0.004
#> SRR1177742 3 0.0895 0.88604 0.020 0.000 0.976 0.004
#> SRR1177743 1 0.3088 0.77237 0.864 0.000 0.128 0.008
#> SRR1177744 3 0.4905 0.45245 0.364 0.000 0.632 0.004
#> SRR1177745 4 0.5158 0.21993 0.004 0.472 0.000 0.524
#> SRR1177746 2 0.5168 -0.16697 0.004 0.500 0.000 0.496
#> SRR1177747 3 0.0895 0.88604 0.020 0.000 0.976 0.004
#> SRR1177748 3 0.1411 0.88837 0.020 0.000 0.960 0.020
#> SRR1177749 1 0.0336 0.86721 0.992 0.000 0.000 0.008
#> SRR1177750 1 0.0592 0.86866 0.984 0.000 0.000 0.016
#> SRR1177751 1 0.0817 0.86735 0.976 0.000 0.000 0.024
#> SRR1177752 1 0.0707 0.86893 0.980 0.000 0.000 0.020
#> SRR1177753 1 0.0707 0.86893 0.980 0.000 0.000 0.020
#> SRR1177754 1 0.2999 0.76866 0.864 0.000 0.132 0.004
#> SRR1177755 1 0.0817 0.86894 0.976 0.000 0.000 0.024
#> SRR1177756 1 0.0817 0.86735 0.976 0.000 0.000 0.024
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.0798 0.88830 0.000 0.976 0.000 0.016 0.008
#> SRR1026871 2 0.0798 0.88830 0.000 0.976 0.000 0.016 0.008
#> SRR1026872 2 0.0579 0.88907 0.000 0.984 0.000 0.008 0.008
#> SRR1026873 1 0.4582 0.28324 0.572 0.000 0.000 0.012 0.416
#> SRR1026874 5 0.6241 0.51970 0.140 0.000 0.228 0.024 0.608
#> SRR1026875 2 0.1571 0.88317 0.000 0.936 0.000 0.004 0.060
#> SRR1026876 2 0.1571 0.88317 0.000 0.936 0.000 0.004 0.060
#> SRR1026877 3 0.0290 0.82821 0.000 0.000 0.992 0.008 0.000
#> SRR1026878 3 0.0290 0.82821 0.000 0.000 0.992 0.008 0.000
#> SRR1026879 5 0.4440 0.17741 0.468 0.000 0.000 0.004 0.528
#> SRR1026880 5 0.4151 0.56669 0.344 0.000 0.004 0.000 0.652
#> SRR1026881 2 0.4527 0.73462 0.000 0.732 0.000 0.204 0.064
#> SRR1026882 2 0.4429 0.75044 0.000 0.744 0.000 0.192 0.064
#> SRR1026883 4 0.1251 0.77371 0.000 0.036 0.000 0.956 0.008
#> SRR1026884 4 0.1251 0.77371 0.000 0.036 0.000 0.956 0.008
#> SRR1026885 4 0.1571 0.77487 0.060 0.000 0.000 0.936 0.004
#> SRR1026886 4 0.1571 0.77487 0.060 0.000 0.000 0.936 0.004
#> SRR1026887 3 0.1043 0.81125 0.000 0.000 0.960 0.040 0.000
#> SRR1026888 3 0.1043 0.81125 0.000 0.000 0.960 0.040 0.000
#> SRR1026889 2 0.2104 0.87801 0.000 0.916 0.000 0.024 0.060
#> SRR1026890 4 0.1251 0.77371 0.000 0.036 0.000 0.956 0.008
#> SRR1026891 4 0.3852 0.66264 0.220 0.000 0.000 0.760 0.020
#> SRR1026892 4 0.3852 0.66264 0.220 0.000 0.000 0.760 0.020
#> SRR1026893 3 0.0290 0.82821 0.000 0.000 0.992 0.008 0.000
#> SRR1026894 3 0.0290 0.82821 0.000 0.000 0.992 0.008 0.000
#> SRR1026895 4 0.1331 0.77211 0.000 0.040 0.000 0.952 0.008
#> SRR1026896 4 0.1331 0.77211 0.000 0.040 0.000 0.952 0.008
#> SRR1026897 5 0.6563 0.15376 0.116 0.000 0.368 0.024 0.492
#> SRR1026898 1 0.3983 0.37467 0.660 0.000 0.000 0.000 0.340
#> SRR1026899 5 0.3934 0.61678 0.276 0.000 0.008 0.000 0.716
#> SRR1026900 4 0.7822 0.38458 0.276 0.172 0.000 0.444 0.108
#> SRR1026901 4 0.6956 0.53572 0.276 0.096 0.000 0.544 0.084
#> SRR1026902 4 0.1638 0.77383 0.064 0.000 0.000 0.932 0.004
#> SRR1026903 4 0.1638 0.77383 0.064 0.000 0.000 0.932 0.004
#> SRR1026904 4 0.1124 0.77614 0.000 0.036 0.000 0.960 0.004
#> SRR1026905 4 0.1124 0.77614 0.000 0.036 0.000 0.960 0.004
#> SRR1026906 2 0.1740 0.88227 0.000 0.932 0.000 0.012 0.056
#> SRR1026907 2 0.1740 0.88227 0.000 0.932 0.000 0.012 0.056
#> SRR1026908 2 0.0000 0.88858 0.000 1.000 0.000 0.000 0.000
#> SRR1026909 2 0.0000 0.88858 0.000 1.000 0.000 0.000 0.000
#> SRR1026910 4 0.0880 0.77645 0.000 0.032 0.000 0.968 0.000
#> SRR1026911 4 0.0880 0.77645 0.000 0.032 0.000 0.968 0.000
#> SRR1026912 3 0.1671 0.78179 0.000 0.000 0.924 0.076 0.000
#> SRR1026913 3 0.1671 0.78179 0.000 0.000 0.924 0.076 0.000
#> SRR1026914 2 0.3106 0.81849 0.000 0.840 0.000 0.140 0.020
#> SRR1026915 2 0.3106 0.81849 0.000 0.840 0.000 0.140 0.020
#> SRR1026916 2 0.3106 0.81849 0.000 0.840 0.000 0.140 0.020
#> SRR1026917 2 0.3106 0.81849 0.000 0.840 0.000 0.140 0.020
#> SRR1026918 4 0.2853 0.74039 0.000 0.072 0.000 0.876 0.052
#> SRR1026919 4 0.2853 0.74039 0.000 0.072 0.000 0.876 0.052
#> SRR1026920 2 0.4589 0.71940 0.000 0.724 0.000 0.212 0.064
#> SRR1026921 2 0.4589 0.71940 0.000 0.724 0.000 0.212 0.064
#> SRR1026922 2 0.2171 0.87749 0.000 0.912 0.000 0.024 0.064
#> SRR1026923 2 0.4537 0.80426 0.032 0.788 0.000 0.100 0.080
#> SRR1026924 4 0.1251 0.77371 0.000 0.036 0.000 0.956 0.008
#> SRR1026925 3 0.0290 0.82821 0.000 0.000 0.992 0.008 0.000
#> SRR1026926 4 0.1168 0.77520 0.000 0.032 0.000 0.960 0.008
#> SRR1026927 4 0.3630 0.67828 0.204 0.000 0.000 0.780 0.016
#> SRR1026928 4 0.3081 0.73954 0.004 0.072 0.000 0.868 0.056
#> SRR1026929 3 0.0290 0.82821 0.000 0.000 0.992 0.008 0.000
#> SRR1026930 2 0.7875 0.08436 0.160 0.392 0.000 0.340 0.108
#> SRR1026931 2 0.1410 0.88645 0.000 0.940 0.000 0.000 0.060
#> SRR1026932 2 0.1502 0.88338 0.000 0.940 0.000 0.004 0.056
#> SRR1026933 2 0.1502 0.88338 0.000 0.940 0.000 0.004 0.056
#> SRR1026934 2 0.0162 0.88890 0.000 0.996 0.000 0.000 0.004
#> SRR1026935 2 0.0162 0.88890 0.000 0.996 0.000 0.000 0.004
#> SRR1026936 4 0.1041 0.77595 0.000 0.032 0.000 0.964 0.004
#> SRR1026937 4 0.1041 0.77595 0.000 0.032 0.000 0.964 0.004
#> SRR1026938 2 0.2797 0.86438 0.000 0.880 0.000 0.060 0.060
#> SRR1026939 2 0.2797 0.86438 0.000 0.880 0.000 0.060 0.060
#> SRR1026940 4 0.4604 0.48513 0.428 0.000 0.000 0.560 0.012
#> SRR1026941 3 0.1410 0.83514 0.000 0.000 0.940 0.000 0.060
#> SRR1026942 1 0.4165 0.40496 0.672 0.000 0.000 0.008 0.320
#> SRR1026943 1 0.2740 0.51065 0.876 0.000 0.000 0.096 0.028
#> SRR1026944 1 0.4557 0.31767 0.584 0.000 0.000 0.012 0.404
#> SRR1026945 3 0.3966 0.75322 0.000 0.000 0.664 0.000 0.336
#> SRR1026947 2 0.0162 0.88833 0.000 0.996 0.000 0.004 0.000
#> SRR1026946 2 0.0912 0.88846 0.000 0.972 0.000 0.012 0.016
#> SRR1026948 2 0.1638 0.88250 0.000 0.932 0.000 0.004 0.064
#> SRR1026949 4 0.4403 0.55645 0.384 0.000 0.000 0.608 0.008
#> SRR1026950 1 0.3994 0.51780 0.792 0.000 0.000 0.068 0.140
#> SRR1026951 4 0.6325 0.56978 0.296 0.048 0.000 0.580 0.076
#> SRR1026952 1 0.4505 0.34372 0.604 0.000 0.000 0.012 0.384
#> SRR1026953 3 0.3774 0.79156 0.000 0.000 0.704 0.000 0.296
#> SRR1026954 4 0.1799 0.78096 0.028 0.020 0.000 0.940 0.012
#> SRR1026955 2 0.1502 0.88338 0.000 0.940 0.000 0.004 0.056
#> SRR1026956 4 0.4380 0.56400 0.304 0.000 0.000 0.676 0.020
#> SRR1026957 2 0.2863 0.86204 0.000 0.876 0.000 0.064 0.060
#> SRR1026958 1 0.3106 0.49522 0.844 0.000 0.000 0.132 0.024
#> SRR1026959 2 0.1704 0.88173 0.000 0.928 0.000 0.004 0.068
#> SRR1026960 4 0.2953 0.76828 0.100 0.004 0.000 0.868 0.028
#> SRR1026961 4 0.3316 0.74142 0.012 0.072 0.000 0.860 0.056
#> SRR1026962 1 0.4582 0.29673 0.572 0.000 0.000 0.012 0.416
#> SRR1026963 1 0.4597 0.27612 0.564 0.000 0.000 0.012 0.424
#> SRR1026964 4 0.0880 0.77645 0.000 0.032 0.000 0.968 0.000
#> SRR1026965 4 0.0880 0.77645 0.000 0.032 0.000 0.968 0.000
#> SRR1026966 3 0.0000 0.82934 0.000 0.000 1.000 0.000 0.000
#> SRR1026967 3 0.0000 0.82934 0.000 0.000 1.000 0.000 0.000
#> SRR1026968 4 0.2072 0.77448 0.016 0.036 0.000 0.928 0.020
#> SRR1026969 4 0.2158 0.78058 0.052 0.008 0.000 0.920 0.020
#> SRR1026970 4 0.3967 0.63744 0.264 0.000 0.000 0.724 0.012
#> SRR1026971 4 0.3967 0.63744 0.264 0.000 0.000 0.724 0.012
#> SRR1026972 4 0.4096 0.64536 0.260 0.004 0.000 0.724 0.012
#> SRR1026973 4 0.4096 0.64536 0.260 0.004 0.000 0.724 0.012
#> SRR1026974 4 0.5516 0.44987 0.296 0.000 0.000 0.608 0.096
#> SRR1026975 4 0.5516 0.44987 0.296 0.000 0.000 0.608 0.096
#> SRR1026976 4 0.1547 0.78087 0.032 0.016 0.000 0.948 0.004
#> SRR1026977 4 0.1547 0.78087 0.032 0.016 0.000 0.948 0.004
#> SRR1026978 1 0.3791 0.45763 0.812 0.000 0.000 0.112 0.076
#> SRR1026979 3 0.3707 0.79607 0.000 0.000 0.716 0.000 0.284
#> SRR1026980 4 0.7298 0.48669 0.300 0.100 0.000 0.496 0.104
#> SRR1026981 3 0.1571 0.83433 0.000 0.000 0.936 0.004 0.060
#> SRR1026982 4 0.1997 0.77894 0.024 0.028 0.000 0.932 0.016
#> SRR1026983 4 0.1997 0.77894 0.024 0.028 0.000 0.932 0.016
#> SRR1026984 4 0.3209 0.73769 0.004 0.076 0.000 0.860 0.060
#> SRR1026985 4 0.3209 0.73769 0.004 0.076 0.000 0.860 0.060
#> SRR1026986 1 0.3810 0.44558 0.812 0.000 0.000 0.100 0.088
#> SRR1026987 1 0.2964 0.46922 0.856 0.000 0.000 0.120 0.024
#> SRR1026988 5 0.4291 0.16155 0.464 0.000 0.000 0.000 0.536
#> SRR1026989 3 0.3586 0.80263 0.000 0.000 0.736 0.000 0.264
#> SRR1026990 4 0.1952 0.76796 0.084 0.000 0.000 0.912 0.004
#> SRR1026991 3 0.2471 0.82268 0.000 0.000 0.864 0.000 0.136
#> SRR1026992 1 0.4196 0.38490 0.640 0.000 0.000 0.004 0.356
#> SRR1026993 1 0.4387 0.38827 0.640 0.000 0.000 0.012 0.348
#> SRR1026994 1 0.6117 -0.13116 0.548 0.012 0.000 0.336 0.104
#> SRR1026995 1 0.1168 0.53982 0.960 0.000 0.000 0.008 0.032
#> SRR1026996 4 0.1278 0.77920 0.016 0.020 0.000 0.960 0.004
#> SRR1026997 4 0.1278 0.77920 0.016 0.020 0.000 0.960 0.004
#> SRR1026998 3 0.0290 0.82821 0.000 0.000 0.992 0.008 0.000
#> SRR1026999 3 0.0290 0.82821 0.000 0.000 0.992 0.008 0.000
#> SRR1027000 1 0.1965 0.52345 0.904 0.000 0.000 0.000 0.096
#> SRR1027001 5 0.5240 0.59158 0.120 0.000 0.204 0.000 0.676
#> SRR1027002 1 0.4254 0.42889 0.804 0.024 0.000 0.072 0.100
#> SRR1027003 1 0.6646 0.12325 0.612 0.092 0.000 0.196 0.100
#> SRR1027004 1 0.3343 0.51107 0.812 0.000 0.000 0.016 0.172
#> SRR1027005 3 0.1410 0.83514 0.000 0.000 0.940 0.000 0.060
#> SRR1027006 5 0.5204 0.41268 0.392 0.000 0.048 0.000 0.560
#> SRR1027007 1 0.4364 0.32327 0.736 0.000 0.000 0.216 0.048
#> SRR1027008 1 0.0671 0.53870 0.980 0.000 0.000 0.004 0.016
#> SRR1027009 3 0.3774 0.79156 0.000 0.000 0.704 0.000 0.296
#> SRR1027010 5 0.5087 0.63320 0.152 0.000 0.148 0.000 0.700
#> SRR1027011 3 0.3774 0.79156 0.000 0.000 0.704 0.000 0.296
#> SRR1177668 5 0.4341 0.55674 0.364 0.000 0.008 0.000 0.628
#> SRR1177667 1 0.4310 0.32812 0.604 0.000 0.000 0.004 0.392
#> SRR1177669 3 0.4101 0.75655 0.004 0.000 0.664 0.000 0.332
#> SRR1177670 3 0.3913 0.76744 0.000 0.000 0.676 0.000 0.324
#> SRR1177671 2 0.2011 0.87540 0.004 0.908 0.000 0.000 0.088
#> SRR1177672 3 0.3966 0.75402 0.000 0.000 0.664 0.000 0.336
#> SRR1177673 1 0.4533 0.15652 0.544 0.000 0.000 0.008 0.448
#> SRR1177674 3 0.3816 0.78632 0.000 0.000 0.696 0.000 0.304
#> SRR1177675 1 0.4574 0.30000 0.576 0.000 0.000 0.012 0.412
#> SRR1177676 5 0.4430 0.63023 0.256 0.000 0.036 0.000 0.708
#> SRR1177677 1 0.2286 0.52748 0.888 0.000 0.000 0.004 0.108
#> SRR1177678 1 0.4582 0.28324 0.572 0.000 0.000 0.012 0.416
#> SRR1177679 2 0.3291 0.84633 0.040 0.840 0.000 0.000 0.120
#> SRR1177680 4 0.8217 0.18227 0.304 0.244 0.000 0.336 0.116
#> SRR1177681 1 0.0771 0.53841 0.976 0.000 0.000 0.004 0.020
#> SRR1177682 1 0.1628 0.51819 0.936 0.000 0.000 0.008 0.056
#> SRR1177683 2 0.2392 0.87005 0.004 0.888 0.000 0.004 0.104
#> SRR1177684 2 0.2548 0.86843 0.004 0.876 0.000 0.004 0.116
#> SRR1177685 1 0.4574 0.30000 0.576 0.000 0.000 0.012 0.412
#> SRR1177686 3 0.1478 0.83499 0.000 0.000 0.936 0.000 0.064
#> SRR1177687 4 0.8281 0.18362 0.304 0.228 0.000 0.336 0.132
#> SRR1177688 1 0.0671 0.53870 0.980 0.000 0.000 0.004 0.016
#> SRR1177689 1 0.3970 0.42961 0.800 0.000 0.000 0.104 0.096
#> SRR1177690 1 0.1270 0.54053 0.948 0.000 0.000 0.000 0.052
#> SRR1177691 2 0.3705 0.82853 0.064 0.816 0.000 0.000 0.120
#> SRR1177692 4 0.8281 0.18362 0.304 0.228 0.000 0.336 0.132
#> SRR1177693 2 0.0162 0.88833 0.000 0.996 0.000 0.004 0.000
#> SRR1177694 2 0.3736 0.80681 0.000 0.808 0.000 0.140 0.052
#> SRR1177695 1 0.1697 0.51899 0.932 0.000 0.000 0.008 0.060
#> SRR1177697 1 0.2771 0.53194 0.860 0.000 0.000 0.012 0.128
#> SRR1177696 1 0.3443 0.43472 0.840 0.000 0.028 0.012 0.120
#> SRR1177698 3 0.3816 0.78632 0.000 0.000 0.696 0.000 0.304
#> SRR1177700 4 0.4201 0.61993 0.328 0.000 0.000 0.664 0.008
#> SRR1177701 4 0.3980 0.61046 0.284 0.000 0.000 0.708 0.008
#> SRR1177702 1 0.7472 -0.18735 0.432 0.000 0.220 0.048 0.300
#> SRR1177703 4 0.4193 0.59807 0.304 0.000 0.000 0.684 0.012
#> SRR1177704 4 0.8379 0.18568 0.212 0.012 0.312 0.360 0.104
#> SRR1177705 1 0.3318 0.44568 0.800 0.000 0.000 0.192 0.008
#> SRR1177706 2 0.7065 0.40506 0.352 0.448 0.000 0.032 0.168
#> SRR1177707 4 0.4348 0.59535 0.316 0.000 0.000 0.668 0.016
#> SRR1177708 4 0.4108 0.64322 0.308 0.000 0.000 0.684 0.008
#> SRR1177709 1 0.3534 0.46215 0.744 0.000 0.000 0.000 0.256
#> SRR1177710 3 0.3816 0.78632 0.000 0.000 0.696 0.000 0.304
#> SRR1177711 1 0.4597 0.27612 0.564 0.000 0.000 0.012 0.424
#> SRR1177712 4 0.5725 0.40870 0.428 0.000 0.000 0.488 0.084
#> SRR1177714 2 0.1544 0.88163 0.000 0.932 0.000 0.000 0.068
#> SRR1177713 5 0.6437 0.51846 0.152 0.000 0.244 0.024 0.580
#> SRR1177715 1 0.7651 -0.00685 0.496 0.228 0.000 0.136 0.140
#> SRR1177716 3 0.1410 0.83514 0.000 0.000 0.940 0.000 0.060
#> SRR1177717 1 0.4527 0.34144 0.596 0.000 0.000 0.012 0.392
#> SRR1177718 1 0.4582 0.28324 0.572 0.000 0.000 0.012 0.416
#> SRR1177719 1 0.5421 0.39926 0.628 0.000 0.000 0.096 0.276
#> SRR1177720 3 0.0324 0.82765 0.000 0.000 0.992 0.004 0.004
#> SRR1177721 2 0.1704 0.88173 0.000 0.928 0.000 0.004 0.068
#> SRR1177722 2 0.1410 0.88261 0.000 0.940 0.000 0.000 0.060
#> SRR1177723 1 0.4527 0.33453 0.596 0.000 0.000 0.012 0.392
#> SRR1177725 1 0.4547 0.32779 0.588 0.000 0.000 0.012 0.400
#> SRR1177724 1 0.4225 0.37320 0.632 0.000 0.000 0.004 0.364
#> SRR1177726 3 0.3774 0.79156 0.000 0.000 0.704 0.000 0.296
#> SRR1177727 1 0.4582 0.28324 0.572 0.000 0.000 0.012 0.416
#> SRR1177728 3 0.3774 0.79156 0.000 0.000 0.704 0.000 0.296
#> SRR1177729 1 0.4505 0.34652 0.604 0.000 0.000 0.012 0.384
#> SRR1177730 5 0.5083 0.41320 0.068 0.000 0.280 0.000 0.652
#> SRR1177731 1 0.4235 0.27341 0.576 0.000 0.000 0.000 0.424
#> SRR1177732 5 0.4268 0.56913 0.344 0.000 0.008 0.000 0.648
#> SRR1177733 1 0.2848 0.45484 0.840 0.000 0.000 0.156 0.004
#> SRR1177734 1 0.2554 0.53951 0.892 0.000 0.000 0.036 0.072
#> SRR1177735 4 0.4632 0.47284 0.448 0.000 0.000 0.540 0.012
#> SRR1177736 1 0.3734 0.51645 0.796 0.000 0.000 0.036 0.168
#> SRR1177737 4 0.5642 0.39580 0.016 0.312 0.000 0.608 0.064
#> SRR1177738 3 0.2719 0.70311 0.000 0.000 0.852 0.144 0.004
#> SRR1177739 1 0.2676 0.54001 0.884 0.000 0.000 0.036 0.080
#> SRR1177740 1 0.2179 0.49531 0.896 0.000 0.000 0.100 0.004
#> SRR1177741 1 0.4350 0.30275 0.588 0.000 0.000 0.004 0.408
#> SRR1177742 3 0.3774 0.79156 0.000 0.000 0.704 0.000 0.296
#> SRR1177743 5 0.4235 0.57456 0.336 0.000 0.008 0.000 0.656
#> SRR1177744 5 0.5190 0.62630 0.140 0.000 0.172 0.000 0.688
#> SRR1177745 4 0.8255 0.19742 0.288 0.224 0.000 0.356 0.132
#> SRR1177746 4 0.8296 0.18016 0.308 0.224 0.000 0.332 0.136
#> SRR1177747 3 0.4173 0.78238 0.012 0.000 0.688 0.000 0.300
#> SRR1177748 3 0.3636 0.80055 0.000 0.000 0.728 0.000 0.272
#> SRR1177749 1 0.4590 0.27963 0.568 0.000 0.000 0.012 0.420
#> SRR1177750 1 0.3196 0.50077 0.804 0.000 0.000 0.004 0.192
#> SRR1177751 1 0.1502 0.53814 0.940 0.000 0.000 0.004 0.056
#> SRR1177752 1 0.4505 0.34507 0.604 0.000 0.000 0.012 0.384
#> SRR1177753 1 0.3480 0.46831 0.752 0.000 0.000 0.000 0.248
#> SRR1177754 5 0.4310 0.52064 0.392 0.000 0.004 0.000 0.604
#> SRR1177755 1 0.4339 0.39852 0.652 0.000 0.000 0.012 0.336
#> SRR1177756 1 0.1124 0.54217 0.960 0.000 0.000 0.004 0.036
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.1173 0.8483 0.000 0.960 0.000 0.016 0.008 0.016
#> SRR1026871 2 0.1173 0.8483 0.000 0.960 0.000 0.016 0.008 0.016
#> SRR1026872 2 0.0964 0.8486 0.000 0.968 0.000 0.012 0.004 0.016
#> SRR1026873 1 0.0922 0.7013 0.968 0.000 0.024 0.000 0.004 0.004
#> SRR1026874 3 0.7025 0.2132 0.324 0.000 0.408 0.000 0.096 0.172
#> SRR1026875 2 0.2842 0.8279 0.000 0.852 0.000 0.000 0.044 0.104
#> SRR1026876 2 0.2842 0.8279 0.000 0.852 0.000 0.000 0.044 0.104
#> SRR1026877 6 0.4375 0.9378 0.000 0.000 0.432 0.012 0.008 0.548
#> SRR1026878 6 0.4375 0.9378 0.000 0.000 0.432 0.012 0.008 0.548
#> SRR1026879 1 0.3706 0.6181 0.772 0.000 0.172 0.000 0.056 0.000
#> SRR1026880 1 0.3789 0.3429 0.660 0.000 0.332 0.000 0.008 0.000
#> SRR1026881 2 0.4611 0.6883 0.000 0.692 0.000 0.240 0.040 0.028
#> SRR1026882 2 0.4563 0.6985 0.000 0.700 0.000 0.232 0.040 0.028
#> SRR1026883 4 0.0862 0.8154 0.000 0.008 0.000 0.972 0.004 0.016
#> SRR1026884 4 0.0862 0.8154 0.000 0.008 0.000 0.972 0.004 0.016
#> SRR1026885 4 0.2532 0.8024 0.004 0.000 0.000 0.884 0.060 0.052
#> SRR1026886 4 0.2532 0.8024 0.004 0.000 0.000 0.884 0.060 0.052
#> SRR1026887 6 0.4690 0.9061 0.000 0.000 0.400 0.048 0.000 0.552
#> SRR1026888 6 0.4690 0.9061 0.000 0.000 0.400 0.048 0.000 0.552
#> SRR1026889 2 0.2614 0.8425 0.000 0.888 0.000 0.036 0.052 0.024
#> SRR1026890 4 0.1180 0.8146 0.000 0.012 0.000 0.960 0.012 0.016
#> SRR1026891 4 0.4635 0.7137 0.080 0.000 0.000 0.748 0.116 0.056
#> SRR1026892 4 0.4635 0.7137 0.080 0.000 0.000 0.748 0.116 0.056
#> SRR1026893 6 0.4057 0.9357 0.000 0.000 0.436 0.008 0.000 0.556
#> SRR1026894 6 0.4057 0.9357 0.000 0.000 0.436 0.008 0.000 0.556
#> SRR1026895 4 0.1167 0.8103 0.000 0.020 0.000 0.960 0.008 0.012
#> SRR1026896 4 0.1167 0.8103 0.000 0.020 0.000 0.960 0.008 0.012
#> SRR1026897 3 0.6940 0.3267 0.232 0.000 0.468 0.000 0.096 0.204
#> SRR1026898 1 0.2933 0.6373 0.796 0.000 0.000 0.000 0.200 0.004
#> SRR1026899 1 0.3944 0.0967 0.568 0.000 0.428 0.000 0.004 0.000
#> SRR1026900 5 0.6190 0.2625 0.000 0.132 0.000 0.360 0.472 0.036
#> SRR1026901 5 0.5043 0.2603 0.000 0.032 0.000 0.424 0.520 0.024
#> SRR1026902 4 0.2767 0.7971 0.004 0.000 0.000 0.868 0.072 0.056
#> SRR1026903 4 0.2767 0.7971 0.004 0.000 0.000 0.868 0.072 0.056
#> SRR1026904 4 0.0520 0.8176 0.000 0.000 0.000 0.984 0.008 0.008
#> SRR1026905 4 0.0520 0.8176 0.000 0.000 0.000 0.984 0.008 0.008
#> SRR1026906 2 0.1851 0.8442 0.000 0.928 0.000 0.024 0.036 0.012
#> SRR1026907 2 0.1851 0.8442 0.000 0.928 0.000 0.024 0.036 0.012
#> SRR1026908 2 0.0603 0.8489 0.000 0.980 0.000 0.004 0.000 0.016
#> SRR1026909 2 0.0603 0.8489 0.000 0.980 0.000 0.004 0.000 0.016
#> SRR1026910 4 0.0508 0.8196 0.000 0.000 0.000 0.984 0.004 0.012
#> SRR1026911 4 0.0508 0.8196 0.000 0.000 0.000 0.984 0.004 0.012
#> SRR1026912 6 0.4968 0.8603 0.000 0.000 0.368 0.076 0.000 0.556
#> SRR1026913 6 0.4968 0.8603 0.000 0.000 0.368 0.076 0.000 0.556
#> SRR1026914 2 0.3556 0.7830 0.000 0.804 0.000 0.148 0.024 0.024
#> SRR1026915 2 0.3556 0.7830 0.000 0.804 0.000 0.148 0.024 0.024
#> SRR1026916 2 0.3556 0.7830 0.000 0.804 0.000 0.148 0.024 0.024
#> SRR1026917 2 0.3556 0.7830 0.000 0.804 0.000 0.148 0.024 0.024
#> SRR1026918 4 0.3192 0.7371 0.000 0.084 0.000 0.848 0.048 0.020
#> SRR1026919 4 0.3192 0.7371 0.000 0.084 0.000 0.848 0.048 0.020
#> SRR1026920 2 0.4640 0.6846 0.000 0.688 0.000 0.244 0.036 0.032
#> SRR1026921 2 0.4640 0.6846 0.000 0.688 0.000 0.244 0.036 0.032
#> SRR1026922 2 0.2670 0.8353 0.000 0.884 0.000 0.052 0.044 0.020
#> SRR1026923 2 0.4849 0.7291 0.000 0.716 0.000 0.108 0.144 0.032
#> SRR1026924 4 0.0870 0.8134 0.000 0.012 0.000 0.972 0.004 0.012
#> SRR1026925 6 0.4141 0.9366 0.000 0.000 0.432 0.012 0.000 0.556
#> SRR1026926 4 0.0653 0.8160 0.000 0.004 0.000 0.980 0.004 0.012
#> SRR1026927 4 0.4437 0.7278 0.068 0.000 0.000 0.764 0.112 0.056
#> SRR1026928 4 0.3007 0.7404 0.000 0.080 0.000 0.860 0.040 0.020
#> SRR1026929 6 0.3838 0.9218 0.000 0.000 0.448 0.000 0.000 0.552
#> SRR1026930 5 0.6879 0.0965 0.000 0.292 0.000 0.292 0.368 0.048
#> SRR1026931 2 0.3534 0.8182 0.000 0.800 0.000 0.000 0.076 0.124
#> SRR1026932 2 0.2728 0.8274 0.000 0.860 0.000 0.000 0.040 0.100
#> SRR1026933 2 0.2728 0.8274 0.000 0.860 0.000 0.000 0.040 0.100
#> SRR1026934 2 0.1003 0.8489 0.000 0.964 0.000 0.004 0.004 0.028
#> SRR1026935 2 0.1003 0.8489 0.000 0.964 0.000 0.004 0.004 0.028
#> SRR1026936 4 0.0653 0.8160 0.000 0.004 0.000 0.980 0.004 0.012
#> SRR1026937 4 0.0653 0.8160 0.000 0.004 0.000 0.980 0.004 0.012
#> SRR1026938 2 0.2955 0.8217 0.000 0.860 0.000 0.088 0.036 0.016
#> SRR1026939 2 0.2955 0.8217 0.000 0.860 0.000 0.088 0.036 0.016
#> SRR1026940 5 0.5722 0.1783 0.052 0.000 0.000 0.420 0.476 0.052
#> SRR1026941 3 0.4057 -0.5982 0.000 0.000 0.600 0.000 0.012 0.388
#> SRR1026942 1 0.3279 0.6518 0.796 0.000 0.000 0.000 0.176 0.028
#> SRR1026943 5 0.5366 0.2686 0.392 0.000 0.000 0.036 0.528 0.044
#> SRR1026944 1 0.1633 0.7106 0.932 0.000 0.000 0.000 0.044 0.024
#> SRR1026945 3 0.1444 0.5839 0.072 0.000 0.928 0.000 0.000 0.000
#> SRR1026947 2 0.0717 0.8473 0.000 0.976 0.000 0.000 0.008 0.016
#> SRR1026946 2 0.0993 0.8485 0.000 0.964 0.000 0.024 0.012 0.000
#> SRR1026948 2 0.3190 0.8157 0.000 0.820 0.000 0.000 0.044 0.136
#> SRR1026949 5 0.5402 0.1016 0.028 0.000 0.000 0.448 0.472 0.052
#> SRR1026950 1 0.5399 0.0490 0.536 0.000 0.000 0.036 0.380 0.048
#> SRR1026951 5 0.4682 0.2988 0.000 0.016 0.000 0.416 0.548 0.020
#> SRR1026952 1 0.2331 0.6979 0.888 0.000 0.000 0.000 0.080 0.032
#> SRR1026953 3 0.0458 0.5570 0.000 0.000 0.984 0.000 0.000 0.016
#> SRR1026954 4 0.1844 0.8156 0.004 0.000 0.000 0.924 0.048 0.024
#> SRR1026955 2 0.2728 0.8274 0.000 0.860 0.000 0.000 0.040 0.100
#> SRR1026956 4 0.5716 0.5735 0.124 0.000 0.000 0.636 0.180 0.060
#> SRR1026957 2 0.3437 0.8218 0.000 0.832 0.000 0.092 0.052 0.024
#> SRR1026958 5 0.5535 0.2933 0.392 0.000 0.000 0.044 0.516 0.048
#> SRR1026959 2 0.3408 0.8079 0.000 0.800 0.000 0.000 0.048 0.152
#> SRR1026960 4 0.3465 0.7896 0.004 0.004 0.000 0.820 0.112 0.060
#> SRR1026961 4 0.3007 0.7465 0.000 0.080 0.000 0.860 0.040 0.020
#> SRR1026962 1 0.1549 0.7117 0.936 0.000 0.000 0.000 0.044 0.020
#> SRR1026963 1 0.0777 0.7022 0.972 0.000 0.024 0.000 0.000 0.004
#> SRR1026964 4 0.0717 0.8198 0.000 0.000 0.000 0.976 0.008 0.016
#> SRR1026965 4 0.0717 0.8198 0.000 0.000 0.000 0.976 0.008 0.016
#> SRR1026966 6 0.4072 0.9211 0.000 0.000 0.448 0.000 0.008 0.544
#> SRR1026967 6 0.4072 0.9211 0.000 0.000 0.448 0.000 0.008 0.544
#> SRR1026968 4 0.1332 0.8104 0.000 0.008 0.000 0.952 0.028 0.012
#> SRR1026969 4 0.2705 0.8040 0.004 0.000 0.000 0.872 0.072 0.052
#> SRR1026970 4 0.5195 0.6315 0.068 0.000 0.000 0.676 0.200 0.056
#> SRR1026971 4 0.5195 0.6315 0.068 0.000 0.000 0.676 0.200 0.056
#> SRR1026972 4 0.5225 0.6269 0.064 0.000 0.000 0.672 0.204 0.060
#> SRR1026973 4 0.5225 0.6269 0.064 0.000 0.000 0.672 0.204 0.060
#> SRR1026974 4 0.6047 0.5084 0.232 0.000 0.000 0.584 0.120 0.064
#> SRR1026975 4 0.6047 0.5084 0.232 0.000 0.000 0.584 0.120 0.064
#> SRR1026976 4 0.1933 0.8138 0.004 0.000 0.000 0.920 0.044 0.032
#> SRR1026977 4 0.1933 0.8138 0.004 0.000 0.000 0.920 0.044 0.032
#> SRR1026978 5 0.4320 0.4920 0.264 0.000 0.000 0.024 0.692 0.020
#> SRR1026979 3 0.1196 0.5209 0.000 0.000 0.952 0.000 0.008 0.040
#> SRR1026980 5 0.5123 0.3805 0.004 0.032 0.000 0.360 0.576 0.028
#> SRR1026981 3 0.3971 -0.7178 0.000 0.000 0.548 0.000 0.004 0.448
#> SRR1026982 4 0.1320 0.8113 0.000 0.000 0.000 0.948 0.036 0.016
#> SRR1026983 4 0.1320 0.8113 0.000 0.000 0.000 0.948 0.036 0.016
#> SRR1026984 4 0.3730 0.7110 0.000 0.100 0.000 0.812 0.060 0.028
#> SRR1026985 4 0.3730 0.7110 0.000 0.100 0.000 0.812 0.060 0.028
#> SRR1026986 5 0.3865 0.5347 0.216 0.000 0.000 0.020 0.748 0.016
#> SRR1026987 5 0.4178 0.5087 0.248 0.000 0.000 0.036 0.708 0.008
#> SRR1026988 1 0.2234 0.6400 0.872 0.000 0.124 0.000 0.004 0.000
#> SRR1026989 3 0.1700 0.4687 0.000 0.000 0.916 0.000 0.004 0.080
#> SRR1026990 4 0.2866 0.7955 0.004 0.000 0.000 0.860 0.084 0.052
#> SRR1026991 3 0.3861 -0.4188 0.000 0.000 0.640 0.000 0.008 0.352
#> SRR1026992 1 0.2896 0.6649 0.824 0.000 0.000 0.000 0.160 0.016
#> SRR1026993 1 0.2830 0.6678 0.836 0.000 0.000 0.000 0.144 0.020
#> SRR1026994 5 0.4511 0.5733 0.068 0.000 0.000 0.168 0.736 0.028
#> SRR1026995 5 0.4213 0.4007 0.340 0.000 0.000 0.004 0.636 0.020
#> SRR1026996 4 0.1341 0.8183 0.000 0.000 0.000 0.948 0.028 0.024
#> SRR1026997 4 0.1341 0.8183 0.000 0.000 0.000 0.948 0.028 0.024
#> SRR1026998 6 0.4375 0.9378 0.000 0.000 0.432 0.012 0.008 0.548
#> SRR1026999 6 0.4375 0.9378 0.000 0.000 0.432 0.012 0.008 0.548
#> SRR1027000 5 0.3883 0.4090 0.332 0.000 0.000 0.000 0.656 0.012
#> SRR1027001 3 0.3872 0.3226 0.392 0.000 0.604 0.000 0.004 0.000
#> SRR1027002 5 0.3942 0.5302 0.204 0.000 0.000 0.020 0.752 0.024
#> SRR1027003 5 0.4542 0.5725 0.080 0.020 0.000 0.124 0.760 0.016
#> SRR1027004 1 0.4699 0.1419 0.580 0.000 0.000 0.008 0.376 0.036
#> SRR1027005 3 0.3907 -0.6244 0.000 0.000 0.588 0.000 0.004 0.408
#> SRR1027006 1 0.3741 0.3802 0.672 0.000 0.320 0.000 0.008 0.000
#> SRR1027007 5 0.4869 0.5416 0.176 0.000 0.000 0.092 0.704 0.028
#> SRR1027008 5 0.4158 0.2796 0.416 0.000 0.000 0.004 0.572 0.008
#> SRR1027009 3 0.0458 0.5570 0.000 0.000 0.984 0.000 0.000 0.016
#> SRR1027010 3 0.4478 0.1695 0.452 0.000 0.524 0.000 0.016 0.008
#> SRR1027011 3 0.0146 0.5645 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177668 1 0.4957 0.3248 0.580 0.000 0.348 0.000 0.068 0.004
#> SRR1177667 1 0.2118 0.7028 0.888 0.000 0.000 0.000 0.104 0.008
#> SRR1177669 3 0.2070 0.5758 0.092 0.000 0.896 0.000 0.012 0.000
#> SRR1177670 3 0.1387 0.5842 0.068 0.000 0.932 0.000 0.000 0.000
#> SRR1177671 2 0.3943 0.7879 0.000 0.760 0.000 0.000 0.084 0.156
#> SRR1177672 3 0.1556 0.5810 0.080 0.000 0.920 0.000 0.000 0.000
#> SRR1177673 1 0.1951 0.6787 0.908 0.000 0.076 0.000 0.016 0.000
#> SRR1177674 3 0.0937 0.5828 0.040 0.000 0.960 0.000 0.000 0.000
#> SRR1177675 1 0.1155 0.7145 0.956 0.000 0.004 0.000 0.036 0.004
#> SRR1177676 3 0.3971 0.1767 0.448 0.000 0.548 0.000 0.004 0.000
#> SRR1177677 1 0.4129 0.2071 0.564 0.000 0.000 0.000 0.424 0.012
#> SRR1177678 1 0.0603 0.7124 0.980 0.000 0.004 0.000 0.016 0.000
#> SRR1177679 2 0.5078 0.6751 0.000 0.632 0.000 0.000 0.208 0.160
#> SRR1177680 5 0.5941 0.4447 0.000 0.096 0.000 0.268 0.576 0.060
#> SRR1177681 5 0.4115 0.3887 0.360 0.000 0.000 0.004 0.624 0.012
#> SRR1177682 5 0.3808 0.4716 0.284 0.000 0.000 0.004 0.700 0.012
#> SRR1177683 2 0.4165 0.7789 0.000 0.740 0.000 0.000 0.100 0.160
#> SRR1177684 2 0.4455 0.7725 0.000 0.712 0.000 0.000 0.128 0.160
#> SRR1177685 1 0.0935 0.7149 0.964 0.000 0.004 0.000 0.032 0.000
#> SRR1177686 3 0.3881 -0.5927 0.000 0.000 0.600 0.000 0.004 0.396
#> SRR1177687 5 0.5849 0.4485 0.000 0.092 0.000 0.268 0.584 0.056
#> SRR1177688 5 0.3996 0.3979 0.352 0.000 0.000 0.004 0.636 0.008
#> SRR1177689 5 0.4117 0.5455 0.184 0.000 0.000 0.048 0.752 0.016
#> SRR1177690 1 0.4091 0.0238 0.520 0.000 0.000 0.000 0.472 0.008
#> SRR1177691 2 0.5336 0.6128 0.000 0.584 0.000 0.000 0.256 0.160
#> SRR1177692 5 0.5849 0.4485 0.000 0.092 0.000 0.268 0.584 0.056
#> SRR1177693 2 0.0964 0.8493 0.000 0.968 0.000 0.004 0.012 0.016
#> SRR1177694 2 0.3816 0.7733 0.000 0.784 0.000 0.160 0.024 0.032
#> SRR1177695 5 0.3938 0.4494 0.312 0.000 0.000 0.004 0.672 0.012
#> SRR1177697 1 0.4118 0.4379 0.660 0.000 0.000 0.000 0.312 0.028
#> SRR1177696 5 0.5725 0.4637 0.248 0.000 0.096 0.020 0.616 0.020
#> SRR1177698 3 0.1007 0.5835 0.044 0.000 0.956 0.000 0.000 0.000
#> SRR1177700 4 0.4979 0.5008 0.028 0.000 0.000 0.636 0.288 0.048
#> SRR1177701 4 0.5496 0.6002 0.084 0.000 0.000 0.652 0.200 0.064
#> SRR1177702 5 0.7771 0.1099 0.220 0.000 0.188 0.008 0.352 0.232
#> SRR1177703 4 0.5549 0.6013 0.096 0.000 0.000 0.648 0.196 0.060
#> SRR1177704 5 0.7079 0.2372 0.000 0.000 0.076 0.256 0.388 0.280
#> SRR1177705 5 0.5575 0.3967 0.308 0.000 0.000 0.068 0.580 0.044
#> SRR1177706 5 0.5322 0.2862 0.000 0.236 0.000 0.024 0.636 0.104
#> SRR1177707 4 0.5947 0.4991 0.108 0.000 0.000 0.588 0.244 0.060
#> SRR1177708 4 0.4864 0.5557 0.020 0.000 0.000 0.660 0.260 0.060
#> SRR1177709 1 0.3601 0.4902 0.684 0.000 0.000 0.000 0.312 0.004
#> SRR1177710 3 0.1524 0.5817 0.060 0.000 0.932 0.000 0.008 0.000
#> SRR1177711 1 0.0653 0.7129 0.980 0.000 0.004 0.000 0.012 0.004
#> SRR1177712 5 0.5805 0.2942 0.008 0.000 0.000 0.288 0.528 0.176
#> SRR1177714 2 0.3344 0.8087 0.000 0.804 0.000 0.000 0.044 0.152
#> SRR1177713 1 0.7135 -0.1591 0.364 0.000 0.340 0.000 0.092 0.204
#> SRR1177715 5 0.5250 0.5563 0.036 0.076 0.000 0.108 0.728 0.052
#> SRR1177716 3 0.3890 -0.6042 0.000 0.000 0.596 0.000 0.004 0.400
#> SRR1177717 1 0.2122 0.7030 0.900 0.000 0.000 0.000 0.076 0.024
#> SRR1177718 1 0.0653 0.7129 0.980 0.000 0.004 0.000 0.012 0.004
#> SRR1177719 1 0.5435 0.4689 0.656 0.000 0.000 0.088 0.200 0.056
#> SRR1177720 6 0.3966 0.9213 0.000 0.000 0.444 0.000 0.004 0.552
#> SRR1177721 2 0.3307 0.8112 0.000 0.808 0.000 0.000 0.044 0.148
#> SRR1177722 2 0.2979 0.8216 0.000 0.840 0.000 0.000 0.044 0.116
#> SRR1177723 1 0.2006 0.7051 0.904 0.000 0.000 0.000 0.080 0.016
#> SRR1177725 1 0.1867 0.7074 0.916 0.000 0.000 0.000 0.064 0.020
#> SRR1177724 1 0.2821 0.6729 0.832 0.000 0.000 0.000 0.152 0.016
#> SRR1177726 3 0.0458 0.5570 0.000 0.000 0.984 0.000 0.000 0.016
#> SRR1177727 1 0.1036 0.7024 0.964 0.000 0.024 0.000 0.008 0.004
#> SRR1177728 3 0.0603 0.5541 0.000 0.000 0.980 0.000 0.004 0.016
#> SRR1177729 1 0.2250 0.7006 0.888 0.000 0.000 0.000 0.092 0.020
#> SRR1177730 3 0.3607 0.4032 0.348 0.000 0.652 0.000 0.000 0.000
#> SRR1177731 1 0.1341 0.7058 0.948 0.000 0.024 0.000 0.028 0.000
#> SRR1177732 1 0.4153 0.3312 0.636 0.000 0.340 0.000 0.024 0.000
#> SRR1177733 5 0.5147 0.4866 0.248 0.000 0.000 0.060 0.652 0.040
#> SRR1177734 5 0.5072 0.2101 0.424 0.000 0.000 0.016 0.516 0.044
#> SRR1177735 5 0.5329 0.3030 0.032 0.000 0.000 0.376 0.544 0.048
#> SRR1177736 1 0.5039 0.0199 0.540 0.000 0.000 0.016 0.400 0.044
#> SRR1177737 4 0.5491 0.1173 0.000 0.380 0.000 0.528 0.060 0.032
#> SRR1177738 6 0.5208 0.7935 0.000 0.000 0.336 0.108 0.000 0.556
#> SRR1177739 5 0.5084 0.1791 0.436 0.000 0.000 0.016 0.504 0.044
#> SRR1177740 5 0.5022 0.3557 0.352 0.000 0.000 0.024 0.584 0.040
#> SRR1177741 1 0.1657 0.7055 0.928 0.000 0.016 0.000 0.056 0.000
#> SRR1177742 3 0.0692 0.5490 0.000 0.000 0.976 0.000 0.004 0.020
#> SRR1177743 1 0.3911 0.2680 0.624 0.000 0.368 0.000 0.008 0.000
#> SRR1177744 3 0.3915 0.2759 0.412 0.000 0.584 0.000 0.004 0.000
#> SRR1177745 5 0.5950 0.4327 0.000 0.092 0.000 0.280 0.568 0.060
#> SRR1177746 5 0.5905 0.4506 0.000 0.096 0.000 0.260 0.584 0.060
#> SRR1177747 3 0.1630 0.5614 0.016 0.000 0.940 0.000 0.020 0.024
#> SRR1177748 3 0.1584 0.4830 0.000 0.000 0.928 0.000 0.008 0.064
#> SRR1177749 1 0.0653 0.7129 0.980 0.000 0.004 0.000 0.012 0.004
#> SRR1177750 1 0.3741 0.4687 0.672 0.000 0.000 0.000 0.320 0.008
#> SRR1177751 5 0.4333 0.0785 0.468 0.000 0.000 0.000 0.512 0.020
#> SRR1177752 1 0.2623 0.6864 0.852 0.000 0.000 0.000 0.132 0.016
#> SRR1177753 1 0.3652 0.5573 0.720 0.000 0.000 0.000 0.264 0.016
#> SRR1177754 1 0.5125 0.2936 0.556 0.000 0.360 0.000 0.080 0.004
#> SRR1177755 1 0.2869 0.6624 0.832 0.000 0.000 0.000 0.148 0.020
#> SRR1177756 1 0.4325 0.0847 0.524 0.000 0.000 0.000 0.456 0.020
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["MAD", "skmeans"]
# you can also extract it by
# res = res_list["MAD:skmeans"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'MAD' method.
#> Subgroups are detected by 'skmeans' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 4.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.888 0.937 0.972 0.5008 0.499 0.499
#> 3 3 0.963 0.941 0.975 0.3090 0.777 0.582
#> 4 4 0.902 0.910 0.959 0.1343 0.877 0.658
#> 5 5 0.744 0.713 0.821 0.0586 0.918 0.702
#> 6 6 0.709 0.581 0.736 0.0449 0.878 0.519
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 4
#> attr(,"optional")
#> [1] 3
There is also optional best \(k\) = 3 that is worth to check.
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.969 0.000 1.000
#> SRR1026871 2 0.0000 0.969 0.000 1.000
#> SRR1026872 2 0.0000 0.969 0.000 1.000
#> SRR1026873 1 0.0000 0.972 1.000 0.000
#> SRR1026874 1 0.0000 0.972 1.000 0.000
#> SRR1026875 2 0.0000 0.969 0.000 1.000
#> SRR1026876 2 0.0000 0.969 0.000 1.000
#> SRR1026877 1 0.7453 0.742 0.788 0.212
#> SRR1026878 1 0.7453 0.742 0.788 0.212
#> SRR1026879 1 0.0000 0.972 1.000 0.000
#> SRR1026880 1 0.0000 0.972 1.000 0.000
#> SRR1026881 2 0.0000 0.969 0.000 1.000
#> SRR1026882 2 0.0000 0.969 0.000 1.000
#> SRR1026883 2 0.0000 0.969 0.000 1.000
#> SRR1026884 2 0.0000 0.969 0.000 1.000
#> SRR1026885 2 0.0000 0.969 0.000 1.000
#> SRR1026886 2 0.0000 0.969 0.000 1.000
#> SRR1026887 1 0.7219 0.758 0.800 0.200
#> SRR1026888 1 0.7219 0.758 0.800 0.200
#> SRR1026889 2 0.0000 0.969 0.000 1.000
#> SRR1026890 2 0.0000 0.969 0.000 1.000
#> SRR1026891 1 0.0000 0.972 1.000 0.000
#> SRR1026892 1 0.0000 0.972 1.000 0.000
#> SRR1026893 1 0.7219 0.758 0.800 0.200
#> SRR1026894 1 0.7219 0.758 0.800 0.200
#> SRR1026895 2 0.0000 0.969 0.000 1.000
#> SRR1026896 2 0.0000 0.969 0.000 1.000
#> SRR1026897 1 0.0000 0.972 1.000 0.000
#> SRR1026898 1 0.0000 0.972 1.000 0.000
#> SRR1026899 1 0.0000 0.972 1.000 0.000
#> SRR1026900 2 0.0000 0.969 0.000 1.000
#> SRR1026901 2 0.0000 0.969 0.000 1.000
#> SRR1026902 2 0.8661 0.593 0.288 0.712
#> SRR1026903 2 0.8661 0.593 0.288 0.712
#> SRR1026904 2 0.0000 0.969 0.000 1.000
#> SRR1026905 2 0.0000 0.969 0.000 1.000
#> SRR1026906 2 0.0000 0.969 0.000 1.000
#> SRR1026907 2 0.0000 0.969 0.000 1.000
#> SRR1026908 2 0.0000 0.969 0.000 1.000
#> SRR1026909 2 0.0000 0.969 0.000 1.000
#> SRR1026910 2 0.0000 0.969 0.000 1.000
#> SRR1026911 2 0.0000 0.969 0.000 1.000
#> SRR1026912 2 0.0000 0.969 0.000 1.000
#> SRR1026913 2 0.0000 0.969 0.000 1.000
#> SRR1026914 2 0.0000 0.969 0.000 1.000
#> SRR1026915 2 0.0000 0.969 0.000 1.000
#> SRR1026916 2 0.0000 0.969 0.000 1.000
#> SRR1026917 2 0.0000 0.969 0.000 1.000
#> SRR1026918 2 0.0000 0.969 0.000 1.000
#> SRR1026919 2 0.0000 0.969 0.000 1.000
#> SRR1026920 2 0.0000 0.969 0.000 1.000
#> SRR1026921 2 0.0000 0.969 0.000 1.000
#> SRR1026922 2 0.0000 0.969 0.000 1.000
#> SRR1026923 2 0.0000 0.969 0.000 1.000
#> SRR1026924 2 0.0000 0.969 0.000 1.000
#> SRR1026925 1 0.7453 0.742 0.788 0.212
#> SRR1026926 2 0.0000 0.969 0.000 1.000
#> SRR1026927 1 0.4022 0.898 0.920 0.080
#> SRR1026928 2 0.0000 0.969 0.000 1.000
#> SRR1026929 1 0.7453 0.742 0.788 0.212
#> SRR1026930 2 0.0000 0.969 0.000 1.000
#> SRR1026931 2 0.0000 0.969 0.000 1.000
#> SRR1026932 2 0.0000 0.969 0.000 1.000
#> SRR1026933 2 0.0000 0.969 0.000 1.000
#> SRR1026934 2 0.0000 0.969 0.000 1.000
#> SRR1026935 2 0.0000 0.969 0.000 1.000
#> SRR1026936 2 0.0000 0.969 0.000 1.000
#> SRR1026937 2 0.0000 0.969 0.000 1.000
#> SRR1026938 2 0.0000 0.969 0.000 1.000
#> SRR1026939 2 0.0000 0.969 0.000 1.000
#> SRR1026940 1 0.0000 0.972 1.000 0.000
#> SRR1026941 1 0.0000 0.972 1.000 0.000
#> SRR1026942 1 0.0000 0.972 1.000 0.000
#> SRR1026943 1 0.0000 0.972 1.000 0.000
#> SRR1026944 1 0.0000 0.972 1.000 0.000
#> SRR1026945 1 0.0000 0.972 1.000 0.000
#> SRR1026947 2 0.0000 0.969 0.000 1.000
#> SRR1026946 2 0.0000 0.969 0.000 1.000
#> SRR1026948 2 0.0000 0.969 0.000 1.000
#> SRR1026949 2 0.7219 0.760 0.200 0.800
#> SRR1026950 1 0.0000 0.972 1.000 0.000
#> SRR1026951 2 0.0000 0.969 0.000 1.000
#> SRR1026952 1 0.0000 0.972 1.000 0.000
#> SRR1026953 1 0.0000 0.972 1.000 0.000
#> SRR1026954 2 0.0000 0.969 0.000 1.000
#> SRR1026955 2 0.0000 0.969 0.000 1.000
#> SRR1026956 1 0.0000 0.972 1.000 0.000
#> SRR1026957 2 0.0000 0.969 0.000 1.000
#> SRR1026958 1 0.0000 0.972 1.000 0.000
#> SRR1026959 2 0.0000 0.969 0.000 1.000
#> SRR1026960 2 0.0000 0.969 0.000 1.000
#> SRR1026961 2 0.0000 0.969 0.000 1.000
#> SRR1026962 1 0.0000 0.972 1.000 0.000
#> SRR1026963 1 0.0000 0.972 1.000 0.000
#> SRR1026964 2 0.0000 0.969 0.000 1.000
#> SRR1026965 2 0.0000 0.969 0.000 1.000
#> SRR1026966 1 0.2603 0.933 0.956 0.044
#> SRR1026967 1 0.2603 0.933 0.956 0.044
#> SRR1026968 2 0.0000 0.969 0.000 1.000
#> SRR1026969 2 0.0000 0.969 0.000 1.000
#> SRR1026970 2 0.7745 0.703 0.228 0.772
#> SRR1026971 2 0.7745 0.703 0.228 0.772
#> SRR1026972 2 0.0938 0.960 0.012 0.988
#> SRR1026973 2 0.0938 0.960 0.012 0.988
#> SRR1026974 1 0.0000 0.972 1.000 0.000
#> SRR1026975 1 0.0000 0.972 1.000 0.000
#> SRR1026976 2 0.0000 0.969 0.000 1.000
#> SRR1026977 2 0.0000 0.969 0.000 1.000
#> SRR1026978 2 0.7453 0.744 0.212 0.788
#> SRR1026979 1 0.0000 0.972 1.000 0.000
#> SRR1026980 2 0.0000 0.969 0.000 1.000
#> SRR1026981 1 0.0000 0.972 1.000 0.000
#> SRR1026982 2 0.0000 0.969 0.000 1.000
#> SRR1026983 2 0.0000 0.969 0.000 1.000
#> SRR1026984 2 0.0000 0.969 0.000 1.000
#> SRR1026985 2 0.0000 0.969 0.000 1.000
#> SRR1026986 2 0.7219 0.760 0.200 0.800
#> SRR1026987 1 0.0000 0.972 1.000 0.000
#> SRR1026988 1 0.0000 0.972 1.000 0.000
#> SRR1026989 1 0.0000 0.972 1.000 0.000
#> SRR1026990 2 0.0000 0.969 0.000 1.000
#> SRR1026991 1 0.0000 0.972 1.000 0.000
#> SRR1026992 1 0.0000 0.972 1.000 0.000
#> SRR1026993 1 0.0000 0.972 1.000 0.000
#> SRR1026994 2 0.0000 0.969 0.000 1.000
#> SRR1026995 1 0.0000 0.972 1.000 0.000
#> SRR1026996 2 0.0000 0.969 0.000 1.000
#> SRR1026997 2 0.0000 0.969 0.000 1.000
#> SRR1026998 1 0.9580 0.417 0.620 0.380
#> SRR1026999 1 0.9580 0.417 0.620 0.380
#> SRR1027000 1 0.0000 0.972 1.000 0.000
#> SRR1027001 1 0.0000 0.972 1.000 0.000
#> SRR1027002 2 0.7219 0.760 0.200 0.800
#> SRR1027003 2 0.7219 0.760 0.200 0.800
#> SRR1027004 1 0.0000 0.972 1.000 0.000
#> SRR1027005 1 0.0000 0.972 1.000 0.000
#> SRR1027006 1 0.0000 0.972 1.000 0.000
#> SRR1027007 2 0.7453 0.744 0.212 0.788
#> SRR1027008 1 0.0000 0.972 1.000 0.000
#> SRR1027009 1 0.0000 0.972 1.000 0.000
#> SRR1027010 1 0.0000 0.972 1.000 0.000
#> SRR1027011 1 0.0000 0.972 1.000 0.000
#> SRR1177668 1 0.0000 0.972 1.000 0.000
#> SRR1177667 1 0.0000 0.972 1.000 0.000
#> SRR1177669 1 0.0000 0.972 1.000 0.000
#> SRR1177670 1 0.0000 0.972 1.000 0.000
#> SRR1177671 2 0.0000 0.969 0.000 1.000
#> SRR1177672 1 0.0000 0.972 1.000 0.000
#> SRR1177673 1 0.0000 0.972 1.000 0.000
#> SRR1177674 1 0.0000 0.972 1.000 0.000
#> SRR1177675 1 0.0000 0.972 1.000 0.000
#> SRR1177676 1 0.0000 0.972 1.000 0.000
#> SRR1177677 1 0.0000 0.972 1.000 0.000
#> SRR1177678 1 0.0000 0.972 1.000 0.000
#> SRR1177679 2 0.0000 0.969 0.000 1.000
#> SRR1177680 2 0.0000 0.969 0.000 1.000
#> SRR1177681 1 0.0000 0.972 1.000 0.000
#> SRR1177682 1 0.0000 0.972 1.000 0.000
#> SRR1177683 2 0.0000 0.969 0.000 1.000
#> SRR1177684 2 0.0000 0.969 0.000 1.000
#> SRR1177685 1 0.0000 0.972 1.000 0.000
#> SRR1177686 1 0.0000 0.972 1.000 0.000
#> SRR1177687 2 0.0000 0.969 0.000 1.000
#> SRR1177688 1 0.0000 0.972 1.000 0.000
#> SRR1177689 2 0.7219 0.760 0.200 0.800
#> SRR1177690 1 0.0000 0.972 1.000 0.000
#> SRR1177691 2 0.0000 0.969 0.000 1.000
#> SRR1177692 2 0.0000 0.969 0.000 1.000
#> SRR1177693 2 0.0000 0.969 0.000 1.000
#> SRR1177694 2 0.0000 0.969 0.000 1.000
#> SRR1177695 1 0.0000 0.972 1.000 0.000
#> SRR1177697 1 0.0000 0.972 1.000 0.000
#> SRR1177696 1 0.0000 0.972 1.000 0.000
#> SRR1177698 1 0.0000 0.972 1.000 0.000
#> SRR1177700 1 0.0000 0.972 1.000 0.000
#> SRR1177701 1 0.2236 0.939 0.964 0.036
#> SRR1177702 1 0.0000 0.972 1.000 0.000
#> SRR1177703 1 0.0000 0.972 1.000 0.000
#> SRR1177704 2 0.9323 0.457 0.348 0.652
#> SRR1177705 1 0.0000 0.972 1.000 0.000
#> SRR1177706 2 0.0000 0.969 0.000 1.000
#> SRR1177707 1 0.0000 0.972 1.000 0.000
#> SRR1177708 1 0.0000 0.972 1.000 0.000
#> SRR1177709 1 0.0000 0.972 1.000 0.000
#> SRR1177710 1 0.0000 0.972 1.000 0.000
#> SRR1177711 1 0.0000 0.972 1.000 0.000
#> SRR1177712 1 0.7139 0.766 0.804 0.196
#> SRR1177714 2 0.0000 0.969 0.000 1.000
#> SRR1177713 1 0.0000 0.972 1.000 0.000
#> SRR1177715 2 0.4022 0.897 0.080 0.920
#> SRR1177716 1 0.0000 0.972 1.000 0.000
#> SRR1177717 1 0.0000 0.972 1.000 0.000
#> SRR1177718 1 0.0000 0.972 1.000 0.000
#> SRR1177719 1 0.0000 0.972 1.000 0.000
#> SRR1177720 1 0.9993 0.101 0.516 0.484
#> SRR1177721 2 0.0000 0.969 0.000 1.000
#> SRR1177722 2 0.0000 0.969 0.000 1.000
#> SRR1177723 1 0.0000 0.972 1.000 0.000
#> SRR1177725 1 0.0000 0.972 1.000 0.000
#> SRR1177724 1 0.0000 0.972 1.000 0.000
#> SRR1177726 1 0.0000 0.972 1.000 0.000
#> SRR1177727 1 0.0000 0.972 1.000 0.000
#> SRR1177728 1 0.0000 0.972 1.000 0.000
#> SRR1177729 1 0.0000 0.972 1.000 0.000
#> SRR1177730 1 0.0000 0.972 1.000 0.000
#> SRR1177731 1 0.0000 0.972 1.000 0.000
#> SRR1177732 1 0.0000 0.972 1.000 0.000
#> SRR1177733 1 0.0000 0.972 1.000 0.000
#> SRR1177734 1 0.0000 0.972 1.000 0.000
#> SRR1177735 2 0.7219 0.760 0.200 0.800
#> SRR1177736 1 0.0000 0.972 1.000 0.000
#> SRR1177737 2 0.0000 0.969 0.000 1.000
#> SRR1177738 2 0.0000 0.969 0.000 1.000
#> SRR1177739 1 0.0000 0.972 1.000 0.000
#> SRR1177740 1 0.0000 0.972 1.000 0.000
#> SRR1177741 1 0.0000 0.972 1.000 0.000
#> SRR1177742 1 0.0000 0.972 1.000 0.000
#> SRR1177743 1 0.0000 0.972 1.000 0.000
#> SRR1177744 1 0.0000 0.972 1.000 0.000
#> SRR1177745 2 0.0000 0.969 0.000 1.000
#> SRR1177746 2 0.0000 0.969 0.000 1.000
#> SRR1177747 1 0.0000 0.972 1.000 0.000
#> SRR1177748 1 0.0000 0.972 1.000 0.000
#> SRR1177749 1 0.0000 0.972 1.000 0.000
#> SRR1177750 1 0.0000 0.972 1.000 0.000
#> SRR1177751 1 0.0000 0.972 1.000 0.000
#> SRR1177752 1 0.0000 0.972 1.000 0.000
#> SRR1177753 1 0.0000 0.972 1.000 0.000
#> SRR1177754 1 0.0000 0.972 1.000 0.000
#> SRR1177755 1 0.0000 0.972 1.000 0.000
#> SRR1177756 1 0.0000 0.972 1.000 0.000
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026874 3 0.6111 0.395 0.396 0.000 0.604
#> SRR1026875 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026879 1 0.1163 0.955 0.972 0.000 0.028
#> SRR1026880 1 0.0237 0.975 0.996 0.000 0.004
#> SRR1026881 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026883 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026884 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026885 2 0.0592 0.967 0.012 0.988 0.000
#> SRR1026886 2 0.0592 0.967 0.012 0.988 0.000
#> SRR1026887 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026889 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026890 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026891 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026892 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026893 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026895 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026896 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026897 3 0.3752 0.825 0.144 0.000 0.856
#> SRR1026898 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026899 1 0.1753 0.935 0.952 0.000 0.048
#> SRR1026900 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026901 2 0.1411 0.945 0.000 0.964 0.036
#> SRR1026902 2 0.9247 0.334 0.276 0.524 0.200
#> SRR1026903 2 0.9247 0.334 0.276 0.524 0.200
#> SRR1026904 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026905 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026906 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026910 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026911 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026912 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026914 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026918 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026919 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026920 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026924 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026925 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026926 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026927 1 0.0237 0.975 0.996 0.004 0.000
#> SRR1026928 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026929 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026930 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026931 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026936 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026937 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026938 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026940 3 0.2356 0.902 0.072 0.000 0.928
#> SRR1026941 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026942 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026945 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026947 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026949 2 0.4654 0.733 0.208 0.792 0.000
#> SRR1026950 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026951 2 0.3267 0.858 0.000 0.884 0.116
#> SRR1026952 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026954 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026955 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026957 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026958 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026960 2 0.0592 0.967 0.012 0.988 0.000
#> SRR1026961 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026962 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026964 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026965 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026966 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026968 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026969 2 0.0592 0.967 0.012 0.988 0.000
#> SRR1026970 1 0.1163 0.951 0.972 0.028 0.000
#> SRR1026971 1 0.1163 0.951 0.972 0.028 0.000
#> SRR1026972 1 0.4555 0.742 0.800 0.200 0.000
#> SRR1026973 1 0.4555 0.742 0.800 0.200 0.000
#> SRR1026974 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026976 2 0.0592 0.967 0.012 0.988 0.000
#> SRR1026977 2 0.0592 0.967 0.012 0.988 0.000
#> SRR1026978 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026979 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026980 2 0.0237 0.973 0.000 0.996 0.004
#> SRR1026981 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026982 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026983 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026984 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026985 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026986 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026987 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026988 1 0.2711 0.892 0.912 0.000 0.088
#> SRR1026989 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026990 1 0.6045 0.384 0.620 0.380 0.000
#> SRR1026991 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1026994 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026995 1 0.0237 0.975 0.996 0.000 0.004
#> SRR1026996 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026997 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1026998 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1027000 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1027001 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1027002 1 0.4002 0.793 0.840 0.160 0.000
#> SRR1027003 2 0.4555 0.745 0.200 0.800 0.000
#> SRR1027004 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1027006 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1027007 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1027008 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1027010 3 0.1860 0.920 0.052 0.000 0.948
#> SRR1027011 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177668 1 0.1163 0.955 0.972 0.000 0.028
#> SRR1177667 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177669 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177670 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177671 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177672 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177673 1 0.0592 0.968 0.988 0.000 0.012
#> SRR1177674 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177676 3 0.1163 0.940 0.028 0.000 0.972
#> SRR1177677 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177679 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177680 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177681 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177682 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177683 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177687 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177688 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177689 1 0.0592 0.968 0.988 0.012 0.000
#> SRR1177690 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177692 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177693 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177695 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177697 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177696 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177698 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177700 3 0.1529 0.930 0.040 0.000 0.960
#> SRR1177701 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177702 3 0.6111 0.395 0.396 0.000 0.604
#> SRR1177703 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177704 3 0.1289 0.933 0.000 0.032 0.968
#> SRR1177705 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177706 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177707 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177708 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177709 1 0.4654 0.731 0.792 0.000 0.208
#> SRR1177710 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177711 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177712 3 0.6737 0.405 0.384 0.016 0.600
#> SRR1177714 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177713 3 0.6126 0.385 0.400 0.000 0.600
#> SRR1177715 2 0.3340 0.851 0.120 0.880 0.000
#> SRR1177716 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177720 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177727 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177728 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177730 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177731 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177732 1 0.0237 0.975 0.996 0.000 0.004
#> SRR1177733 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177735 2 0.6204 0.272 0.424 0.576 0.000
#> SRR1177736 3 0.4399 0.770 0.188 0.000 0.812
#> SRR1177737 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177738 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177739 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177741 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177742 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177743 1 0.1964 0.927 0.944 0.000 0.056
#> SRR1177744 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177745 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177746 2 0.0000 0.977 0.000 1.000 0.000
#> SRR1177747 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177748 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177754 3 0.0000 0.961 0.000 0.000 1.000
#> SRR1177755 1 0.0000 0.978 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.978 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026871 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026872 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026873 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026874 3 0.4855 0.400 0.400 0.000 0.600 0.000
#> SRR1026875 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026876 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026877 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026878 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026879 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026880 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026881 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026882 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026883 4 0.2530 0.878 0.000 0.112 0.000 0.888
#> SRR1026884 4 0.2530 0.878 0.000 0.112 0.000 0.888
#> SRR1026885 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026886 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026887 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026888 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026889 2 0.1211 0.929 0.000 0.960 0.000 0.040
#> SRR1026890 4 0.4164 0.691 0.000 0.264 0.000 0.736
#> SRR1026891 4 0.0188 0.936 0.004 0.000 0.000 0.996
#> SRR1026892 4 0.0188 0.936 0.004 0.000 0.000 0.996
#> SRR1026893 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026894 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026895 4 0.4331 0.653 0.000 0.288 0.000 0.712
#> SRR1026896 4 0.4331 0.653 0.000 0.288 0.000 0.712
#> SRR1026897 3 0.3569 0.761 0.196 0.000 0.804 0.000
#> SRR1026898 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026899 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026900 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026901 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026902 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026903 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026904 4 0.2530 0.879 0.000 0.112 0.000 0.888
#> SRR1026905 4 0.2530 0.879 0.000 0.112 0.000 0.888
#> SRR1026906 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026907 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026908 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026909 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026910 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026911 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026912 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026913 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026914 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026915 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026916 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026917 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026918 2 0.4164 0.657 0.000 0.736 0.000 0.264
#> SRR1026919 2 0.4164 0.657 0.000 0.736 0.000 0.264
#> SRR1026920 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026921 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026922 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026923 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026924 4 0.2345 0.888 0.000 0.100 0.000 0.900
#> SRR1026925 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026926 4 0.2281 0.891 0.000 0.096 0.000 0.904
#> SRR1026927 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026928 2 0.3356 0.780 0.000 0.824 0.000 0.176
#> SRR1026929 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026930 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1026931 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1026932 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026933 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026934 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026935 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026936 4 0.0188 0.938 0.000 0.004 0.000 0.996
#> SRR1026937 4 0.0188 0.938 0.000 0.004 0.000 0.996
#> SRR1026938 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026939 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026940 3 0.3688 0.748 0.208 0.000 0.792 0.000
#> SRR1026941 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026943 1 0.0188 0.980 0.996 0.000 0.000 0.004
#> SRR1026944 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026945 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026947 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026946 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026948 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1026949 2 0.4164 0.643 0.264 0.736 0.000 0.000
#> SRR1026950 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026951 2 0.0336 0.950 0.000 0.992 0.008 0.000
#> SRR1026952 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026953 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.1022 0.929 0.000 0.032 0.000 0.968
#> SRR1026955 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1026956 4 0.0336 0.934 0.008 0.000 0.000 0.992
#> SRR1026957 2 0.0469 0.951 0.000 0.988 0.000 0.012
#> SRR1026958 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026959 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.0817 0.931 0.000 0.024 0.000 0.976
#> SRR1026961 2 0.2149 0.882 0.000 0.912 0.000 0.088
#> SRR1026962 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026963 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026964 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026965 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026966 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.3172 0.837 0.000 0.160 0.000 0.840
#> SRR1026969 4 0.1474 0.920 0.000 0.052 0.000 0.948
#> SRR1026970 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026971 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026972 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026973 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026974 4 0.2704 0.840 0.124 0.000 0.000 0.876
#> SRR1026975 4 0.2704 0.840 0.124 0.000 0.000 0.876
#> SRR1026976 4 0.0188 0.938 0.000 0.004 0.000 0.996
#> SRR1026977 4 0.0188 0.938 0.000 0.004 0.000 0.996
#> SRR1026978 1 0.0188 0.980 0.996 0.000 0.000 0.004
#> SRR1026979 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026980 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1026981 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026982 4 0.1557 0.918 0.000 0.056 0.000 0.944
#> SRR1026983 4 0.1557 0.918 0.000 0.056 0.000 0.944
#> SRR1026984 2 0.3688 0.738 0.000 0.792 0.000 0.208
#> SRR1026985 2 0.3688 0.738 0.000 0.792 0.000 0.208
#> SRR1026986 1 0.0921 0.956 0.972 0.028 0.000 0.000
#> SRR1026987 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026988 1 0.1716 0.916 0.936 0.000 0.064 0.000
#> SRR1026989 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026990 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026991 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026992 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026993 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026994 2 0.1022 0.933 0.000 0.968 0.000 0.032
#> SRR1026995 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1026996 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026997 4 0.0000 0.938 0.000 0.000 0.000 1.000
#> SRR1026998 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1027000 1 0.0188 0.979 0.996 0.004 0.000 0.000
#> SRR1027001 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1027002 2 0.4888 0.310 0.412 0.588 0.000 0.000
#> SRR1027003 2 0.1792 0.889 0.068 0.932 0.000 0.000
#> SRR1027004 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1027005 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1027006 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1027007 1 0.1474 0.928 0.948 0.052 0.000 0.000
#> SRR1027008 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1027009 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1027010 3 0.2868 0.820 0.136 0.000 0.864 0.000
#> SRR1027011 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177668 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177667 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177669 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177670 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177671 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177673 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177674 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177675 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177676 3 0.3311 0.789 0.172 0.000 0.828 0.000
#> SRR1177677 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177678 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177679 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177680 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177681 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177682 1 0.0188 0.979 0.996 0.004 0.000 0.000
#> SRR1177683 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177686 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177687 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177688 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177689 1 0.4817 0.346 0.612 0.388 0.000 0.000
#> SRR1177690 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177691 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177692 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177693 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1177694 2 0.0188 0.956 0.000 0.996 0.000 0.004
#> SRR1177695 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177697 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177696 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177698 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177700 3 0.5602 0.226 0.024 0.000 0.568 0.408
#> SRR1177701 4 0.0592 0.930 0.016 0.000 0.000 0.984
#> SRR1177702 3 0.4855 0.400 0.400 0.000 0.600 0.000
#> SRR1177703 4 0.3444 0.761 0.184 0.000 0.000 0.816
#> SRR1177704 3 0.3873 0.699 0.000 0.228 0.772 0.000
#> SRR1177705 1 0.0336 0.976 0.992 0.000 0.000 0.008
#> SRR1177706 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177707 1 0.4164 0.638 0.736 0.000 0.000 0.264
#> SRR1177708 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177709 1 0.3528 0.742 0.808 0.000 0.192 0.000
#> SRR1177710 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177711 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177712 3 0.7302 0.541 0.272 0.068 0.600 0.060
#> SRR1177714 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177713 3 0.4855 0.400 0.400 0.000 0.600 0.000
#> SRR1177715 2 0.0188 0.952 0.004 0.996 0.000 0.000
#> SRR1177716 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177718 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177719 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177720 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177721 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177725 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177724 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177726 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177728 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177730 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177731 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177732 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177733 1 0.0188 0.980 0.996 0.000 0.000 0.004
#> SRR1177734 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177735 2 0.5558 0.227 0.432 0.548 0.000 0.020
#> SRR1177736 3 0.4040 0.694 0.248 0.000 0.752 0.000
#> SRR1177737 2 0.1022 0.936 0.000 0.968 0.000 0.032
#> SRR1177738 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177739 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177740 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177741 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177742 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177744 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177745 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177746 2 0.0000 0.955 0.000 1.000 0.000 0.000
#> SRR1177747 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177748 3 0.0000 0.931 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177750 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177751 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177752 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177753 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177754 3 0.3837 0.711 0.224 0.000 0.776 0.000
#> SRR1177755 1 0.0000 0.983 1.000 0.000 0.000 0.000
#> SRR1177756 1 0.0000 0.983 1.000 0.000 0.000 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.0000 0.7352 0.000 1.000 0.000 0.000 0.000
#> SRR1026871 2 0.0000 0.7352 0.000 1.000 0.000 0.000 0.000
#> SRR1026872 2 0.0000 0.7352 0.000 1.000 0.000 0.000 0.000
#> SRR1026873 1 0.1410 0.8691 0.940 0.000 0.000 0.000 0.060
#> SRR1026874 3 0.5091 0.4798 0.244 0.000 0.672 0.000 0.084
#> SRR1026875 2 0.1732 0.6883 0.000 0.920 0.000 0.000 0.080
#> SRR1026876 2 0.1732 0.6883 0.000 0.920 0.000 0.000 0.080
#> SRR1026877 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026878 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026879 1 0.3305 0.7290 0.776 0.000 0.224 0.000 0.000
#> SRR1026880 1 0.3305 0.7290 0.776 0.000 0.224 0.000 0.000
#> SRR1026881 2 0.0000 0.7352 0.000 1.000 0.000 0.000 0.000
#> SRR1026882 2 0.0000 0.7352 0.000 1.000 0.000 0.000 0.000
#> SRR1026883 2 0.4171 0.2724 0.000 0.604 0.000 0.396 0.000
#> SRR1026884 2 0.4171 0.2724 0.000 0.604 0.000 0.396 0.000
#> SRR1026885 4 0.0000 0.8549 0.000 0.000 0.000 1.000 0.000
#> SRR1026886 4 0.0000 0.8549 0.000 0.000 0.000 1.000 0.000
#> SRR1026887 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026888 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026889 2 0.2077 0.7204 0.000 0.920 0.000 0.040 0.040
#> SRR1026890 2 0.6030 0.3468 0.000 0.580 0.000 0.196 0.224
#> SRR1026891 4 0.0324 0.8551 0.004 0.000 0.000 0.992 0.004
#> SRR1026892 4 0.0324 0.8551 0.004 0.000 0.000 0.992 0.004
#> SRR1026893 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026894 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026895 2 0.4040 0.5345 0.000 0.724 0.000 0.260 0.016
#> SRR1026896 2 0.4040 0.5345 0.000 0.724 0.000 0.260 0.016
#> SRR1026897 3 0.4478 0.7300 0.100 0.000 0.756 0.000 0.144
#> SRR1026898 1 0.0912 0.8691 0.972 0.000 0.016 0.000 0.012
#> SRR1026899 1 0.5091 0.6822 0.672 0.000 0.244 0.000 0.084
#> SRR1026900 2 0.3730 0.0924 0.000 0.712 0.000 0.000 0.288
#> SRR1026901 2 0.3796 0.0667 0.000 0.700 0.000 0.000 0.300
#> SRR1026902 4 0.0000 0.8549 0.000 0.000 0.000 1.000 0.000
#> SRR1026903 4 0.0000 0.8549 0.000 0.000 0.000 1.000 0.000
#> SRR1026904 2 0.4980 0.2501 0.000 0.584 0.000 0.380 0.036
#> SRR1026905 2 0.4980 0.2501 0.000 0.584 0.000 0.380 0.036
#> SRR1026906 2 0.1544 0.7025 0.000 0.932 0.000 0.000 0.068
#> SRR1026907 2 0.1544 0.7025 0.000 0.932 0.000 0.000 0.068
#> SRR1026908 2 0.1544 0.7025 0.000 0.932 0.000 0.000 0.068
#> SRR1026909 2 0.1544 0.7025 0.000 0.932 0.000 0.000 0.068
#> SRR1026910 4 0.3612 0.7017 0.000 0.228 0.000 0.764 0.008
#> SRR1026911 4 0.3612 0.7017 0.000 0.228 0.000 0.764 0.008
#> SRR1026912 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026913 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026914 2 0.1341 0.7194 0.000 0.944 0.000 0.000 0.056
#> SRR1026915 2 0.1341 0.7194 0.000 0.944 0.000 0.000 0.056
#> SRR1026916 2 0.1410 0.7175 0.000 0.940 0.000 0.000 0.060
#> SRR1026917 2 0.1410 0.7175 0.000 0.940 0.000 0.000 0.060
#> SRR1026918 2 0.3143 0.6179 0.000 0.796 0.000 0.204 0.000
#> SRR1026919 2 0.3143 0.6179 0.000 0.796 0.000 0.204 0.000
#> SRR1026920 2 0.0000 0.7352 0.000 1.000 0.000 0.000 0.000
#> SRR1026921 2 0.0000 0.7352 0.000 1.000 0.000 0.000 0.000
#> SRR1026922 2 0.3796 0.0332 0.000 0.700 0.000 0.000 0.300
#> SRR1026923 2 0.3857 -0.0310 0.000 0.688 0.000 0.000 0.312
#> SRR1026924 2 0.4192 0.2482 0.000 0.596 0.000 0.404 0.000
#> SRR1026925 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026926 2 0.4359 0.2142 0.000 0.584 0.000 0.412 0.004
#> SRR1026927 4 0.0324 0.8551 0.004 0.000 0.000 0.992 0.004
#> SRR1026928 2 0.1270 0.7212 0.000 0.948 0.000 0.052 0.000
#> SRR1026929 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026930 5 0.4287 0.7609 0.000 0.460 0.000 0.000 0.540
#> SRR1026931 5 0.4304 0.7244 0.000 0.484 0.000 0.000 0.516
#> SRR1026932 2 0.1732 0.6883 0.000 0.920 0.000 0.000 0.080
#> SRR1026933 2 0.1732 0.6883 0.000 0.920 0.000 0.000 0.080
#> SRR1026934 2 0.1544 0.7025 0.000 0.932 0.000 0.000 0.068
#> SRR1026935 2 0.1544 0.7025 0.000 0.932 0.000 0.000 0.068
#> SRR1026936 4 0.4549 0.1835 0.000 0.464 0.000 0.528 0.008
#> SRR1026937 4 0.4549 0.1835 0.000 0.464 0.000 0.528 0.008
#> SRR1026938 2 0.0290 0.7332 0.000 0.992 0.000 0.000 0.008
#> SRR1026939 2 0.0290 0.7332 0.000 0.992 0.000 0.000 0.008
#> SRR1026940 3 0.4968 0.6035 0.152 0.000 0.712 0.000 0.136
#> SRR1026941 3 0.3305 0.8162 0.000 0.000 0.776 0.000 0.224
#> SRR1026942 1 0.0566 0.8700 0.984 0.000 0.000 0.004 0.012
#> SRR1026943 1 0.2520 0.8396 0.896 0.000 0.000 0.048 0.056
#> SRR1026944 1 0.1851 0.8624 0.912 0.000 0.000 0.000 0.088
#> SRR1026945 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1026947 2 0.1544 0.7025 0.000 0.932 0.000 0.000 0.068
#> SRR1026946 2 0.1544 0.7025 0.000 0.932 0.000 0.000 0.068
#> SRR1026948 5 0.4307 0.7005 0.000 0.496 0.000 0.000 0.504
#> SRR1026949 5 0.5930 0.4128 0.112 0.372 0.000 0.000 0.516
#> SRR1026950 1 0.2020 0.8587 0.900 0.000 0.000 0.000 0.100
#> SRR1026951 5 0.4276 0.7258 0.000 0.380 0.004 0.000 0.616
#> SRR1026952 1 0.1908 0.8614 0.908 0.000 0.000 0.000 0.092
#> SRR1026953 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1026954 4 0.3590 0.8095 0.000 0.092 0.000 0.828 0.080
#> SRR1026955 2 0.1732 0.6883 0.000 0.920 0.000 0.000 0.080
#> SRR1026956 4 0.0798 0.8508 0.016 0.000 0.000 0.976 0.008
#> SRR1026957 2 0.1704 0.7038 0.000 0.928 0.000 0.004 0.068
#> SRR1026958 1 0.1908 0.8629 0.908 0.000 0.000 0.000 0.092
#> SRR1026959 5 0.4287 0.7605 0.000 0.460 0.000 0.000 0.540
#> SRR1026960 4 0.3521 0.8001 0.008 0.024 0.000 0.824 0.144
#> SRR1026961 2 0.2104 0.7087 0.000 0.916 0.000 0.024 0.060
#> SRR1026962 1 0.1851 0.8624 0.912 0.000 0.000 0.000 0.088
#> SRR1026963 1 0.1952 0.8631 0.912 0.000 0.004 0.000 0.084
#> SRR1026964 4 0.3210 0.7236 0.000 0.212 0.000 0.788 0.000
#> SRR1026965 4 0.3210 0.7236 0.000 0.212 0.000 0.788 0.000
#> SRR1026966 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026967 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026968 2 0.4890 0.4682 0.000 0.680 0.000 0.256 0.064
#> SRR1026969 4 0.4017 0.7948 0.000 0.064 0.000 0.788 0.148
#> SRR1026970 4 0.0290 0.8548 0.000 0.000 0.000 0.992 0.008
#> SRR1026971 4 0.0290 0.8548 0.000 0.000 0.000 0.992 0.008
#> SRR1026972 4 0.0703 0.8515 0.000 0.000 0.000 0.976 0.024
#> SRR1026973 4 0.0703 0.8515 0.000 0.000 0.000 0.976 0.024
#> SRR1026974 4 0.3995 0.7587 0.060 0.000 0.000 0.788 0.152
#> SRR1026975 4 0.3995 0.7587 0.060 0.000 0.000 0.788 0.152
#> SRR1026976 4 0.2654 0.8346 0.000 0.048 0.000 0.888 0.064
#> SRR1026977 4 0.2654 0.8346 0.000 0.048 0.000 0.888 0.064
#> SRR1026978 1 0.4689 0.5954 0.688 0.000 0.000 0.048 0.264
#> SRR1026979 3 0.1478 0.8269 0.000 0.000 0.936 0.000 0.064
#> SRR1026980 5 0.4192 0.7411 0.000 0.404 0.000 0.000 0.596
#> SRR1026981 3 0.3305 0.8162 0.000 0.000 0.776 0.000 0.224
#> SRR1026982 4 0.5162 0.5847 0.000 0.308 0.000 0.628 0.064
#> SRR1026983 4 0.5162 0.5847 0.000 0.308 0.000 0.628 0.064
#> SRR1026984 2 0.2927 0.6830 0.000 0.872 0.000 0.068 0.060
#> SRR1026985 2 0.2927 0.6830 0.000 0.872 0.000 0.068 0.060
#> SRR1026986 5 0.3857 0.2358 0.312 0.000 0.000 0.000 0.688
#> SRR1026987 1 0.1732 0.8476 0.920 0.000 0.000 0.000 0.080
#> SRR1026988 1 0.4708 0.6470 0.668 0.000 0.292 0.000 0.040
#> SRR1026989 3 0.1478 0.8269 0.000 0.000 0.936 0.000 0.064
#> SRR1026990 4 0.0162 0.8550 0.000 0.000 0.000 0.996 0.004
#> SRR1026991 3 0.3274 0.8179 0.000 0.000 0.780 0.000 0.220
#> SRR1026992 1 0.1270 0.8704 0.948 0.000 0.000 0.000 0.052
#> SRR1026993 1 0.1792 0.8679 0.916 0.000 0.000 0.000 0.084
#> SRR1026994 5 0.5924 0.6802 0.080 0.308 0.000 0.020 0.592
#> SRR1026995 1 0.1956 0.8581 0.928 0.000 0.012 0.008 0.052
#> SRR1026996 4 0.1121 0.8454 0.000 0.044 0.000 0.956 0.000
#> SRR1026997 4 0.1121 0.8454 0.000 0.044 0.000 0.956 0.000
#> SRR1026998 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1026999 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1027000 1 0.2753 0.8071 0.856 0.000 0.008 0.000 0.136
#> SRR1027001 3 0.0880 0.8109 0.032 0.000 0.968 0.000 0.000
#> SRR1027002 5 0.4415 0.2435 0.388 0.008 0.000 0.000 0.604
#> SRR1027003 5 0.5551 0.6779 0.096 0.304 0.000 0.000 0.600
#> SRR1027004 1 0.4832 0.7291 0.712 0.000 0.200 0.000 0.088
#> SRR1027005 3 0.3305 0.8162 0.000 0.000 0.776 0.000 0.224
#> SRR1027006 3 0.0794 0.8127 0.028 0.000 0.972 0.000 0.000
#> SRR1027007 1 0.3660 0.7756 0.800 0.016 0.000 0.008 0.176
#> SRR1027008 1 0.1732 0.8703 0.920 0.000 0.000 0.000 0.080
#> SRR1027009 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1027010 3 0.3754 0.7079 0.100 0.000 0.816 0.000 0.084
#> SRR1027011 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1177668 1 0.3582 0.7285 0.768 0.000 0.224 0.000 0.008
#> SRR1177667 1 0.0290 0.8695 0.992 0.000 0.000 0.000 0.008
#> SRR1177669 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1177670 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1177671 5 0.4273 0.7718 0.000 0.448 0.000 0.000 0.552
#> SRR1177672 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1177673 1 0.5013 0.6965 0.684 0.000 0.232 0.000 0.084
#> SRR1177674 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1177675 1 0.1792 0.8632 0.916 0.000 0.000 0.000 0.084
#> SRR1177676 3 0.4291 -0.0128 0.464 0.000 0.536 0.000 0.000
#> SRR1177677 1 0.1270 0.8591 0.948 0.000 0.000 0.000 0.052
#> SRR1177678 1 0.0000 0.8701 1.000 0.000 0.000 0.000 0.000
#> SRR1177679 5 0.4273 0.7718 0.000 0.448 0.000 0.000 0.552
#> SRR1177680 5 0.4256 0.7710 0.000 0.436 0.000 0.000 0.564
#> SRR1177681 1 0.1211 0.8715 0.960 0.000 0.024 0.000 0.016
#> SRR1177682 1 0.4304 0.1443 0.516 0.000 0.000 0.000 0.484
#> SRR1177683 5 0.4273 0.7718 0.000 0.448 0.000 0.000 0.552
#> SRR1177684 5 0.4273 0.7718 0.000 0.448 0.000 0.000 0.552
#> SRR1177685 1 0.1792 0.8632 0.916 0.000 0.000 0.000 0.084
#> SRR1177686 3 0.3305 0.8162 0.000 0.000 0.776 0.000 0.224
#> SRR1177687 5 0.4273 0.7718 0.000 0.448 0.000 0.000 0.552
#> SRR1177688 1 0.1522 0.8633 0.944 0.000 0.012 0.000 0.044
#> SRR1177689 5 0.4663 0.2826 0.376 0.020 0.000 0.000 0.604
#> SRR1177690 1 0.1270 0.8591 0.948 0.000 0.000 0.000 0.052
#> SRR1177691 5 0.4273 0.7718 0.000 0.448 0.000 0.000 0.552
#> SRR1177692 5 0.4273 0.7718 0.000 0.448 0.000 0.000 0.552
#> SRR1177693 2 0.1197 0.7150 0.000 0.952 0.000 0.000 0.048
#> SRR1177694 2 0.0000 0.7352 0.000 1.000 0.000 0.000 0.000
#> SRR1177695 1 0.4171 0.3793 0.604 0.000 0.000 0.000 0.396
#> SRR1177697 1 0.1908 0.8675 0.908 0.000 0.000 0.000 0.092
#> SRR1177696 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1177698 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1177700 3 0.6556 0.1288 0.040 0.000 0.484 0.392 0.084
#> SRR1177701 4 0.0898 0.8493 0.020 0.000 0.000 0.972 0.008
#> SRR1177702 3 0.5854 0.4993 0.252 0.000 0.596 0.000 0.152
#> SRR1177703 4 0.3593 0.7521 0.088 0.000 0.000 0.828 0.084
#> SRR1177704 3 0.5854 0.6604 0.000 0.160 0.600 0.000 0.240
#> SRR1177705 1 0.2520 0.8396 0.896 0.000 0.000 0.048 0.056
#> SRR1177706 5 0.4874 0.7331 0.032 0.368 0.000 0.000 0.600
#> SRR1177707 4 0.5810 0.4912 0.244 0.000 0.000 0.604 0.152
#> SRR1177708 3 0.3463 0.7238 0.008 0.000 0.836 0.124 0.032
#> SRR1177709 1 0.3969 0.6301 0.692 0.000 0.304 0.000 0.004
#> SRR1177710 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1177711 1 0.1792 0.8632 0.916 0.000 0.000 0.000 0.084
#> SRR1177712 3 0.8364 0.4949 0.224 0.020 0.448 0.132 0.176
#> SRR1177714 5 0.4283 0.7650 0.000 0.456 0.000 0.000 0.544
#> SRR1177713 3 0.5819 0.4982 0.252 0.000 0.600 0.000 0.148
#> SRR1177715 5 0.4192 0.7590 0.000 0.404 0.000 0.000 0.596
#> SRR1177716 3 0.3305 0.8162 0.000 0.000 0.776 0.000 0.224
#> SRR1177717 1 0.1792 0.8632 0.916 0.000 0.000 0.000 0.084
#> SRR1177718 1 0.1410 0.8691 0.940 0.000 0.000 0.000 0.060
#> SRR1177719 1 0.5580 0.4141 0.576 0.000 0.000 0.336 0.088
#> SRR1177720 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1177721 5 0.4305 0.7170 0.000 0.488 0.000 0.000 0.512
#> SRR1177722 2 0.3612 0.1829 0.000 0.732 0.000 0.000 0.268
#> SRR1177723 1 0.0794 0.8724 0.972 0.000 0.000 0.000 0.028
#> SRR1177725 1 0.1792 0.8632 0.916 0.000 0.000 0.000 0.084
#> SRR1177724 1 0.0510 0.8689 0.984 0.000 0.000 0.000 0.016
#> SRR1177726 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1177727 1 0.0290 0.8709 0.992 0.000 0.008 0.000 0.000
#> SRR1177728 3 0.0000 0.8236 0.000 0.000 1.000 0.000 0.000
#> SRR1177729 1 0.1732 0.8680 0.920 0.000 0.000 0.000 0.080
#> SRR1177730 3 0.0963 0.8089 0.036 0.000 0.964 0.000 0.000
#> SRR1177731 1 0.3461 0.7289 0.772 0.000 0.224 0.000 0.004
#> SRR1177732 1 0.3305 0.7290 0.776 0.000 0.224 0.000 0.000
#> SRR1177733 1 0.2300 0.8447 0.908 0.000 0.000 0.040 0.052
#> SRR1177734 1 0.0798 0.8729 0.976 0.000 0.000 0.008 0.016
#> SRR1177735 5 0.4130 0.2905 0.292 0.000 0.000 0.012 0.696
#> SRR1177736 3 0.5475 0.3154 0.308 0.000 0.604 0.000 0.088
#> SRR1177737 2 0.1571 0.7161 0.000 0.936 0.000 0.004 0.060
#> SRR1177738 3 0.3452 0.8125 0.000 0.000 0.756 0.000 0.244
#> SRR1177739 1 0.0290 0.8706 0.992 0.000 0.000 0.008 0.000
#> SRR1177740 1 0.1740 0.8553 0.932 0.000 0.000 0.012 0.056
#> SRR1177741 1 0.0290 0.8695 0.992 0.000 0.000 0.000 0.008
#> SRR1177742 3 0.0162 0.8240 0.000 0.000 0.996 0.000 0.004
#> SRR1177743 1 0.3452 0.7063 0.756 0.000 0.244 0.000 0.000
#> SRR1177744 3 0.0963 0.8089 0.036 0.000 0.964 0.000 0.000
#> SRR1177745 5 0.4161 0.7427 0.000 0.392 0.000 0.000 0.608
#> SRR1177746 5 0.4256 0.7710 0.000 0.436 0.000 0.000 0.564
#> SRR1177747 3 0.0162 0.8240 0.000 0.000 0.996 0.000 0.004
#> SRR1177748 3 0.1544 0.8270 0.000 0.000 0.932 0.000 0.068
#> SRR1177749 1 0.1732 0.8645 0.920 0.000 0.000 0.000 0.080
#> SRR1177750 1 0.1270 0.8591 0.948 0.000 0.000 0.000 0.052
#> SRR1177751 1 0.1341 0.8582 0.944 0.000 0.000 0.000 0.056
#> SRR1177752 1 0.0162 0.8700 0.996 0.000 0.000 0.000 0.004
#> SRR1177753 1 0.0404 0.8691 0.988 0.000 0.000 0.000 0.012
#> SRR1177754 1 0.4288 0.4764 0.612 0.000 0.384 0.000 0.004
#> SRR1177755 1 0.2020 0.8629 0.900 0.000 0.000 0.000 0.100
#> SRR1177756 1 0.1341 0.8590 0.944 0.000 0.000 0.000 0.056
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 5 0.3737 0.38504 0.000 0.392 0.000 0.000 0.608 0.000
#> SRR1026871 5 0.3737 0.38504 0.000 0.392 0.000 0.000 0.608 0.000
#> SRR1026872 5 0.3727 0.39515 0.000 0.388 0.000 0.000 0.612 0.000
#> SRR1026873 1 0.3969 0.77157 0.740 0.000 0.000 0.004 0.044 0.212
#> SRR1026874 6 0.4166 0.69779 0.068 0.000 0.104 0.000 0.044 0.784
#> SRR1026875 2 0.3833 0.16318 0.000 0.556 0.000 0.000 0.444 0.000
#> SRR1026876 2 0.3833 0.16318 0.000 0.556 0.000 0.000 0.444 0.000
#> SRR1026877 3 0.0000 0.89454 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026878 3 0.0000 0.89454 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026879 6 0.2912 0.61801 0.216 0.000 0.000 0.000 0.000 0.784
#> SRR1026880 6 0.2854 0.62626 0.208 0.000 0.000 0.000 0.000 0.792
#> SRR1026881 5 0.3547 0.50501 0.000 0.332 0.000 0.000 0.668 0.000
#> SRR1026882 5 0.3547 0.50501 0.000 0.332 0.000 0.000 0.668 0.000
#> SRR1026883 5 0.4179 0.41493 0.000 0.008 0.000 0.324 0.652 0.016
#> SRR1026884 5 0.4179 0.41493 0.000 0.008 0.000 0.324 0.652 0.016
#> SRR1026885 4 0.1895 0.72161 0.000 0.000 0.000 0.912 0.072 0.016
#> SRR1026886 4 0.1895 0.72161 0.000 0.000 0.000 0.912 0.072 0.016
#> SRR1026887 3 0.0291 0.89028 0.000 0.000 0.992 0.004 0.004 0.000
#> SRR1026888 3 0.0291 0.89028 0.000 0.000 0.992 0.004 0.004 0.000
#> SRR1026889 5 0.4591 0.09069 0.000 0.464 0.000 0.036 0.500 0.000
#> SRR1026890 5 0.5520 0.38078 0.000 0.004 0.120 0.248 0.612 0.016
#> SRR1026891 4 0.1643 0.73949 0.068 0.000 0.000 0.924 0.000 0.008
#> SRR1026892 4 0.1643 0.73949 0.068 0.000 0.000 0.924 0.000 0.008
#> SRR1026893 3 0.0000 0.89454 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026894 3 0.0000 0.89454 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026895 5 0.5301 0.52307 0.000 0.044 0.068 0.180 0.692 0.016
#> SRR1026896 5 0.5301 0.52307 0.000 0.044 0.068 0.180 0.692 0.016
#> SRR1026897 6 0.4446 0.29607 0.016 0.000 0.424 0.000 0.008 0.552
#> SRR1026898 1 0.4538 0.58459 0.612 0.000 0.000 0.000 0.048 0.340
#> SRR1026899 6 0.1075 0.71417 0.048 0.000 0.000 0.000 0.000 0.952
#> SRR1026900 2 0.3482 0.42487 0.000 0.684 0.000 0.000 0.316 0.000
#> SRR1026901 2 0.4578 0.39898 0.000 0.624 0.056 0.000 0.320 0.000
#> SRR1026902 4 0.1923 0.72407 0.004 0.000 0.000 0.916 0.064 0.016
#> SRR1026903 4 0.1923 0.72407 0.004 0.000 0.000 0.916 0.064 0.016
#> SRR1026904 5 0.4377 0.38856 0.000 0.004 0.012 0.316 0.652 0.016
#> SRR1026905 5 0.4377 0.38856 0.000 0.004 0.012 0.316 0.652 0.016
#> SRR1026906 2 0.3862 0.06048 0.000 0.524 0.000 0.000 0.476 0.000
#> SRR1026907 2 0.3862 0.06048 0.000 0.524 0.000 0.000 0.476 0.000
#> SRR1026908 2 0.3862 0.06048 0.000 0.524 0.000 0.000 0.476 0.000
#> SRR1026909 2 0.3862 0.06048 0.000 0.524 0.000 0.000 0.476 0.000
#> SRR1026910 4 0.4099 0.41685 0.000 0.000 0.000 0.612 0.372 0.016
#> SRR1026911 4 0.4099 0.41685 0.000 0.000 0.000 0.612 0.372 0.016
#> SRR1026912 3 0.0551 0.88380 0.000 0.000 0.984 0.004 0.004 0.008
#> SRR1026913 3 0.0551 0.88380 0.000 0.000 0.984 0.004 0.004 0.008
#> SRR1026914 5 0.3586 0.53458 0.000 0.280 0.000 0.004 0.712 0.004
#> SRR1026915 5 0.3586 0.53458 0.000 0.280 0.000 0.004 0.712 0.004
#> SRR1026916 5 0.3586 0.53458 0.000 0.280 0.000 0.004 0.712 0.004
#> SRR1026917 5 0.3586 0.53458 0.000 0.280 0.000 0.004 0.712 0.004
#> SRR1026918 5 0.4228 0.58600 0.000 0.072 0.000 0.212 0.716 0.000
#> SRR1026919 5 0.4228 0.58600 0.000 0.072 0.000 0.212 0.716 0.000
#> SRR1026920 5 0.3547 0.50501 0.000 0.332 0.000 0.000 0.668 0.000
#> SRR1026921 5 0.3547 0.50501 0.000 0.332 0.000 0.000 0.668 0.000
#> SRR1026922 2 0.3409 0.44111 0.000 0.700 0.000 0.000 0.300 0.000
#> SRR1026923 2 0.3390 0.44623 0.000 0.704 0.000 0.000 0.296 0.000
#> SRR1026924 5 0.4090 0.40298 0.000 0.004 0.000 0.328 0.652 0.016
#> SRR1026925 3 0.0000 0.89454 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026926 5 0.4174 0.35560 0.000 0.004 0.000 0.352 0.628 0.016
#> SRR1026927 4 0.1410 0.74043 0.044 0.000 0.000 0.944 0.004 0.008
#> SRR1026928 5 0.4223 0.58589 0.000 0.204 0.000 0.076 0.720 0.000
#> SRR1026929 3 0.0000 0.89454 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026930 2 0.1765 0.60411 0.000 0.904 0.000 0.000 0.096 0.000
#> SRR1026931 2 0.1765 0.60420 0.000 0.904 0.000 0.000 0.096 0.000
#> SRR1026932 2 0.3833 0.16318 0.000 0.556 0.000 0.000 0.444 0.000
#> SRR1026933 2 0.3833 0.16318 0.000 0.556 0.000 0.000 0.444 0.000
#> SRR1026934 5 0.3869 -0.02529 0.000 0.500 0.000 0.000 0.500 0.000
#> SRR1026935 5 0.3869 -0.02529 0.000 0.500 0.000 0.000 0.500 0.000
#> SRR1026936 5 0.4234 0.09187 0.000 0.000 0.000 0.440 0.544 0.016
#> SRR1026937 5 0.4234 0.09187 0.000 0.000 0.000 0.440 0.544 0.016
#> SRR1026938 5 0.3727 0.40764 0.000 0.388 0.000 0.000 0.612 0.000
#> SRR1026939 5 0.3727 0.40764 0.000 0.388 0.000 0.000 0.612 0.000
#> SRR1026940 6 0.3656 0.65777 0.064 0.000 0.024 0.004 0.084 0.824
#> SRR1026941 3 0.1663 0.83943 0.000 0.000 0.912 0.000 0.000 0.088
#> SRR1026942 1 0.1088 0.80072 0.960 0.000 0.000 0.000 0.016 0.024
#> SRR1026943 1 0.2169 0.76989 0.900 0.000 0.000 0.012 0.080 0.008
#> SRR1026944 1 0.4366 0.75986 0.712 0.000 0.000 0.004 0.072 0.212
#> SRR1026945 6 0.3244 0.66144 0.000 0.000 0.268 0.000 0.000 0.732
#> SRR1026947 2 0.3862 0.06048 0.000 0.524 0.000 0.000 0.476 0.000
#> SRR1026946 2 0.3862 0.06048 0.000 0.524 0.000 0.000 0.476 0.000
#> SRR1026948 2 0.2260 0.58316 0.000 0.860 0.000 0.000 0.140 0.000
#> SRR1026949 2 0.7475 0.15853 0.136 0.392 0.000 0.036 0.348 0.088
#> SRR1026950 1 0.4925 0.74718 0.692 0.000 0.000 0.028 0.084 0.196
#> SRR1026951 2 0.3393 0.55584 0.000 0.784 0.000 0.004 0.192 0.020
#> SRR1026952 1 0.4650 0.74814 0.688 0.000 0.000 0.008 0.080 0.224
#> SRR1026953 6 0.3266 0.65806 0.000 0.000 0.272 0.000 0.000 0.728
#> SRR1026954 4 0.4704 0.60324 0.000 0.000 0.056 0.660 0.272 0.012
#> SRR1026955 2 0.3833 0.16318 0.000 0.556 0.000 0.000 0.444 0.000
#> SRR1026956 4 0.3043 0.71153 0.140 0.000 0.000 0.832 0.020 0.008
#> SRR1026957 2 0.4091 0.05128 0.000 0.520 0.000 0.008 0.472 0.000
#> SRR1026958 1 0.3891 0.77828 0.780 0.000 0.000 0.008 0.072 0.140
#> SRR1026959 2 0.1387 0.61068 0.000 0.932 0.000 0.000 0.068 0.000
#> SRR1026960 4 0.4460 0.67361 0.040 0.000 0.000 0.700 0.240 0.020
#> SRR1026961 5 0.3903 0.58403 0.000 0.172 0.000 0.060 0.764 0.004
#> SRR1026962 1 0.4338 0.76214 0.716 0.000 0.000 0.004 0.072 0.208
#> SRR1026963 1 0.4419 0.75575 0.704 0.000 0.000 0.004 0.072 0.220
#> SRR1026964 4 0.4076 0.43099 0.000 0.000 0.000 0.620 0.364 0.016
#> SRR1026965 4 0.4076 0.43099 0.000 0.000 0.000 0.620 0.364 0.016
#> SRR1026966 3 0.0000 0.89454 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026967 3 0.0000 0.89454 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026968 5 0.4812 0.49782 0.000 0.068 0.000 0.232 0.680 0.020
#> SRR1026969 4 0.4235 0.65079 0.004 0.000 0.000 0.672 0.292 0.032
#> SRR1026970 4 0.2796 0.73524 0.080 0.000 0.000 0.868 0.044 0.008
#> SRR1026971 4 0.2796 0.73524 0.080 0.000 0.000 0.868 0.044 0.008
#> SRR1026972 4 0.3419 0.71738 0.072 0.000 0.000 0.824 0.096 0.008
#> SRR1026973 4 0.3419 0.71738 0.072 0.000 0.000 0.824 0.096 0.008
#> SRR1026974 4 0.5695 0.59192 0.144 0.000 0.000 0.652 0.120 0.084
#> SRR1026975 4 0.5695 0.59192 0.144 0.000 0.000 0.652 0.120 0.084
#> SRR1026976 4 0.4117 0.66779 0.000 0.000 0.044 0.740 0.204 0.012
#> SRR1026977 4 0.4117 0.66779 0.000 0.000 0.044 0.740 0.204 0.012
#> SRR1026978 1 0.2891 0.75586 0.864 0.024 0.000 0.008 0.096 0.008
#> SRR1026979 3 0.3868 -0.21120 0.000 0.000 0.504 0.000 0.000 0.496
#> SRR1026980 2 0.2191 0.57860 0.000 0.876 0.000 0.000 0.120 0.004
#> SRR1026981 3 0.1663 0.83943 0.000 0.000 0.912 0.000 0.000 0.088
#> SRR1026982 4 0.5119 0.17711 0.000 0.052 0.000 0.480 0.456 0.012
#> SRR1026983 4 0.5119 0.17711 0.000 0.052 0.000 0.480 0.456 0.012
#> SRR1026984 5 0.4033 0.58519 0.000 0.156 0.000 0.080 0.760 0.004
#> SRR1026985 5 0.4033 0.58519 0.000 0.156 0.000 0.080 0.760 0.004
#> SRR1026986 1 0.5454 0.66219 0.652 0.168 0.000 0.000 0.144 0.036
#> SRR1026987 1 0.2937 0.74750 0.848 0.056 0.000 0.000 0.096 0.000
#> SRR1026988 6 0.1349 0.71843 0.056 0.000 0.004 0.000 0.000 0.940
#> SRR1026989 6 0.3868 0.19805 0.000 0.000 0.492 0.000 0.000 0.508
#> SRR1026990 4 0.0520 0.73455 0.000 0.000 0.000 0.984 0.008 0.008
#> SRR1026991 3 0.0363 0.88810 0.000 0.000 0.988 0.000 0.000 0.012
#> SRR1026992 1 0.3628 0.78398 0.776 0.000 0.000 0.004 0.036 0.184
#> SRR1026993 1 0.2532 0.79679 0.884 0.000 0.000 0.004 0.052 0.060
#> SRR1026994 2 0.4117 0.43768 0.144 0.756 0.000 0.004 0.096 0.000
#> SRR1026995 1 0.3723 0.73676 0.816 0.020 0.000 0.004 0.096 0.064
#> SRR1026996 4 0.3037 0.68291 0.000 0.000 0.004 0.820 0.160 0.016
#> SRR1026997 4 0.3037 0.68291 0.000 0.000 0.004 0.820 0.160 0.016
#> SRR1026998 3 0.0000 0.89454 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026999 3 0.0000 0.89454 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1027000 1 0.5173 0.60225 0.664 0.216 0.000 0.000 0.088 0.032
#> SRR1027001 6 0.1863 0.72283 0.000 0.000 0.104 0.000 0.000 0.896
#> SRR1027002 1 0.5259 0.23567 0.468 0.436 0.000 0.000 0.096 0.000
#> SRR1027003 2 0.3845 0.44800 0.140 0.772 0.000 0.000 0.088 0.000
#> SRR1027004 6 0.4333 0.46720 0.200 0.000 0.000 0.004 0.076 0.720
#> SRR1027005 3 0.1663 0.83943 0.000 0.000 0.912 0.000 0.000 0.088
#> SRR1027006 6 0.1863 0.72283 0.000 0.000 0.104 0.000 0.000 0.896
#> SRR1027007 1 0.2895 0.76953 0.852 0.000 0.000 0.016 0.116 0.016
#> SRR1027008 1 0.2641 0.79912 0.876 0.004 0.000 0.000 0.072 0.048
#> SRR1027009 6 0.3266 0.65806 0.000 0.000 0.272 0.000 0.000 0.728
#> SRR1027010 6 0.0972 0.72086 0.008 0.000 0.028 0.000 0.000 0.964
#> SRR1027011 6 0.3266 0.65806 0.000 0.000 0.272 0.000 0.000 0.728
#> SRR1177668 6 0.3217 0.61680 0.224 0.000 0.000 0.000 0.008 0.768
#> SRR1177667 1 0.2513 0.79472 0.852 0.000 0.000 0.000 0.008 0.140
#> SRR1177669 6 0.3198 0.66724 0.000 0.000 0.260 0.000 0.000 0.740
#> SRR1177670 6 0.3198 0.66724 0.000 0.000 0.260 0.000 0.000 0.740
#> SRR1177671 2 0.0146 0.61306 0.000 0.996 0.000 0.000 0.004 0.000
#> SRR1177672 6 0.3023 0.68105 0.000 0.000 0.232 0.000 0.000 0.768
#> SRR1177673 6 0.2799 0.66277 0.076 0.000 0.000 0.000 0.064 0.860
#> SRR1177674 6 0.3198 0.66724 0.000 0.000 0.260 0.000 0.000 0.740
#> SRR1177675 1 0.4338 0.76214 0.716 0.000 0.000 0.004 0.072 0.208
#> SRR1177676 6 0.2106 0.72295 0.064 0.000 0.032 0.000 0.000 0.904
#> SRR1177677 1 0.2376 0.76893 0.884 0.012 0.000 0.000 0.096 0.008
#> SRR1177678 1 0.2946 0.78000 0.808 0.000 0.000 0.004 0.004 0.184
#> SRR1177679 2 0.0000 0.61268 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177680 2 0.0363 0.60895 0.000 0.988 0.000 0.000 0.012 0.000
#> SRR1177681 6 0.4390 -0.24237 0.472 0.004 0.000 0.000 0.016 0.508
#> SRR1177682 1 0.5634 0.39445 0.508 0.380 0.000 0.000 0.092 0.020
#> SRR1177683 2 0.0000 0.61268 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177684 2 0.0000 0.61268 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177685 1 0.4443 0.75331 0.696 0.000 0.000 0.004 0.068 0.232
#> SRR1177686 3 0.2003 0.80919 0.000 0.000 0.884 0.000 0.000 0.116
#> SRR1177687 2 0.0000 0.61268 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177688 1 0.3686 0.76035 0.820 0.036 0.000 0.000 0.080 0.064
#> SRR1177689 2 0.5137 0.01864 0.352 0.552 0.000 0.000 0.096 0.000
#> SRR1177690 1 0.1970 0.77770 0.900 0.000 0.000 0.000 0.092 0.008
#> SRR1177691 2 0.0000 0.61268 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177692 2 0.0000 0.61268 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177693 2 0.3867 0.00794 0.000 0.512 0.000 0.000 0.488 0.000
#> SRR1177694 5 0.3578 0.49232 0.000 0.340 0.000 0.000 0.660 0.000
#> SRR1177695 1 0.4909 0.62538 0.680 0.216 0.000 0.000 0.084 0.020
#> SRR1177697 1 0.2209 0.79355 0.904 0.000 0.000 0.004 0.052 0.040
#> SRR1177696 6 0.3221 0.66447 0.000 0.000 0.264 0.000 0.000 0.736
#> SRR1177698 6 0.3198 0.66724 0.000 0.000 0.260 0.000 0.000 0.740
#> SRR1177700 6 0.6585 0.06062 0.044 0.000 0.044 0.372 0.068 0.472
#> SRR1177701 4 0.3147 0.69960 0.160 0.000 0.000 0.816 0.016 0.008
#> SRR1177702 6 0.6741 0.23051 0.124 0.000 0.368 0.004 0.076 0.428
#> SRR1177703 4 0.4916 0.57751 0.196 0.000 0.000 0.696 0.072 0.036
#> SRR1177704 3 0.3073 0.71799 0.000 0.152 0.824 0.000 0.016 0.008
#> SRR1177705 1 0.2056 0.77170 0.904 0.000 0.000 0.012 0.080 0.004
#> SRR1177706 2 0.3167 0.49387 0.072 0.832 0.000 0.000 0.096 0.000
#> SRR1177707 4 0.6172 0.48945 0.216 0.000 0.000 0.580 0.128 0.076
#> SRR1177708 6 0.5497 0.53102 0.000 0.000 0.240 0.120 0.024 0.616
#> SRR1177709 6 0.2531 0.70517 0.132 0.000 0.012 0.000 0.000 0.856
#> SRR1177710 6 0.3266 0.65806 0.000 0.000 0.272 0.000 0.000 0.728
#> SRR1177711 1 0.4418 0.75458 0.700 0.000 0.000 0.004 0.068 0.228
#> SRR1177712 3 0.7491 0.41508 0.168 0.028 0.528 0.172 0.068 0.036
#> SRR1177714 2 0.1267 0.61168 0.000 0.940 0.000 0.000 0.060 0.000
#> SRR1177713 6 0.6405 0.47734 0.132 0.000 0.248 0.004 0.068 0.548
#> SRR1177715 2 0.1856 0.56360 0.032 0.920 0.000 0.000 0.048 0.000
#> SRR1177716 3 0.1663 0.83943 0.000 0.000 0.912 0.000 0.000 0.088
#> SRR1177717 1 0.4310 0.76383 0.720 0.000 0.000 0.004 0.072 0.204
#> SRR1177718 1 0.3695 0.78407 0.772 0.000 0.000 0.004 0.040 0.184
#> SRR1177719 4 0.6385 -0.07200 0.408 0.000 0.000 0.424 0.072 0.096
#> SRR1177720 3 0.0260 0.89147 0.000 0.000 0.992 0.000 0.000 0.008
#> SRR1177721 2 0.1863 0.60122 0.000 0.896 0.000 0.000 0.104 0.000
#> SRR1177722 2 0.3244 0.47751 0.000 0.732 0.000 0.000 0.268 0.000
#> SRR1177723 1 0.2126 0.80733 0.904 0.000 0.000 0.004 0.020 0.072
#> SRR1177725 1 0.4338 0.76214 0.716 0.000 0.000 0.004 0.072 0.208
#> SRR1177724 1 0.0865 0.80384 0.964 0.000 0.000 0.000 0.000 0.036
#> SRR1177726 6 0.3266 0.65806 0.000 0.000 0.272 0.000 0.000 0.728
#> SRR1177727 1 0.3152 0.77614 0.792 0.000 0.000 0.004 0.008 0.196
#> SRR1177728 6 0.3266 0.65806 0.000 0.000 0.272 0.000 0.000 0.728
#> SRR1177729 1 0.2532 0.79741 0.884 0.000 0.000 0.004 0.052 0.060
#> SRR1177730 6 0.1863 0.72283 0.000 0.000 0.104 0.000 0.000 0.896
#> SRR1177731 6 0.2883 0.62571 0.212 0.000 0.000 0.000 0.000 0.788
#> SRR1177732 6 0.2883 0.62330 0.212 0.000 0.000 0.000 0.000 0.788
#> SRR1177733 1 0.2163 0.76901 0.892 0.004 0.000 0.008 0.096 0.000
#> SRR1177734 1 0.3288 0.78753 0.800 0.000 0.000 0.008 0.016 0.176
#> SRR1177735 2 0.7306 -0.12615 0.308 0.448 0.000 0.036 0.124 0.084
#> SRR1177736 6 0.2817 0.68150 0.040 0.000 0.008 0.004 0.076 0.872
#> SRR1177737 5 0.3713 0.52728 0.000 0.284 0.000 0.008 0.704 0.004
#> SRR1177738 3 0.0146 0.89257 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177739 1 0.3352 0.76965 0.776 0.000 0.000 0.008 0.008 0.208
#> SRR1177740 1 0.1858 0.77307 0.904 0.000 0.000 0.004 0.092 0.000
#> SRR1177741 1 0.2946 0.78158 0.812 0.000 0.000 0.000 0.012 0.176
#> SRR1177742 6 0.3288 0.65375 0.000 0.000 0.276 0.000 0.000 0.724
#> SRR1177743 6 0.2219 0.69375 0.136 0.000 0.000 0.000 0.000 0.864
#> SRR1177744 6 0.1863 0.72283 0.000 0.000 0.104 0.000 0.000 0.896
#> SRR1177745 2 0.1075 0.59358 0.000 0.952 0.000 0.000 0.048 0.000
#> SRR1177746 2 0.0363 0.60895 0.000 0.988 0.000 0.000 0.012 0.000
#> SRR1177747 6 0.3428 0.62029 0.000 0.000 0.304 0.000 0.000 0.696
#> SRR1177748 3 0.3843 -0.05072 0.000 0.000 0.548 0.000 0.000 0.452
#> SRR1177749 1 0.4314 0.76071 0.712 0.000 0.000 0.004 0.064 0.220
#> SRR1177750 1 0.1908 0.77289 0.900 0.000 0.000 0.000 0.096 0.004
#> SRR1177751 1 0.2554 0.76633 0.876 0.028 0.000 0.000 0.092 0.004
#> SRR1177752 1 0.1267 0.80740 0.940 0.000 0.000 0.000 0.000 0.060
#> SRR1177753 1 0.3680 0.78290 0.784 0.000 0.000 0.000 0.072 0.144
#> SRR1177754 6 0.2618 0.71079 0.116 0.000 0.024 0.000 0.000 0.860
#> SRR1177755 1 0.3159 0.78143 0.840 0.000 0.000 0.004 0.072 0.084
#> SRR1177756 1 0.1765 0.77295 0.904 0.000 0.000 0.000 0.096 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["MAD", "pam"]
# you can also extract it by
# res = res_list["MAD:pam"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'MAD' method.
#> Subgroups are detected by 'pam' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 4.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.625 0.813 0.921 0.4909 0.499 0.499
#> 3 3 0.485 0.587 0.797 0.2314 0.757 0.575
#> 4 4 0.800 0.826 0.924 0.1670 0.749 0.467
#> 5 5 0.836 0.834 0.916 0.0548 0.956 0.853
#> 6 6 0.758 0.742 0.857 0.0810 0.927 0.722
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 4
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.886 0.000 1.000
#> SRR1026871 2 0.0000 0.886 0.000 1.000
#> SRR1026872 2 0.0000 0.886 0.000 1.000
#> SRR1026873 1 0.0000 0.927 1.000 0.000
#> SRR1026874 1 0.0000 0.927 1.000 0.000
#> SRR1026875 2 0.0000 0.886 0.000 1.000
#> SRR1026876 2 0.0000 0.886 0.000 1.000
#> SRR1026877 2 0.9732 0.419 0.404 0.596
#> SRR1026878 2 0.9732 0.419 0.404 0.596
#> SRR1026879 1 0.0000 0.927 1.000 0.000
#> SRR1026880 1 0.0000 0.927 1.000 0.000
#> SRR1026881 2 0.0000 0.886 0.000 1.000
#> SRR1026882 2 0.0000 0.886 0.000 1.000
#> SRR1026883 2 0.0000 0.886 0.000 1.000
#> SRR1026884 2 0.0000 0.886 0.000 1.000
#> SRR1026885 2 0.7056 0.751 0.192 0.808
#> SRR1026886 2 0.7056 0.751 0.192 0.808
#> SRR1026887 2 0.9732 0.419 0.404 0.596
#> SRR1026888 2 0.9732 0.419 0.404 0.596
#> SRR1026889 2 0.0000 0.886 0.000 1.000
#> SRR1026890 2 0.0000 0.886 0.000 1.000
#> SRR1026891 1 0.7453 0.687 0.788 0.212
#> SRR1026892 1 0.7883 0.649 0.764 0.236
#> SRR1026893 2 0.9732 0.419 0.404 0.596
#> SRR1026894 2 0.9732 0.419 0.404 0.596
#> SRR1026895 2 0.0000 0.886 0.000 1.000
#> SRR1026896 2 0.0000 0.886 0.000 1.000
#> SRR1026897 1 0.0000 0.927 1.000 0.000
#> SRR1026898 1 0.0000 0.927 1.000 0.000
#> SRR1026899 1 0.0000 0.927 1.000 0.000
#> SRR1026900 2 0.0376 0.884 0.004 0.996
#> SRR1026901 2 0.0000 0.886 0.000 1.000
#> SRR1026902 2 0.7056 0.751 0.192 0.808
#> SRR1026903 2 0.7056 0.751 0.192 0.808
#> SRR1026904 2 0.0000 0.886 0.000 1.000
#> SRR1026905 2 0.0000 0.886 0.000 1.000
#> SRR1026906 2 0.0000 0.886 0.000 1.000
#> SRR1026907 2 0.0000 0.886 0.000 1.000
#> SRR1026908 2 0.0000 0.886 0.000 1.000
#> SRR1026909 2 0.0000 0.886 0.000 1.000
#> SRR1026910 2 0.0000 0.886 0.000 1.000
#> SRR1026911 2 0.0000 0.886 0.000 1.000
#> SRR1026912 2 0.9248 0.546 0.340 0.660
#> SRR1026913 2 0.9635 0.454 0.388 0.612
#> SRR1026914 2 0.0000 0.886 0.000 1.000
#> SRR1026915 2 0.0000 0.886 0.000 1.000
#> SRR1026916 2 0.0000 0.886 0.000 1.000
#> SRR1026917 2 0.0000 0.886 0.000 1.000
#> SRR1026918 2 0.0000 0.886 0.000 1.000
#> SRR1026919 2 0.0000 0.886 0.000 1.000
#> SRR1026920 2 0.0000 0.886 0.000 1.000
#> SRR1026921 2 0.0000 0.886 0.000 1.000
#> SRR1026922 2 0.0000 0.886 0.000 1.000
#> SRR1026923 2 0.0000 0.886 0.000 1.000
#> SRR1026924 2 0.0000 0.886 0.000 1.000
#> SRR1026925 2 0.9552 0.478 0.376 0.624
#> SRR1026926 2 0.0000 0.886 0.000 1.000
#> SRR1026927 2 0.9732 0.419 0.404 0.596
#> SRR1026928 2 0.0000 0.886 0.000 1.000
#> SRR1026929 2 0.7056 0.751 0.192 0.808
#> SRR1026930 2 0.0000 0.886 0.000 1.000
#> SRR1026931 2 0.0000 0.886 0.000 1.000
#> SRR1026932 2 0.0000 0.886 0.000 1.000
#> SRR1026933 2 0.0000 0.886 0.000 1.000
#> SRR1026934 2 0.0000 0.886 0.000 1.000
#> SRR1026935 2 0.0000 0.886 0.000 1.000
#> SRR1026936 2 0.0000 0.886 0.000 1.000
#> SRR1026937 2 0.0000 0.886 0.000 1.000
#> SRR1026938 2 0.0000 0.886 0.000 1.000
#> SRR1026939 2 0.0000 0.886 0.000 1.000
#> SRR1026940 1 0.9710 0.241 0.600 0.400
#> SRR1026941 1 0.0000 0.927 1.000 0.000
#> SRR1026942 1 0.0000 0.927 1.000 0.000
#> SRR1026943 1 0.0000 0.927 1.000 0.000
#> SRR1026944 1 0.0000 0.927 1.000 0.000
#> SRR1026945 1 0.0000 0.927 1.000 0.000
#> SRR1026947 2 0.0000 0.886 0.000 1.000
#> SRR1026946 2 0.0000 0.886 0.000 1.000
#> SRR1026948 2 0.0000 0.886 0.000 1.000
#> SRR1026949 1 0.9686 0.298 0.604 0.396
#> SRR1026950 1 0.7453 0.682 0.788 0.212
#> SRR1026951 2 0.0376 0.884 0.004 0.996
#> SRR1026952 1 0.0000 0.927 1.000 0.000
#> SRR1026953 1 0.0000 0.927 1.000 0.000
#> SRR1026954 2 0.7056 0.751 0.192 0.808
#> SRR1026955 2 0.0000 0.886 0.000 1.000
#> SRR1026956 1 0.0000 0.927 1.000 0.000
#> SRR1026957 2 0.0000 0.886 0.000 1.000
#> SRR1026958 1 0.0000 0.927 1.000 0.000
#> SRR1026959 2 0.0000 0.886 0.000 1.000
#> SRR1026960 2 0.0376 0.884 0.004 0.996
#> SRR1026961 2 0.0000 0.886 0.000 1.000
#> SRR1026962 1 0.0000 0.927 1.000 0.000
#> SRR1026963 1 0.0000 0.927 1.000 0.000
#> SRR1026964 2 0.0000 0.886 0.000 1.000
#> SRR1026965 2 0.0000 0.886 0.000 1.000
#> SRR1026966 2 0.9732 0.419 0.404 0.596
#> SRR1026967 2 0.9754 0.409 0.408 0.592
#> SRR1026968 2 0.0000 0.886 0.000 1.000
#> SRR1026969 2 0.6438 0.775 0.164 0.836
#> SRR1026970 1 0.9286 0.424 0.656 0.344
#> SRR1026971 1 0.8016 0.637 0.756 0.244
#> SRR1026972 1 0.7376 0.693 0.792 0.208
#> SRR1026973 1 0.7376 0.693 0.792 0.208
#> SRR1026974 1 0.9580 0.300 0.620 0.380
#> SRR1026975 1 0.9552 0.312 0.624 0.376
#> SRR1026976 2 0.7056 0.751 0.192 0.808
#> SRR1026977 2 0.7056 0.751 0.192 0.808
#> SRR1026978 1 0.0376 0.924 0.996 0.004
#> SRR1026979 1 0.0000 0.927 1.000 0.000
#> SRR1026980 1 0.9909 0.156 0.556 0.444
#> SRR1026981 2 0.9732 0.419 0.404 0.596
#> SRR1026982 2 0.0000 0.886 0.000 1.000
#> SRR1026983 2 0.0000 0.886 0.000 1.000
#> SRR1026984 2 0.0000 0.886 0.000 1.000
#> SRR1026985 2 0.0000 0.886 0.000 1.000
#> SRR1026986 1 0.7453 0.682 0.788 0.212
#> SRR1026987 1 0.0000 0.927 1.000 0.000
#> SRR1026988 1 0.0000 0.927 1.000 0.000
#> SRR1026989 1 0.0000 0.927 1.000 0.000
#> SRR1026990 2 0.7056 0.751 0.192 0.808
#> SRR1026991 1 0.9635 0.295 0.612 0.388
#> SRR1026992 1 0.0000 0.927 1.000 0.000
#> SRR1026993 1 0.0000 0.927 1.000 0.000
#> SRR1026994 1 0.7674 0.674 0.776 0.224
#> SRR1026995 1 0.0000 0.927 1.000 0.000
#> SRR1026996 2 0.7056 0.751 0.192 0.808
#> SRR1026997 2 0.7056 0.751 0.192 0.808
#> SRR1026998 2 0.9732 0.419 0.404 0.596
#> SRR1026999 2 0.9732 0.419 0.404 0.596
#> SRR1027000 1 0.0000 0.927 1.000 0.000
#> SRR1027001 1 0.0000 0.927 1.000 0.000
#> SRR1027002 1 0.9732 0.308 0.596 0.404
#> SRR1027003 1 0.8861 0.528 0.696 0.304
#> SRR1027004 1 0.0000 0.927 1.000 0.000
#> SRR1027005 1 0.9661 0.270 0.608 0.392
#> SRR1027006 1 0.0000 0.927 1.000 0.000
#> SRR1027007 1 0.5842 0.785 0.860 0.140
#> SRR1027008 1 0.0000 0.927 1.000 0.000
#> SRR1027009 1 0.0000 0.927 1.000 0.000
#> SRR1027010 1 0.0000 0.927 1.000 0.000
#> SRR1027011 1 0.0000 0.927 1.000 0.000
#> SRR1177668 1 0.0000 0.927 1.000 0.000
#> SRR1177667 1 0.0000 0.927 1.000 0.000
#> SRR1177669 1 0.0000 0.927 1.000 0.000
#> SRR1177670 1 0.0000 0.927 1.000 0.000
#> SRR1177671 2 0.0000 0.886 0.000 1.000
#> SRR1177672 1 0.0000 0.927 1.000 0.000
#> SRR1177673 1 0.0000 0.927 1.000 0.000
#> SRR1177674 1 0.0000 0.927 1.000 0.000
#> SRR1177675 1 0.0000 0.927 1.000 0.000
#> SRR1177676 1 0.0000 0.927 1.000 0.000
#> SRR1177677 1 0.0000 0.927 1.000 0.000
#> SRR1177678 1 0.0000 0.927 1.000 0.000
#> SRR1177679 2 0.9491 0.389 0.368 0.632
#> SRR1177680 2 0.7453 0.718 0.212 0.788
#> SRR1177681 1 0.0000 0.927 1.000 0.000
#> SRR1177682 1 0.0000 0.927 1.000 0.000
#> SRR1177683 2 0.0000 0.886 0.000 1.000
#> SRR1177684 2 0.0000 0.886 0.000 1.000
#> SRR1177685 1 0.0000 0.927 1.000 0.000
#> SRR1177686 1 0.2948 0.885 0.948 0.052
#> SRR1177687 2 0.0000 0.886 0.000 1.000
#> SRR1177688 1 0.0000 0.927 1.000 0.000
#> SRR1177689 1 0.0000 0.927 1.000 0.000
#> SRR1177690 1 0.0000 0.927 1.000 0.000
#> SRR1177691 2 0.8763 0.530 0.296 0.704
#> SRR1177692 2 0.7528 0.725 0.216 0.784
#> SRR1177693 2 0.0000 0.886 0.000 1.000
#> SRR1177694 2 0.0000 0.886 0.000 1.000
#> SRR1177695 1 0.0000 0.927 1.000 0.000
#> SRR1177697 1 0.0000 0.927 1.000 0.000
#> SRR1177696 1 0.0000 0.927 1.000 0.000
#> SRR1177698 1 0.0000 0.927 1.000 0.000
#> SRR1177700 1 0.1843 0.905 0.972 0.028
#> SRR1177701 1 0.9635 0.289 0.612 0.388
#> SRR1177702 1 0.0000 0.927 1.000 0.000
#> SRR1177703 1 0.6887 0.729 0.816 0.184
#> SRR1177704 2 0.9460 0.504 0.364 0.636
#> SRR1177705 1 0.0000 0.927 1.000 0.000
#> SRR1177706 1 0.3879 0.863 0.924 0.076
#> SRR1177707 1 0.9896 0.124 0.560 0.440
#> SRR1177708 1 0.8144 0.620 0.748 0.252
#> SRR1177709 1 0.0000 0.927 1.000 0.000
#> SRR1177710 1 0.0000 0.927 1.000 0.000
#> SRR1177711 1 0.0000 0.927 1.000 0.000
#> SRR1177712 1 0.1414 0.912 0.980 0.020
#> SRR1177714 2 0.0000 0.886 0.000 1.000
#> SRR1177713 1 0.0000 0.927 1.000 0.000
#> SRR1177715 1 0.2423 0.894 0.960 0.040
#> SRR1177716 1 0.2603 0.892 0.956 0.044
#> SRR1177717 1 0.0000 0.927 1.000 0.000
#> SRR1177718 1 0.0000 0.927 1.000 0.000
#> SRR1177719 1 0.0000 0.927 1.000 0.000
#> SRR1177720 2 0.9732 0.419 0.404 0.596
#> SRR1177721 2 0.0000 0.886 0.000 1.000
#> SRR1177722 2 0.0000 0.886 0.000 1.000
#> SRR1177723 1 0.0000 0.927 1.000 0.000
#> SRR1177725 1 0.0000 0.927 1.000 0.000
#> SRR1177724 1 0.0000 0.927 1.000 0.000
#> SRR1177726 1 0.0000 0.927 1.000 0.000
#> SRR1177727 1 0.0000 0.927 1.000 0.000
#> SRR1177728 1 0.0000 0.927 1.000 0.000
#> SRR1177729 1 0.0000 0.927 1.000 0.000
#> SRR1177730 1 0.0000 0.927 1.000 0.000
#> SRR1177731 1 0.0000 0.927 1.000 0.000
#> SRR1177732 1 0.0000 0.927 1.000 0.000
#> SRR1177733 1 0.0000 0.927 1.000 0.000
#> SRR1177734 1 0.0000 0.927 1.000 0.000
#> SRR1177735 2 0.9710 0.403 0.400 0.600
#> SRR1177736 1 0.0000 0.927 1.000 0.000
#> SRR1177737 2 0.0000 0.886 0.000 1.000
#> SRR1177738 2 0.0000 0.886 0.000 1.000
#> SRR1177739 1 0.0000 0.927 1.000 0.000
#> SRR1177740 1 0.0000 0.927 1.000 0.000
#> SRR1177741 1 0.0000 0.927 1.000 0.000
#> SRR1177742 1 0.0000 0.927 1.000 0.000
#> SRR1177743 1 0.0000 0.927 1.000 0.000
#> SRR1177744 1 0.0000 0.927 1.000 0.000
#> SRR1177745 2 0.0000 0.886 0.000 1.000
#> SRR1177746 2 0.8267 0.674 0.260 0.740
#> SRR1177747 1 0.7056 0.715 0.808 0.192
#> SRR1177748 1 0.0000 0.927 1.000 0.000
#> SRR1177749 1 0.0000 0.927 1.000 0.000
#> SRR1177750 1 0.0000 0.927 1.000 0.000
#> SRR1177751 1 0.0000 0.927 1.000 0.000
#> SRR1177752 1 0.0000 0.927 1.000 0.000
#> SRR1177753 1 0.0000 0.927 1.000 0.000
#> SRR1177754 1 0.0000 0.927 1.000 0.000
#> SRR1177755 1 0.0000 0.927 1.000 0.000
#> SRR1177756 1 0.0000 0.927 1.000 0.000
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026871 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026872 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026873 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026874 1 0.5363 0.40905 0.724 0.000 0.276
#> SRR1026875 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026876 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026877 3 0.5431 0.59790 0.000 0.284 0.716
#> SRR1026878 3 0.5431 0.59790 0.000 0.284 0.716
#> SRR1026879 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026880 1 0.5178 0.45056 0.744 0.000 0.256
#> SRR1026881 2 0.0592 0.61233 0.000 0.988 0.012
#> SRR1026882 2 0.0592 0.61233 0.000 0.988 0.012
#> SRR1026883 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026884 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026885 1 0.9599 0.03659 0.472 0.292 0.236
#> SRR1026886 1 0.9599 0.03659 0.472 0.292 0.236
#> SRR1026887 3 0.9613 0.34994 0.244 0.284 0.472
#> SRR1026888 3 0.9613 0.34994 0.244 0.284 0.472
#> SRR1026889 2 0.1753 0.62834 0.000 0.952 0.048
#> SRR1026890 2 0.9730 0.00154 0.256 0.448 0.296
#> SRR1026891 1 0.6000 0.56628 0.760 0.200 0.040
#> SRR1026892 1 0.6142 0.55135 0.748 0.212 0.040
#> SRR1026893 3 0.5831 0.59554 0.008 0.284 0.708
#> SRR1026894 3 0.7931 0.53169 0.092 0.284 0.624
#> SRR1026895 2 0.4443 0.56042 0.084 0.864 0.052
#> SRR1026896 2 0.5207 0.54118 0.124 0.824 0.052
#> SRR1026897 1 0.5810 0.27894 0.664 0.000 0.336
#> SRR1026898 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026899 1 0.5178 0.45056 0.744 0.000 0.256
#> SRR1026900 2 0.5397 0.63754 0.000 0.720 0.280
#> SRR1026901 2 0.6929 0.46438 0.260 0.688 0.052
#> SRR1026902 1 0.9599 0.03659 0.472 0.292 0.236
#> SRR1026903 1 0.9599 0.03659 0.472 0.292 0.236
#> SRR1026904 2 0.9908 -0.11139 0.276 0.392 0.332
#> SRR1026905 2 0.9908 -0.11139 0.276 0.392 0.332
#> SRR1026906 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026907 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026908 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026909 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026910 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026911 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026912 3 0.9681 0.33268 0.256 0.284 0.460
#> SRR1026913 3 0.9681 0.33268 0.256 0.284 0.460
#> SRR1026914 2 0.1529 0.62636 0.000 0.960 0.040
#> SRR1026915 2 0.1964 0.62902 0.000 0.944 0.056
#> SRR1026916 2 0.5397 0.63804 0.000 0.720 0.280
#> SRR1026917 2 0.5397 0.63804 0.000 0.720 0.280
#> SRR1026918 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026919 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026920 2 0.0747 0.61402 0.000 0.984 0.016
#> SRR1026921 2 0.0747 0.61402 0.000 0.984 0.016
#> SRR1026922 2 0.3116 0.63307 0.000 0.892 0.108
#> SRR1026923 2 0.2066 0.62970 0.000 0.940 0.060
#> SRR1026924 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026925 3 0.5831 0.59554 0.008 0.284 0.708
#> SRR1026926 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026927 1 0.8652 0.27942 0.576 0.284 0.140
#> SRR1026928 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026929 3 0.5431 0.59790 0.000 0.284 0.716
#> SRR1026930 2 0.0237 0.61624 0.004 0.996 0.000
#> SRR1026931 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026932 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026933 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026934 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026935 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026936 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026937 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026938 2 0.0000 0.61641 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.61641 0.000 1.000 0.000
#> SRR1026940 1 0.4544 0.69700 0.860 0.084 0.056
#> SRR1026941 3 0.5529 0.64836 0.296 0.000 0.704
#> SRR1026942 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026945 3 0.6095 0.53789 0.392 0.000 0.608
#> SRR1026947 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026946 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026948 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026949 1 0.2096 0.77076 0.944 0.004 0.052
#> SRR1026950 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026951 2 0.7724 0.38508 0.308 0.620 0.072
#> SRR1026952 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026953 3 0.5810 0.62562 0.336 0.000 0.664
#> SRR1026954 1 0.7220 0.42900 0.660 0.284 0.056
#> SRR1026955 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026956 1 0.1529 0.77821 0.960 0.000 0.040
#> SRR1026957 2 0.1753 0.62832 0.000 0.952 0.048
#> SRR1026958 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026959 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1026960 2 0.7097 0.45181 0.280 0.668 0.052
#> SRR1026961 2 0.1860 0.59106 0.000 0.948 0.052
#> SRR1026962 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026964 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026965 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026966 3 0.5431 0.59790 0.000 0.284 0.716
#> SRR1026967 3 0.5431 0.59790 0.000 0.284 0.716
#> SRR1026968 2 0.7157 0.44979 0.276 0.668 0.056
#> SRR1026969 2 0.8277 0.03115 0.456 0.468 0.076
#> SRR1026970 1 0.6735 0.48151 0.696 0.260 0.044
#> SRR1026971 1 0.6292 0.54324 0.740 0.216 0.044
#> SRR1026972 1 0.6188 0.54999 0.744 0.216 0.040
#> SRR1026973 1 0.6188 0.54999 0.744 0.216 0.040
#> SRR1026974 1 0.4423 0.69837 0.864 0.088 0.048
#> SRR1026975 1 0.4423 0.69837 0.864 0.088 0.048
#> SRR1026976 1 0.7220 0.42900 0.660 0.284 0.056
#> SRR1026977 1 0.7220 0.42900 0.660 0.284 0.056
#> SRR1026978 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026979 3 0.5706 0.63675 0.320 0.000 0.680
#> SRR1026980 1 0.5852 0.62056 0.788 0.152 0.060
#> SRR1026981 1 0.9912 -0.17809 0.396 0.284 0.320
#> SRR1026982 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026983 2 0.7065 0.45494 0.276 0.672 0.052
#> SRR1026984 2 0.7032 0.45769 0.272 0.676 0.052
#> SRR1026985 2 0.6781 0.47447 0.244 0.704 0.052
#> SRR1026986 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026987 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1026988 1 0.0747 0.79343 0.984 0.000 0.016
#> SRR1026989 3 0.5810 0.62562 0.336 0.000 0.664
#> SRR1026990 1 0.7189 0.42214 0.656 0.292 0.052
#> SRR1026991 3 0.6373 0.61345 0.028 0.268 0.704
#> SRR1026992 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026994 1 0.4654 0.60511 0.792 0.208 0.000
#> SRR1026995 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1026996 2 0.9794 -0.07171 0.380 0.384 0.236
#> SRR1026997 1 0.9786 -0.10398 0.400 0.364 0.236
#> SRR1026998 3 0.5431 0.59790 0.000 0.284 0.716
#> SRR1026999 3 0.5431 0.59790 0.000 0.284 0.716
#> SRR1027000 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1027001 1 0.5397 0.40554 0.720 0.000 0.280
#> SRR1027002 1 0.5785 0.33894 0.668 0.332 0.000
#> SRR1027003 1 0.2301 0.75689 0.936 0.060 0.004
#> SRR1027004 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1027005 3 0.7129 0.67694 0.180 0.104 0.716
#> SRR1027006 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1027007 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1027008 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1027009 3 0.5835 0.62092 0.340 0.000 0.660
#> SRR1027010 1 0.5216 0.44743 0.740 0.000 0.260
#> SRR1027011 3 0.5810 0.62562 0.336 0.000 0.664
#> SRR1177668 1 0.5058 0.47336 0.756 0.000 0.244
#> SRR1177667 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177669 1 0.5397 0.40554 0.720 0.000 0.280
#> SRR1177670 3 0.6280 0.37741 0.460 0.000 0.540
#> SRR1177671 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1177672 1 0.6045 0.14785 0.620 0.000 0.380
#> SRR1177673 1 0.5138 0.45774 0.748 0.000 0.252
#> SRR1177674 3 0.5835 0.62092 0.340 0.000 0.660
#> SRR1177675 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177676 1 0.5216 0.44743 0.740 0.000 0.260
#> SRR1177677 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177679 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1177680 1 0.6952 -0.00982 0.504 0.480 0.016
#> SRR1177681 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1177682 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177683 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1177684 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1177685 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177686 3 0.5982 0.63203 0.328 0.004 0.668
#> SRR1177687 2 0.5881 0.48495 0.256 0.728 0.016
#> SRR1177688 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1177689 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1177690 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177691 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1177692 1 0.6255 0.46232 0.684 0.300 0.016
#> SRR1177693 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1177694 2 0.3116 0.63412 0.000 0.892 0.108
#> SRR1177695 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1177697 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177696 1 0.0592 0.79653 0.988 0.000 0.012
#> SRR1177698 1 0.5835 0.26567 0.660 0.000 0.340
#> SRR1177700 1 0.0983 0.79407 0.980 0.004 0.016
#> SRR1177701 1 0.4527 0.69407 0.860 0.088 0.052
#> SRR1177702 1 0.2165 0.76688 0.936 0.000 0.064
#> SRR1177703 1 0.3377 0.72868 0.896 0.092 0.012
#> SRR1177704 1 0.9522 -0.27179 0.408 0.188 0.404
#> SRR1177705 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177706 1 0.7026 0.52458 0.728 0.152 0.120
#> SRR1177707 1 0.3295 0.72556 0.896 0.096 0.008
#> SRR1177708 1 0.3896 0.69903 0.864 0.128 0.008
#> SRR1177709 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1177710 1 0.2165 0.75395 0.936 0.000 0.064
#> SRR1177711 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177712 1 0.1989 0.77137 0.948 0.004 0.048
#> SRR1177714 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1177713 1 0.5497 0.37710 0.708 0.000 0.292
#> SRR1177715 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1177716 3 0.5690 0.65163 0.288 0.004 0.708
#> SRR1177717 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177720 3 0.6835 0.61245 0.040 0.284 0.676
#> SRR1177721 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1177722 2 0.5431 0.63792 0.000 0.716 0.284
#> SRR1177723 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177726 3 0.5810 0.62562 0.336 0.000 0.664
#> SRR1177727 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177728 3 0.5810 0.62562 0.336 0.000 0.664
#> SRR1177729 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177730 1 0.5835 0.26567 0.660 0.000 0.340
#> SRR1177731 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177732 1 0.5178 0.45056 0.744 0.000 0.256
#> SRR1177733 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177735 1 0.3445 0.72729 0.896 0.088 0.016
#> SRR1177736 1 0.0237 0.80134 0.996 0.000 0.004
#> SRR1177737 2 0.0592 0.61233 0.000 0.988 0.012
#> SRR1177738 2 0.6280 -0.19171 0.000 0.540 0.460
#> SRR1177739 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177741 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177742 3 0.5810 0.62562 0.336 0.000 0.664
#> SRR1177743 1 0.5178 0.45056 0.744 0.000 0.256
#> SRR1177744 1 0.5465 0.39402 0.712 0.000 0.288
#> SRR1177745 2 0.4782 0.53942 0.164 0.820 0.016
#> SRR1177746 1 0.6008 0.45924 0.664 0.332 0.004
#> SRR1177747 3 0.6513 0.48705 0.400 0.008 0.592
#> SRR1177748 3 0.5529 0.64836 0.296 0.000 0.704
#> SRR1177749 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177754 1 0.0424 0.79929 0.992 0.000 0.008
#> SRR1177755 1 0.0000 0.80279 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.80279 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026871 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026872 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026873 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026874 3 0.3907 0.69885 0.232 0.000 0.768 0.000
#> SRR1026875 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026876 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026877 4 0.3907 0.69961 0.000 0.000 0.232 0.768
#> SRR1026878 4 0.3907 0.69961 0.000 0.000 0.232 0.768
#> SRR1026879 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026880 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026881 4 0.1118 0.89680 0.000 0.036 0.000 0.964
#> SRR1026882 4 0.1211 0.89504 0.000 0.040 0.000 0.960
#> SRR1026883 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026884 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026885 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026886 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026887 4 0.1022 0.89315 0.000 0.000 0.032 0.968
#> SRR1026888 4 0.1022 0.89315 0.000 0.000 0.032 0.968
#> SRR1026889 2 0.4454 0.58622 0.000 0.692 0.000 0.308
#> SRR1026890 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026891 1 0.4008 0.67544 0.756 0.000 0.000 0.244
#> SRR1026892 1 0.4222 0.63734 0.728 0.000 0.000 0.272
#> SRR1026893 4 0.1022 0.89315 0.000 0.000 0.032 0.968
#> SRR1026894 4 0.1022 0.89315 0.000 0.000 0.032 0.968
#> SRR1026895 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026896 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026897 3 0.4661 0.54764 0.348 0.000 0.652 0.000
#> SRR1026898 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026899 3 0.4933 0.38256 0.432 0.000 0.568 0.000
#> SRR1026900 2 0.2149 0.85254 0.000 0.912 0.000 0.088
#> SRR1026901 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026902 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026903 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026904 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026905 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026906 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026907 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026908 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026909 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026910 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026911 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026912 4 0.1022 0.89315 0.000 0.000 0.032 0.968
#> SRR1026913 4 0.1022 0.89315 0.000 0.000 0.032 0.968
#> SRR1026914 2 0.4454 0.59040 0.000 0.692 0.000 0.308
#> SRR1026915 2 0.4331 0.62775 0.000 0.712 0.000 0.288
#> SRR1026916 2 0.0336 0.92510 0.000 0.992 0.000 0.008
#> SRR1026917 2 0.0336 0.92510 0.000 0.992 0.000 0.008
#> SRR1026918 4 0.1118 0.89680 0.000 0.036 0.000 0.964
#> SRR1026919 4 0.1118 0.89680 0.000 0.036 0.000 0.964
#> SRR1026920 4 0.1211 0.89530 0.000 0.040 0.000 0.960
#> SRR1026921 4 0.1211 0.89530 0.000 0.040 0.000 0.960
#> SRR1026922 2 0.3400 0.76526 0.000 0.820 0.000 0.180
#> SRR1026923 2 0.4040 0.69062 0.000 0.752 0.000 0.248
#> SRR1026924 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026925 4 0.1022 0.89315 0.000 0.000 0.032 0.968
#> SRR1026926 4 0.0921 0.89888 0.000 0.028 0.000 0.972
#> SRR1026927 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026928 4 0.1118 0.89680 0.000 0.036 0.000 0.964
#> SRR1026929 3 0.4134 0.53237 0.000 0.000 0.740 0.260
#> SRR1026930 4 0.4888 0.27996 0.000 0.412 0.000 0.588
#> SRR1026931 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026932 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026933 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026934 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026935 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026936 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026937 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026938 4 0.4222 0.61319 0.000 0.272 0.000 0.728
#> SRR1026939 4 0.4331 0.58297 0.000 0.288 0.000 0.712
#> SRR1026940 4 0.3726 0.65701 0.212 0.000 0.000 0.788
#> SRR1026941 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026943 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1026944 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026945 3 0.4933 0.38256 0.432 0.000 0.568 0.000
#> SRR1026947 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026946 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026948 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026949 4 0.4843 0.32459 0.396 0.000 0.000 0.604
#> SRR1026950 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1026951 4 0.0188 0.89803 0.004 0.000 0.000 0.996
#> SRR1026952 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1026953 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026955 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026956 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1026957 2 0.4564 0.53991 0.000 0.672 0.000 0.328
#> SRR1026958 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1026959 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.0524 0.89931 0.004 0.008 0.000 0.988
#> SRR1026961 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026962 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026963 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026964 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026965 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026966 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026969 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026970 1 0.4992 0.17784 0.524 0.000 0.000 0.476
#> SRR1026971 1 0.4624 0.53850 0.660 0.000 0.000 0.340
#> SRR1026972 1 0.4122 0.68176 0.760 0.004 0.000 0.236
#> SRR1026973 1 0.4122 0.68176 0.760 0.004 0.000 0.236
#> SRR1026974 4 0.4164 0.59009 0.264 0.000 0.000 0.736
#> SRR1026975 4 0.4222 0.57853 0.272 0.000 0.000 0.728
#> SRR1026976 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026977 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026978 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1026979 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1026980 1 0.5549 0.57953 0.672 0.048 0.000 0.280
#> SRR1026981 4 0.3907 0.68535 0.000 0.000 0.232 0.768
#> SRR1026982 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026983 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026984 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026985 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1026986 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1026987 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1026988 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026989 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1026990 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026991 3 0.2469 0.73952 0.000 0.000 0.892 0.108
#> SRR1026992 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026993 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026994 1 0.4399 0.68652 0.768 0.020 0.000 0.212
#> SRR1026995 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1026996 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026997 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1026998 4 0.3907 0.69961 0.000 0.000 0.232 0.768
#> SRR1026999 4 0.3907 0.69961 0.000 0.000 0.232 0.768
#> SRR1027000 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1027001 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1027002 1 0.1109 0.90924 0.968 0.028 0.000 0.004
#> SRR1027003 1 0.1022 0.90658 0.968 0.032 0.000 0.000
#> SRR1027004 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1027005 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1027006 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1027007 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1027008 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1027009 3 0.0188 0.82209 0.004 0.000 0.996 0.000
#> SRR1027010 3 0.5543 0.48098 0.360 0.000 0.612 0.028
#> SRR1027011 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1177668 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177667 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177669 3 0.4855 0.63083 0.268 0.000 0.712 0.020
#> SRR1177670 3 0.2081 0.79808 0.084 0.000 0.916 0.000
#> SRR1177671 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.2081 0.79808 0.084 0.000 0.916 0.000
#> SRR1177673 1 0.3311 0.73372 0.828 0.000 0.172 0.000
#> SRR1177674 3 0.1022 0.81458 0.032 0.000 0.968 0.000
#> SRR1177675 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177676 3 0.4933 0.38256 0.432 0.000 0.568 0.000
#> SRR1177677 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177678 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177679 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1177680 4 0.3501 0.77349 0.132 0.020 0.000 0.848
#> SRR1177681 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177682 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177683 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177686 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1177687 4 0.1022 0.89799 0.000 0.032 0.000 0.968
#> SRR1177688 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177689 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177690 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177691 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1177692 4 0.0592 0.90029 0.000 0.016 0.000 0.984
#> SRR1177693 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1177694 2 0.3528 0.75623 0.000 0.808 0.000 0.192
#> SRR1177695 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177697 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177696 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177698 3 0.1022 0.81458 0.032 0.000 0.968 0.000
#> SRR1177700 1 0.4103 0.65003 0.744 0.000 0.000 0.256
#> SRR1177701 4 0.4164 0.58841 0.264 0.000 0.000 0.736
#> SRR1177702 1 0.1209 0.91604 0.964 0.000 0.004 0.032
#> SRR1177703 1 0.3688 0.72111 0.792 0.000 0.000 0.208
#> SRR1177704 4 0.2281 0.81072 0.096 0.000 0.000 0.904
#> SRR1177705 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177706 1 0.4004 0.75015 0.812 0.164 0.000 0.024
#> SRR1177707 4 0.5000 -0.00914 0.496 0.000 0.000 0.504
#> SRR1177708 1 0.4103 0.65568 0.744 0.000 0.000 0.256
#> SRR1177709 1 0.0188 0.92155 0.996 0.000 0.000 0.004
#> SRR1177710 1 0.3837 0.67910 0.776 0.000 0.224 0.000
#> SRR1177711 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177712 1 0.2345 0.85933 0.900 0.000 0.000 0.100
#> SRR1177714 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1177713 3 0.4522 0.60269 0.320 0.000 0.680 0.000
#> SRR1177715 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177716 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177718 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177719 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177720 3 0.4999 -0.13330 0.000 0.000 0.508 0.492
#> SRR1177721 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.93061 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177725 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177724 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177726 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177728 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177730 3 0.2081 0.79808 0.084 0.000 0.916 0.000
#> SRR1177731 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177732 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177733 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177734 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177735 4 0.3649 0.66766 0.204 0.000 0.000 0.796
#> SRR1177736 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177737 4 0.1118 0.89680 0.000 0.036 0.000 0.964
#> SRR1177738 4 0.1022 0.89315 0.000 0.000 0.032 0.968
#> SRR1177739 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177740 1 0.1022 0.91740 0.968 0.000 0.000 0.032
#> SRR1177741 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177742 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.2814 0.78576 0.868 0.000 0.132 0.000
#> SRR1177744 1 0.3311 0.72625 0.828 0.000 0.172 0.000
#> SRR1177745 4 0.0000 0.89984 0.000 0.000 0.000 1.000
#> SRR1177746 4 0.7198 0.36898 0.256 0.196 0.000 0.548
#> SRR1177747 1 0.7889 -0.24470 0.364 0.000 0.348 0.288
#> SRR1177748 3 0.0000 0.82280 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177750 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177751 1 0.0469 0.92066 0.988 0.000 0.000 0.012
#> SRR1177752 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177753 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177754 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177755 1 0.0000 0.92189 1.000 0.000 0.000 0.000
#> SRR1177756 1 0.0000 0.92189 1.000 0.000 0.000 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026871 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026872 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026873 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1026874 3 0.3151 0.7445 0.144 0.000 0.836 0.000 0.020
#> SRR1026875 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026876 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026877 5 0.1831 0.9414 0.000 0.000 0.004 0.076 0.920
#> SRR1026878 5 0.1831 0.9414 0.000 0.000 0.004 0.076 0.920
#> SRR1026879 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1026880 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1026881 4 0.0510 0.9008 0.000 0.016 0.000 0.984 0.000
#> SRR1026882 4 0.0510 0.9008 0.000 0.016 0.000 0.984 0.000
#> SRR1026883 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026884 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026885 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026886 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026887 5 0.2127 0.9195 0.000 0.000 0.000 0.108 0.892
#> SRR1026888 5 0.2020 0.9285 0.000 0.000 0.000 0.100 0.900
#> SRR1026889 2 0.3876 0.5865 0.000 0.684 0.000 0.316 0.000
#> SRR1026890 4 0.0324 0.9034 0.000 0.004 0.000 0.992 0.004
#> SRR1026891 1 0.4090 0.6483 0.716 0.000 0.000 0.268 0.016
#> SRR1026892 1 0.4269 0.6043 0.684 0.000 0.000 0.300 0.016
#> SRR1026893 5 0.1851 0.9392 0.000 0.000 0.000 0.088 0.912
#> SRR1026894 5 0.1851 0.9392 0.000 0.000 0.000 0.088 0.912
#> SRR1026895 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026896 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026897 3 0.6252 0.3810 0.328 0.000 0.508 0.000 0.164
#> SRR1026898 1 0.1484 0.8948 0.944 0.000 0.008 0.000 0.048
#> SRR1026899 3 0.2520 0.7961 0.048 0.000 0.896 0.000 0.056
#> SRR1026900 2 0.1792 0.8495 0.000 0.916 0.000 0.084 0.000
#> SRR1026901 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026902 4 0.0404 0.8987 0.000 0.000 0.000 0.988 0.012
#> SRR1026903 4 0.0404 0.8988 0.000 0.000 0.000 0.988 0.012
#> SRR1026904 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026905 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026906 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026907 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026908 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026909 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026910 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026911 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026912 5 0.1851 0.9392 0.000 0.000 0.000 0.088 0.912
#> SRR1026913 5 0.1851 0.9392 0.000 0.000 0.000 0.088 0.912
#> SRR1026914 2 0.3876 0.5894 0.000 0.684 0.000 0.316 0.000
#> SRR1026915 2 0.3796 0.6130 0.000 0.700 0.000 0.300 0.000
#> SRR1026916 2 0.0290 0.9216 0.000 0.992 0.000 0.008 0.000
#> SRR1026917 2 0.0290 0.9216 0.000 0.992 0.000 0.008 0.000
#> SRR1026918 4 0.0404 0.9028 0.000 0.012 0.000 0.988 0.000
#> SRR1026919 4 0.0404 0.9028 0.000 0.012 0.000 0.988 0.000
#> SRR1026920 4 0.0609 0.8988 0.000 0.020 0.000 0.980 0.000
#> SRR1026921 4 0.0609 0.8988 0.000 0.020 0.000 0.980 0.000
#> SRR1026922 2 0.2929 0.7529 0.000 0.820 0.000 0.180 0.000
#> SRR1026923 2 0.3508 0.6721 0.000 0.748 0.000 0.252 0.000
#> SRR1026924 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026925 5 0.1851 0.9392 0.000 0.000 0.000 0.088 0.912
#> SRR1026926 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026927 4 0.1018 0.8844 0.016 0.000 0.000 0.968 0.016
#> SRR1026928 4 0.0404 0.9028 0.000 0.012 0.000 0.988 0.000
#> SRR1026929 5 0.2036 0.9034 0.000 0.000 0.056 0.024 0.920
#> SRR1026930 4 0.4757 0.3021 0.000 0.380 0.000 0.596 0.024
#> SRR1026931 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026932 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026933 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026934 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026935 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026936 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026937 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026938 4 0.3480 0.6273 0.000 0.248 0.000 0.752 0.000
#> SRR1026939 4 0.3586 0.5978 0.000 0.264 0.000 0.736 0.000
#> SRR1026940 4 0.4301 0.5870 0.260 0.000 0.000 0.712 0.028
#> SRR1026941 5 0.3752 0.6122 0.000 0.000 0.292 0.000 0.708
#> SRR1026942 1 0.1430 0.8956 0.944 0.000 0.004 0.000 0.052
#> SRR1026943 1 0.0912 0.8939 0.972 0.000 0.000 0.012 0.016
#> SRR1026944 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1026945 3 0.2953 0.7357 0.144 0.000 0.844 0.000 0.012
#> SRR1026947 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026946 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026948 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026949 4 0.4787 0.2326 0.432 0.000 0.000 0.548 0.020
#> SRR1026950 1 0.1195 0.8935 0.960 0.000 0.000 0.012 0.028
#> SRR1026951 4 0.0324 0.9025 0.004 0.000 0.000 0.992 0.004
#> SRR1026952 1 0.1082 0.8943 0.964 0.000 0.000 0.008 0.028
#> SRR1026953 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1026954 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026955 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026956 1 0.1300 0.8892 0.956 0.000 0.000 0.028 0.016
#> SRR1026957 2 0.4015 0.5154 0.000 0.652 0.000 0.348 0.000
#> SRR1026958 1 0.1195 0.8935 0.960 0.000 0.000 0.012 0.028
#> SRR1026959 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1026960 4 0.1772 0.8704 0.032 0.008 0.000 0.940 0.020
#> SRR1026961 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026962 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1026963 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1026964 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026965 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026966 5 0.1732 0.8768 0.000 0.000 0.080 0.000 0.920
#> SRR1026967 5 0.1732 0.8768 0.000 0.000 0.080 0.000 0.920
#> SRR1026968 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026969 4 0.0510 0.8960 0.000 0.000 0.000 0.984 0.016
#> SRR1026970 1 0.4735 0.1725 0.524 0.000 0.000 0.460 0.016
#> SRR1026971 1 0.4401 0.5359 0.656 0.000 0.000 0.328 0.016
#> SRR1026972 1 0.3914 0.6871 0.760 0.004 0.000 0.220 0.016
#> SRR1026973 1 0.3914 0.6871 0.760 0.004 0.000 0.220 0.016
#> SRR1026974 4 0.4276 0.5765 0.256 0.000 0.000 0.716 0.028
#> SRR1026975 4 0.4326 0.5654 0.264 0.000 0.000 0.708 0.028
#> SRR1026976 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026977 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026978 1 0.0992 0.8933 0.968 0.000 0.000 0.008 0.024
#> SRR1026979 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1026980 1 0.4914 0.5799 0.672 0.040 0.000 0.280 0.008
#> SRR1026981 4 0.3906 0.6098 0.000 0.000 0.016 0.744 0.240
#> SRR1026982 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026983 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026984 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026985 4 0.0290 0.9039 0.000 0.008 0.000 0.992 0.000
#> SRR1026986 1 0.1251 0.8929 0.956 0.000 0.000 0.008 0.036
#> SRR1026987 1 0.0992 0.8933 0.968 0.000 0.000 0.008 0.024
#> SRR1026988 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1026989 3 0.3424 0.6329 0.000 0.000 0.760 0.000 0.240
#> SRR1026990 4 0.0510 0.8960 0.000 0.000 0.000 0.984 0.016
#> SRR1026991 5 0.2172 0.8892 0.000 0.000 0.076 0.016 0.908
#> SRR1026992 1 0.0566 0.8977 0.984 0.000 0.004 0.000 0.012
#> SRR1026993 1 0.1341 0.8958 0.944 0.000 0.000 0.000 0.056
#> SRR1026994 1 0.3707 0.6903 0.768 0.004 0.000 0.220 0.008
#> SRR1026995 1 0.0290 0.8966 0.992 0.000 0.000 0.000 0.008
#> SRR1026996 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026997 4 0.0000 0.9044 0.000 0.000 0.000 1.000 0.000
#> SRR1026998 5 0.1831 0.9414 0.000 0.000 0.004 0.076 0.920
#> SRR1026999 5 0.1831 0.9414 0.000 0.000 0.004 0.076 0.920
#> SRR1027000 1 0.1557 0.8950 0.940 0.000 0.008 0.000 0.052
#> SRR1027001 1 0.3995 0.7233 0.776 0.000 0.180 0.000 0.044
#> SRR1027002 1 0.1251 0.8934 0.956 0.008 0.000 0.000 0.036
#> SRR1027003 1 0.0992 0.8935 0.968 0.008 0.000 0.000 0.024
#> SRR1027004 1 0.1195 0.8935 0.960 0.000 0.000 0.012 0.028
#> SRR1027005 3 0.0510 0.8501 0.000 0.000 0.984 0.000 0.016
#> SRR1027006 1 0.1522 0.8940 0.944 0.000 0.012 0.000 0.044
#> SRR1027007 1 0.0992 0.8933 0.968 0.000 0.000 0.008 0.024
#> SRR1027008 1 0.0992 0.8933 0.968 0.000 0.000 0.008 0.024
#> SRR1027009 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1027010 3 0.3391 0.6829 0.188 0.000 0.800 0.000 0.012
#> SRR1027011 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1177668 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1177667 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1177669 3 0.1732 0.7990 0.080 0.000 0.920 0.000 0.000
#> SRR1177670 3 0.0162 0.8522 0.004 0.000 0.996 0.000 0.000
#> SRR1177671 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1177672 3 0.0162 0.8522 0.004 0.000 0.996 0.000 0.000
#> SRR1177673 1 0.4125 0.7334 0.772 0.000 0.172 0.000 0.056
#> SRR1177674 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1177675 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1177676 3 0.1124 0.8369 0.036 0.000 0.960 0.000 0.004
#> SRR1177677 1 0.1484 0.8948 0.944 0.000 0.008 0.000 0.048
#> SRR1177678 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1177679 2 0.0290 0.9207 0.000 0.992 0.000 0.000 0.008
#> SRR1177680 4 0.2513 0.7795 0.116 0.000 0.000 0.876 0.008
#> SRR1177681 1 0.0992 0.8933 0.968 0.000 0.000 0.008 0.024
#> SRR1177682 1 0.0992 0.8933 0.968 0.000 0.000 0.008 0.024
#> SRR1177683 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1177684 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1177685 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1177686 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1177687 4 0.0579 0.9012 0.000 0.008 0.000 0.984 0.008
#> SRR1177688 1 0.0290 0.8966 0.992 0.000 0.000 0.000 0.008
#> SRR1177689 1 0.0992 0.8933 0.968 0.000 0.000 0.008 0.024
#> SRR1177690 1 0.1557 0.8950 0.940 0.000 0.008 0.000 0.052
#> SRR1177691 2 0.0290 0.9207 0.000 0.992 0.000 0.000 0.008
#> SRR1177692 4 0.0290 0.9022 0.000 0.000 0.000 0.992 0.008
#> SRR1177693 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1177694 2 0.3109 0.7347 0.000 0.800 0.000 0.200 0.000
#> SRR1177695 1 0.1251 0.8929 0.956 0.000 0.000 0.008 0.036
#> SRR1177697 1 0.1082 0.8943 0.964 0.000 0.000 0.008 0.028
#> SRR1177696 1 0.0992 0.8933 0.968 0.000 0.000 0.008 0.024
#> SRR1177698 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1177700 1 0.3789 0.6862 0.760 0.000 0.000 0.224 0.016
#> SRR1177701 4 0.4348 0.5205 0.316 0.000 0.000 0.668 0.016
#> SRR1177702 1 0.1356 0.8927 0.956 0.000 0.004 0.012 0.028
#> SRR1177703 1 0.3562 0.7249 0.788 0.000 0.000 0.196 0.016
#> SRR1177704 4 0.2573 0.7932 0.104 0.000 0.000 0.880 0.016
#> SRR1177705 1 0.1018 0.8925 0.968 0.000 0.000 0.016 0.016
#> SRR1177706 1 0.3606 0.7563 0.816 0.152 0.000 0.024 0.008
#> SRR1177707 1 0.4974 0.0565 0.508 0.000 0.000 0.464 0.028
#> SRR1177708 1 0.4014 0.6485 0.728 0.000 0.000 0.256 0.016
#> SRR1177709 1 0.0290 0.8966 0.992 0.000 0.000 0.000 0.008
#> SRR1177710 1 0.3491 0.7027 0.768 0.000 0.004 0.000 0.228
#> SRR1177711 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1177712 1 0.2110 0.8587 0.912 0.000 0.000 0.072 0.016
#> SRR1177714 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1177713 3 0.4786 0.5313 0.308 0.000 0.652 0.000 0.040
#> SRR1177715 1 0.1168 0.8934 0.960 0.000 0.000 0.008 0.032
#> SRR1177716 3 0.3366 0.6439 0.000 0.000 0.768 0.000 0.232
#> SRR1177717 1 0.2179 0.8961 0.912 0.000 0.008 0.008 0.072
#> SRR1177718 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1177719 1 0.0798 0.8946 0.976 0.000 0.000 0.008 0.016
#> SRR1177720 5 0.1845 0.9302 0.000 0.000 0.016 0.056 0.928
#> SRR1177721 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1177722 2 0.0000 0.9269 0.000 1.000 0.000 0.000 0.000
#> SRR1177723 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1177725 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1177724 1 0.1557 0.8942 0.940 0.000 0.008 0.000 0.052
#> SRR1177726 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1177727 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1177728 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1177729 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1177730 3 0.0162 0.8522 0.004 0.000 0.996 0.000 0.000
#> SRR1177731 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1177732 1 0.2946 0.8364 0.868 0.000 0.088 0.000 0.044
#> SRR1177733 1 0.0992 0.8933 0.968 0.000 0.000 0.008 0.024
#> SRR1177734 1 0.1082 0.8943 0.964 0.000 0.000 0.008 0.028
#> SRR1177735 4 0.4197 0.6098 0.244 0.000 0.000 0.728 0.028
#> SRR1177736 1 0.1082 0.8943 0.964 0.000 0.000 0.008 0.028
#> SRR1177737 4 0.0510 0.9008 0.000 0.016 0.000 0.984 0.000
#> SRR1177738 4 0.3109 0.6856 0.000 0.000 0.000 0.800 0.200
#> SRR1177739 1 0.0912 0.8939 0.972 0.000 0.000 0.012 0.016
#> SRR1177740 1 0.0898 0.8941 0.972 0.000 0.000 0.008 0.020
#> SRR1177741 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1177742 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1177743 1 0.4873 0.4682 0.644 0.000 0.312 0.000 0.044
#> SRR1177744 1 0.4957 0.4165 0.624 0.000 0.332 0.000 0.044
#> SRR1177745 4 0.0290 0.9022 0.000 0.000 0.000 0.992 0.008
#> SRR1177746 4 0.6747 0.3510 0.284 0.180 0.000 0.516 0.020
#> SRR1177747 3 0.6112 0.3743 0.364 0.000 0.532 0.088 0.016
#> SRR1177748 3 0.0290 0.8545 0.000 0.000 0.992 0.000 0.008
#> SRR1177749 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1177750 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1177751 1 0.1205 0.8955 0.956 0.000 0.000 0.004 0.040
#> SRR1177752 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1177753 1 0.0162 0.8973 0.996 0.000 0.000 0.000 0.004
#> SRR1177754 1 0.1408 0.8944 0.948 0.000 0.008 0.000 0.044
#> SRR1177755 1 0.1628 0.8938 0.936 0.000 0.008 0.000 0.056
#> SRR1177756 1 0.0162 0.8968 0.996 0.000 0.000 0.000 0.004
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026871 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026872 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026873 5 0.2941 0.7766 0.220 0.000 0.000 0.000 0.780 0.000
#> SRR1026874 3 0.3602 0.6784 0.032 0.000 0.760 0.000 0.208 0.000
#> SRR1026875 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026876 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026877 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026878 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026879 1 0.2823 0.5510 0.796 0.000 0.000 0.000 0.204 0.000
#> SRR1026880 5 0.3860 0.4826 0.472 0.000 0.000 0.000 0.528 0.000
#> SRR1026881 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026882 4 0.0146 0.9034 0.000 0.004 0.000 0.996 0.000 0.000
#> SRR1026883 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026884 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026885 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026886 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026887 6 0.0632 0.9436 0.000 0.000 0.000 0.024 0.000 0.976
#> SRR1026888 6 0.0458 0.9528 0.000 0.000 0.000 0.016 0.000 0.984
#> SRR1026889 2 0.3515 0.5674 0.000 0.676 0.000 0.324 0.000 0.000
#> SRR1026890 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026891 1 0.3288 0.5373 0.724 0.000 0.000 0.276 0.000 0.000
#> SRR1026892 1 0.3446 0.4984 0.692 0.000 0.000 0.308 0.000 0.000
#> SRR1026893 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026894 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026895 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026896 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026897 3 0.6859 0.3854 0.104 0.000 0.484 0.000 0.248 0.164
#> SRR1026898 1 0.1714 0.6888 0.908 0.000 0.000 0.000 0.092 0.000
#> SRR1026899 5 0.3854 0.0659 0.000 0.000 0.464 0.000 0.536 0.000
#> SRR1026900 2 0.2006 0.8417 0.016 0.904 0.000 0.080 0.000 0.000
#> SRR1026901 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026902 4 0.0632 0.8920 0.024 0.000 0.000 0.976 0.000 0.000
#> SRR1026903 4 0.0713 0.8896 0.028 0.000 0.000 0.972 0.000 0.000
#> SRR1026904 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026905 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026906 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026907 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026908 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026909 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026910 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026911 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026912 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026913 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026914 2 0.3619 0.5775 0.000 0.680 0.000 0.316 0.004 0.000
#> SRR1026915 2 0.3547 0.6072 0.000 0.696 0.000 0.300 0.004 0.000
#> SRR1026916 2 0.0405 0.8980 0.000 0.988 0.000 0.008 0.004 0.000
#> SRR1026917 2 0.0405 0.8980 0.000 0.988 0.000 0.008 0.004 0.000
#> SRR1026918 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026919 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026920 4 0.0146 0.9035 0.000 0.004 0.000 0.996 0.000 0.000
#> SRR1026921 4 0.0146 0.9035 0.000 0.004 0.000 0.996 0.000 0.000
#> SRR1026922 2 0.2631 0.7562 0.000 0.820 0.000 0.180 0.000 0.000
#> SRR1026923 2 0.3175 0.6770 0.000 0.744 0.000 0.256 0.000 0.000
#> SRR1026924 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026925 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026926 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026927 4 0.1075 0.8772 0.048 0.000 0.000 0.952 0.000 0.000
#> SRR1026928 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026929 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026930 4 0.6111 0.4659 0.056 0.204 0.000 0.580 0.160 0.000
#> SRR1026931 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026932 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026933 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026934 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026935 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026936 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026937 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026938 4 0.3076 0.6500 0.000 0.240 0.000 0.760 0.000 0.000
#> SRR1026939 4 0.3175 0.6223 0.000 0.256 0.000 0.744 0.000 0.000
#> SRR1026940 4 0.5089 0.4536 0.108 0.000 0.000 0.592 0.300 0.000
#> SRR1026941 6 0.3288 0.6092 0.000 0.000 0.276 0.000 0.000 0.724
#> SRR1026942 5 0.3288 0.7440 0.276 0.000 0.000 0.000 0.724 0.000
#> SRR1026943 1 0.0865 0.7255 0.964 0.000 0.000 0.000 0.036 0.000
#> SRR1026944 5 0.3446 0.7010 0.308 0.000 0.000 0.000 0.692 0.000
#> SRR1026945 3 0.0858 0.8824 0.004 0.000 0.968 0.000 0.028 0.000
#> SRR1026947 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026946 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026948 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026949 4 0.5654 0.3111 0.284 0.000 0.000 0.524 0.192 0.000
#> SRR1026950 5 0.3175 0.6603 0.256 0.000 0.000 0.000 0.744 0.000
#> SRR1026951 4 0.1444 0.8673 0.000 0.000 0.000 0.928 0.072 0.000
#> SRR1026952 5 0.3151 0.6654 0.252 0.000 0.000 0.000 0.748 0.000
#> SRR1026953 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026954 4 0.0146 0.9040 0.000 0.000 0.000 0.996 0.004 0.000
#> SRR1026955 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026956 1 0.4004 0.6064 0.760 0.000 0.000 0.120 0.120 0.000
#> SRR1026957 2 0.3634 0.4947 0.000 0.644 0.000 0.356 0.000 0.000
#> SRR1026958 1 0.3515 0.4616 0.676 0.000 0.000 0.000 0.324 0.000
#> SRR1026959 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026960 4 0.4117 0.6402 0.056 0.000 0.000 0.716 0.228 0.000
#> SRR1026961 4 0.0146 0.9040 0.000 0.000 0.000 0.996 0.004 0.000
#> SRR1026962 5 0.2762 0.7752 0.196 0.000 0.000 0.000 0.804 0.000
#> SRR1026963 5 0.2762 0.7752 0.196 0.000 0.000 0.000 0.804 0.000
#> SRR1026964 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026965 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026966 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026967 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026968 4 0.0146 0.9040 0.000 0.000 0.000 0.996 0.004 0.000
#> SRR1026969 4 0.2586 0.8265 0.032 0.000 0.000 0.868 0.100 0.000
#> SRR1026970 1 0.4445 0.3555 0.572 0.000 0.000 0.396 0.032 0.000
#> SRR1026971 1 0.3911 0.5437 0.712 0.000 0.000 0.256 0.032 0.000
#> SRR1026972 1 0.1444 0.7163 0.928 0.000 0.000 0.072 0.000 0.000
#> SRR1026973 1 0.1444 0.7163 0.928 0.000 0.000 0.072 0.000 0.000
#> SRR1026974 5 0.4030 0.5704 0.080 0.000 0.000 0.172 0.748 0.000
#> SRR1026975 5 0.4030 0.5706 0.080 0.000 0.000 0.172 0.748 0.000
#> SRR1026976 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026977 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026978 1 0.0790 0.7260 0.968 0.000 0.000 0.000 0.032 0.000
#> SRR1026979 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1026980 1 0.4403 0.5569 0.708 0.000 0.000 0.096 0.196 0.000
#> SRR1026981 4 0.5911 0.3889 0.004 0.000 0.008 0.540 0.192 0.256
#> SRR1026982 4 0.0146 0.9040 0.000 0.000 0.000 0.996 0.004 0.000
#> SRR1026983 4 0.0146 0.9040 0.000 0.000 0.000 0.996 0.004 0.000
#> SRR1026984 4 0.0146 0.9040 0.000 0.000 0.000 0.996 0.004 0.000
#> SRR1026985 4 0.0146 0.9040 0.000 0.000 0.000 0.996 0.004 0.000
#> SRR1026986 1 0.3851 0.3854 0.540 0.000 0.000 0.000 0.460 0.000
#> SRR1026987 1 0.0865 0.7247 0.964 0.000 0.000 0.000 0.036 0.000
#> SRR1026988 1 0.2048 0.6705 0.880 0.000 0.000 0.000 0.120 0.000
#> SRR1026989 3 0.3409 0.5764 0.000 0.000 0.700 0.000 0.000 0.300
#> SRR1026990 4 0.0935 0.8863 0.032 0.000 0.000 0.964 0.004 0.000
#> SRR1026991 6 0.0291 0.9629 0.000 0.000 0.004 0.004 0.000 0.992
#> SRR1026992 1 0.3797 -0.1633 0.580 0.000 0.000 0.000 0.420 0.000
#> SRR1026993 5 0.3867 0.1261 0.488 0.000 0.000 0.000 0.512 0.000
#> SRR1026994 1 0.1444 0.7174 0.928 0.000 0.000 0.072 0.000 0.000
#> SRR1026995 1 0.0790 0.7217 0.968 0.000 0.000 0.000 0.032 0.000
#> SRR1026996 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026997 4 0.0000 0.9050 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026998 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026999 6 0.0000 0.9675 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1027000 1 0.1765 0.6936 0.904 0.000 0.000 0.000 0.096 0.000
#> SRR1027001 1 0.5415 0.1431 0.564 0.000 0.128 0.000 0.304 0.004
#> SRR1027002 1 0.3782 0.4095 0.588 0.000 0.000 0.000 0.412 0.000
#> SRR1027003 1 0.2597 0.6401 0.824 0.000 0.000 0.000 0.176 0.000
#> SRR1027004 1 0.4325 0.0663 0.524 0.000 0.000 0.020 0.456 0.000
#> SRR1027005 3 0.0790 0.8819 0.000 0.000 0.968 0.000 0.000 0.032
#> SRR1027006 1 0.2593 0.6850 0.844 0.000 0.008 0.000 0.148 0.000
#> SRR1027007 1 0.0790 0.7260 0.968 0.000 0.000 0.000 0.032 0.000
#> SRR1027008 1 0.0260 0.7294 0.992 0.000 0.000 0.000 0.008 0.000
#> SRR1027009 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1027010 3 0.2814 0.7591 0.008 0.000 0.820 0.000 0.172 0.000
#> SRR1027011 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177668 1 0.2048 0.6705 0.880 0.000 0.000 0.000 0.120 0.000
#> SRR1177667 1 0.2219 0.6589 0.864 0.000 0.000 0.000 0.136 0.000
#> SRR1177669 3 0.1075 0.8587 0.048 0.000 0.952 0.000 0.000 0.000
#> SRR1177670 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177671 2 0.2416 0.7999 0.000 0.844 0.000 0.000 0.156 0.000
#> SRR1177672 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177673 5 0.3727 0.7504 0.216 0.000 0.036 0.000 0.748 0.000
#> SRR1177674 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177675 5 0.2762 0.7752 0.196 0.000 0.000 0.000 0.804 0.000
#> SRR1177676 3 0.0790 0.8789 0.000 0.000 0.968 0.000 0.032 0.000
#> SRR1177677 1 0.1714 0.6888 0.908 0.000 0.000 0.000 0.092 0.000
#> SRR1177678 5 0.3857 0.4910 0.468 0.000 0.000 0.000 0.532 0.000
#> SRR1177679 2 0.3025 0.7789 0.024 0.820 0.000 0.000 0.156 0.000
#> SRR1177680 4 0.3564 0.7474 0.024 0.004 0.000 0.768 0.204 0.000
#> SRR1177681 1 0.0865 0.7247 0.964 0.000 0.000 0.000 0.036 0.000
#> SRR1177682 1 0.0458 0.7291 0.984 0.000 0.000 0.000 0.016 0.000
#> SRR1177683 2 0.2378 0.8023 0.000 0.848 0.000 0.000 0.152 0.000
#> SRR1177684 2 0.2669 0.7934 0.008 0.836 0.000 0.000 0.156 0.000
#> SRR1177685 5 0.2883 0.7783 0.212 0.000 0.000 0.000 0.788 0.000
#> SRR1177686 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177687 4 0.3333 0.7571 0.024 0.000 0.000 0.784 0.192 0.000
#> SRR1177688 1 0.0790 0.7217 0.968 0.000 0.000 0.000 0.032 0.000
#> SRR1177689 1 0.2527 0.6377 0.832 0.000 0.000 0.000 0.168 0.000
#> SRR1177690 1 0.2003 0.6862 0.884 0.000 0.000 0.000 0.116 0.000
#> SRR1177691 2 0.3025 0.7789 0.024 0.820 0.000 0.000 0.156 0.000
#> SRR1177692 4 0.3333 0.7571 0.024 0.000 0.000 0.784 0.192 0.000
#> SRR1177693 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177694 2 0.2762 0.7428 0.000 0.804 0.000 0.196 0.000 0.000
#> SRR1177695 1 0.3634 0.4800 0.644 0.000 0.000 0.000 0.356 0.000
#> SRR1177697 1 0.3409 0.4491 0.700 0.000 0.000 0.000 0.300 0.000
#> SRR1177696 1 0.0865 0.7247 0.964 0.000 0.000 0.000 0.036 0.000
#> SRR1177698 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177700 1 0.4039 0.5514 0.732 0.000 0.000 0.208 0.060 0.000
#> SRR1177701 4 0.3284 0.7425 0.168 0.000 0.000 0.800 0.032 0.000
#> SRR1177702 1 0.4002 0.4481 0.660 0.000 0.000 0.000 0.320 0.020
#> SRR1177703 1 0.4659 0.4514 0.656 0.000 0.000 0.260 0.084 0.000
#> SRR1177704 4 0.3219 0.8173 0.064 0.000 0.000 0.848 0.068 0.020
#> SRR1177705 1 0.0865 0.7269 0.964 0.000 0.000 0.036 0.000 0.000
#> SRR1177706 1 0.3754 0.5998 0.776 0.072 0.000 0.000 0.152 0.000
#> SRR1177707 1 0.6123 0.0318 0.352 0.000 0.000 0.340 0.308 0.000
#> SRR1177708 1 0.4384 0.4038 0.616 0.000 0.000 0.348 0.036 0.000
#> SRR1177709 1 0.0790 0.7217 0.968 0.000 0.000 0.000 0.032 0.000
#> SRR1177710 1 0.2971 0.6685 0.832 0.000 0.004 0.000 0.020 0.144
#> SRR1177711 5 0.2912 0.7782 0.216 0.000 0.000 0.000 0.784 0.000
#> SRR1177712 1 0.2448 0.7120 0.884 0.000 0.000 0.064 0.052 0.000
#> SRR1177714 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177713 5 0.4551 0.3183 0.048 0.000 0.344 0.000 0.608 0.000
#> SRR1177715 1 0.3371 0.5774 0.708 0.000 0.000 0.000 0.292 0.000
#> SRR1177716 3 0.3198 0.6397 0.000 0.000 0.740 0.000 0.000 0.260
#> SRR1177717 5 0.2996 0.7534 0.228 0.000 0.000 0.000 0.772 0.000
#> SRR1177718 5 0.2941 0.7766 0.220 0.000 0.000 0.000 0.780 0.000
#> SRR1177719 1 0.1267 0.7181 0.940 0.000 0.000 0.000 0.060 0.000
#> SRR1177720 6 0.2416 0.8189 0.000 0.000 0.000 0.000 0.156 0.844
#> SRR1177721 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177722 2 0.0000 0.9035 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177723 5 0.2941 0.7766 0.220 0.000 0.000 0.000 0.780 0.000
#> SRR1177725 5 0.2762 0.7752 0.196 0.000 0.000 0.000 0.804 0.000
#> SRR1177724 1 0.3266 0.5282 0.728 0.000 0.000 0.000 0.272 0.000
#> SRR1177726 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177727 5 0.3857 0.4910 0.468 0.000 0.000 0.000 0.532 0.000
#> SRR1177728 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177729 5 0.2883 0.7783 0.212 0.000 0.000 0.000 0.788 0.000
#> SRR1177730 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177731 1 0.2048 0.6705 0.880 0.000 0.000 0.000 0.120 0.000
#> SRR1177732 5 0.4899 0.5133 0.404 0.000 0.064 0.000 0.532 0.000
#> SRR1177733 1 0.0790 0.7260 0.968 0.000 0.000 0.000 0.032 0.000
#> SRR1177734 1 0.3101 0.5802 0.756 0.000 0.000 0.000 0.244 0.000
#> SRR1177735 4 0.5056 0.4506 0.100 0.000 0.000 0.588 0.312 0.000
#> SRR1177736 1 0.3428 0.4923 0.696 0.000 0.000 0.000 0.304 0.000
#> SRR1177737 4 0.0260 0.9027 0.000 0.000 0.000 0.992 0.008 0.000
#> SRR1177738 4 0.2793 0.7159 0.000 0.000 0.000 0.800 0.000 0.200
#> SRR1177739 1 0.1267 0.7246 0.940 0.000 0.000 0.000 0.060 0.000
#> SRR1177740 1 0.0000 0.7272 1.000 0.000 0.000 0.000 0.000 0.000
#> SRR1177741 5 0.3857 0.4910 0.468 0.000 0.000 0.000 0.532 0.000
#> SRR1177742 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177743 5 0.5487 0.5001 0.320 0.000 0.148 0.000 0.532 0.000
#> SRR1177744 5 0.5431 0.5053 0.332 0.000 0.136 0.000 0.532 0.000
#> SRR1177745 4 0.3424 0.7506 0.024 0.000 0.000 0.772 0.204 0.000
#> SRR1177746 4 0.7170 0.2457 0.196 0.104 0.000 0.392 0.308 0.000
#> SRR1177747 3 0.6361 0.4418 0.216 0.000 0.544 0.180 0.060 0.000
#> SRR1177748 3 0.0000 0.9008 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177749 5 0.2883 0.7783 0.212 0.000 0.000 0.000 0.788 0.000
#> SRR1177750 1 0.2048 0.6705 0.880 0.000 0.000 0.000 0.120 0.000
#> SRR1177751 1 0.2941 0.5642 0.780 0.000 0.000 0.000 0.220 0.000
#> SRR1177752 5 0.2941 0.7766 0.220 0.000 0.000 0.000 0.780 0.000
#> SRR1177753 1 0.1267 0.7132 0.940 0.000 0.000 0.000 0.060 0.000
#> SRR1177754 1 0.2048 0.6705 0.880 0.000 0.000 0.000 0.120 0.000
#> SRR1177755 5 0.2762 0.7752 0.196 0.000 0.000 0.000 0.804 0.000
#> SRR1177756 1 0.1387 0.7204 0.932 0.000 0.000 0.000 0.068 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["MAD", "mclust"]
# you can also extract it by
# res = res_list["MAD:mclust"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'MAD' method.
#> Subgroups are detected by 'mclust' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.371 0.743 0.838 0.4209 0.522 0.522
#> 3 3 0.497 0.734 0.846 0.5072 0.757 0.560
#> 4 4 0.595 0.724 0.841 0.0886 0.889 0.710
#> 5 5 0.596 0.645 0.786 0.0599 0.964 0.888
#> 6 6 0.608 0.616 0.703 0.0505 0.947 0.824
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.8016 0.85427 0.244 0.756
#> SRR1026871 2 0.8016 0.85427 0.244 0.756
#> SRR1026872 2 0.8016 0.85427 0.244 0.756
#> SRR1026873 1 0.0000 0.88973 1.000 0.000
#> SRR1026874 1 0.1843 0.87044 0.972 0.028
#> SRR1026875 2 0.8144 0.84753 0.252 0.748
#> SRR1026876 2 0.8144 0.84753 0.252 0.748
#> SRR1026877 2 0.9996 -0.26073 0.488 0.512
#> SRR1026878 2 0.9996 -0.26073 0.488 0.512
#> SRR1026879 1 0.0000 0.88973 1.000 0.000
#> SRR1026880 1 0.0000 0.88973 1.000 0.000
#> SRR1026881 2 0.8016 0.85427 0.244 0.756
#> SRR1026882 2 0.8016 0.85427 0.244 0.756
#> SRR1026883 2 0.8016 0.85427 0.244 0.756
#> SRR1026884 2 0.8016 0.85427 0.244 0.756
#> SRR1026885 2 0.8016 0.85427 0.244 0.756
#> SRR1026886 2 0.8016 0.85427 0.244 0.756
#> SRR1026887 2 0.9996 -0.26073 0.488 0.512
#> SRR1026888 2 0.9996 -0.26073 0.488 0.512
#> SRR1026889 2 0.8016 0.85427 0.244 0.756
#> SRR1026890 2 0.9833 0.58616 0.424 0.576
#> SRR1026891 2 0.8016 0.85427 0.244 0.756
#> SRR1026892 2 0.8016 0.85427 0.244 0.756
#> SRR1026893 2 0.9996 -0.26073 0.488 0.512
#> SRR1026894 2 0.9996 -0.26073 0.488 0.512
#> SRR1026895 2 0.8016 0.85427 0.244 0.756
#> SRR1026896 2 0.8016 0.85427 0.244 0.756
#> SRR1026897 1 0.2603 0.85828 0.956 0.044
#> SRR1026898 1 0.0000 0.88973 1.000 0.000
#> SRR1026899 1 0.2236 0.86454 0.964 0.036
#> SRR1026900 1 0.5629 0.71345 0.868 0.132
#> SRR1026901 1 0.5059 0.74686 0.888 0.112
#> SRR1026902 2 0.8016 0.85427 0.244 0.756
#> SRR1026903 2 0.8016 0.85427 0.244 0.756
#> SRR1026904 1 0.9850 -0.19124 0.572 0.428
#> SRR1026905 1 0.9732 -0.09872 0.596 0.404
#> SRR1026906 2 0.8016 0.85427 0.244 0.756
#> SRR1026907 2 0.8016 0.85427 0.244 0.756
#> SRR1026908 2 0.8016 0.85427 0.244 0.756
#> SRR1026909 2 0.8016 0.85427 0.244 0.756
#> SRR1026910 2 0.8016 0.85427 0.244 0.756
#> SRR1026911 2 0.8016 0.85427 0.244 0.756
#> SRR1026912 2 0.9996 -0.26073 0.488 0.512
#> SRR1026913 2 0.9996 -0.26073 0.488 0.512
#> SRR1026914 2 0.8016 0.85427 0.244 0.756
#> SRR1026915 2 0.8016 0.85427 0.244 0.756
#> SRR1026916 2 0.8016 0.85427 0.244 0.756
#> SRR1026917 2 0.8016 0.85427 0.244 0.756
#> SRR1026918 2 0.8016 0.85427 0.244 0.756
#> SRR1026919 2 0.8016 0.85427 0.244 0.756
#> SRR1026920 2 0.8016 0.85427 0.244 0.756
#> SRR1026921 2 0.8016 0.85427 0.244 0.756
#> SRR1026922 1 0.6048 0.68474 0.852 0.148
#> SRR1026923 1 0.6048 0.68474 0.852 0.148
#> SRR1026924 2 0.8016 0.85427 0.244 0.756
#> SRR1026925 2 0.9996 -0.26073 0.488 0.512
#> SRR1026926 2 0.8016 0.85427 0.244 0.756
#> SRR1026927 2 0.8016 0.85427 0.244 0.756
#> SRR1026928 2 0.8016 0.85427 0.244 0.756
#> SRR1026929 2 0.9996 -0.26073 0.488 0.512
#> SRR1026930 1 0.0000 0.88973 1.000 0.000
#> SRR1026931 1 0.0938 0.87824 0.988 0.012
#> SRR1026932 2 0.8144 0.84753 0.252 0.748
#> SRR1026933 2 0.8144 0.84753 0.252 0.748
#> SRR1026934 2 0.8016 0.85427 0.244 0.756
#> SRR1026935 2 0.8016 0.85427 0.244 0.756
#> SRR1026936 2 0.8016 0.85427 0.244 0.756
#> SRR1026937 2 0.8016 0.85427 0.244 0.756
#> SRR1026938 2 0.8016 0.85427 0.244 0.756
#> SRR1026939 2 0.8016 0.85427 0.244 0.756
#> SRR1026940 1 0.0000 0.88973 1.000 0.000
#> SRR1026941 1 0.8016 0.68454 0.756 0.244
#> SRR1026942 1 0.0000 0.88973 1.000 0.000
#> SRR1026943 1 0.0000 0.88973 1.000 0.000
#> SRR1026944 1 0.0000 0.88973 1.000 0.000
#> SRR1026945 1 0.8016 0.68454 0.756 0.244
#> SRR1026947 2 0.8016 0.85427 0.244 0.756
#> SRR1026946 2 0.8016 0.85427 0.244 0.756
#> SRR1026948 1 0.6048 0.68474 0.852 0.148
#> SRR1026949 1 0.0000 0.88973 1.000 0.000
#> SRR1026950 1 0.0000 0.88973 1.000 0.000
#> SRR1026951 1 0.0000 0.88973 1.000 0.000
#> SRR1026952 1 0.0000 0.88973 1.000 0.000
#> SRR1026953 1 0.8016 0.68454 0.756 0.244
#> SRR1026954 2 0.8016 0.85427 0.244 0.756
#> SRR1026955 2 0.8144 0.84753 0.252 0.748
#> SRR1026956 2 0.8016 0.85427 0.244 0.756
#> SRR1026957 2 0.8661 0.80537 0.288 0.712
#> SRR1026958 1 0.0000 0.88973 1.000 0.000
#> SRR1026959 1 0.0938 0.87828 0.988 0.012
#> SRR1026960 2 0.8081 0.85112 0.248 0.752
#> SRR1026961 2 0.8016 0.85427 0.244 0.756
#> SRR1026962 1 0.0000 0.88973 1.000 0.000
#> SRR1026963 1 0.0000 0.88973 1.000 0.000
#> SRR1026964 2 0.8016 0.85427 0.244 0.756
#> SRR1026965 2 0.8016 0.85427 0.244 0.756
#> SRR1026966 2 0.9996 -0.26073 0.488 0.512
#> SRR1026967 2 0.9996 -0.26073 0.488 0.512
#> SRR1026968 2 0.8144 0.84748 0.252 0.748
#> SRR1026969 2 0.8144 0.84748 0.252 0.748
#> SRR1026970 2 0.8016 0.85427 0.244 0.756
#> SRR1026971 2 0.8016 0.85427 0.244 0.756
#> SRR1026972 1 0.9580 0.00548 0.620 0.380
#> SRR1026973 1 0.9580 0.00548 0.620 0.380
#> SRR1026974 2 0.8144 0.84748 0.252 0.748
#> SRR1026975 2 0.8081 0.85112 0.248 0.752
#> SRR1026976 2 0.8016 0.85427 0.244 0.756
#> SRR1026977 2 0.8016 0.85427 0.244 0.756
#> SRR1026978 1 0.0000 0.88973 1.000 0.000
#> SRR1026979 1 0.8016 0.68454 0.756 0.244
#> SRR1026980 1 0.0000 0.88973 1.000 0.000
#> SRR1026981 1 0.8016 0.68454 0.756 0.244
#> SRR1026982 2 0.8016 0.85427 0.244 0.756
#> SRR1026983 2 0.8016 0.85427 0.244 0.756
#> SRR1026984 2 0.8016 0.85427 0.244 0.756
#> SRR1026985 2 0.8016 0.85427 0.244 0.756
#> SRR1026986 1 0.0000 0.88973 1.000 0.000
#> SRR1026987 1 0.0000 0.88973 1.000 0.000
#> SRR1026988 1 0.0000 0.88973 1.000 0.000
#> SRR1026989 1 0.8016 0.68454 0.756 0.244
#> SRR1026990 2 0.8016 0.85427 0.244 0.756
#> SRR1026991 2 0.9996 -0.26073 0.488 0.512
#> SRR1026992 1 0.0000 0.88973 1.000 0.000
#> SRR1026993 1 0.0000 0.88973 1.000 0.000
#> SRR1026994 1 0.0000 0.88973 1.000 0.000
#> SRR1026995 1 0.0000 0.88973 1.000 0.000
#> SRR1026996 2 0.8016 0.85427 0.244 0.756
#> SRR1026997 2 0.8016 0.85427 0.244 0.756
#> SRR1026998 2 0.9996 -0.26073 0.488 0.512
#> SRR1026999 2 0.9996 -0.26073 0.488 0.512
#> SRR1027000 1 0.0000 0.88973 1.000 0.000
#> SRR1027001 1 0.7528 0.70846 0.784 0.216
#> SRR1027002 1 0.0000 0.88973 1.000 0.000
#> SRR1027003 1 0.0000 0.88973 1.000 0.000
#> SRR1027004 1 0.0000 0.88973 1.000 0.000
#> SRR1027005 1 0.8016 0.68454 0.756 0.244
#> SRR1027006 1 0.3584 0.83814 0.932 0.068
#> SRR1027007 1 0.0000 0.88973 1.000 0.000
#> SRR1027008 1 0.0000 0.88973 1.000 0.000
#> SRR1027009 1 0.8016 0.68454 0.756 0.244
#> SRR1027010 1 0.2778 0.85505 0.952 0.048
#> SRR1027011 1 0.8016 0.68454 0.756 0.244
#> SRR1177668 1 0.0000 0.88973 1.000 0.000
#> SRR1177667 1 0.0000 0.88973 1.000 0.000
#> SRR1177669 1 0.7815 0.69507 0.768 0.232
#> SRR1177670 1 0.8016 0.68454 0.756 0.244
#> SRR1177671 1 0.0000 0.88973 1.000 0.000
#> SRR1177672 1 0.8016 0.68454 0.756 0.244
#> SRR1177673 1 0.0000 0.88973 1.000 0.000
#> SRR1177674 1 0.8016 0.68454 0.756 0.244
#> SRR1177675 1 0.0000 0.88973 1.000 0.000
#> SRR1177676 1 0.2236 0.86451 0.964 0.036
#> SRR1177677 1 0.0000 0.88973 1.000 0.000
#> SRR1177678 1 0.0000 0.88973 1.000 0.000
#> SRR1177679 1 0.0000 0.88973 1.000 0.000
#> SRR1177680 1 0.0000 0.88973 1.000 0.000
#> SRR1177681 1 0.0000 0.88973 1.000 0.000
#> SRR1177682 1 0.0000 0.88973 1.000 0.000
#> SRR1177683 1 0.0000 0.88973 1.000 0.000
#> SRR1177684 1 0.0000 0.88973 1.000 0.000
#> SRR1177685 1 0.0000 0.88973 1.000 0.000
#> SRR1177686 1 0.8016 0.68454 0.756 0.244
#> SRR1177687 1 0.0000 0.88973 1.000 0.000
#> SRR1177688 1 0.0000 0.88973 1.000 0.000
#> SRR1177689 1 0.0000 0.88973 1.000 0.000
#> SRR1177690 1 0.0000 0.88973 1.000 0.000
#> SRR1177691 1 0.0000 0.88973 1.000 0.000
#> SRR1177692 1 0.0000 0.88973 1.000 0.000
#> SRR1177693 2 0.8016 0.85427 0.244 0.756
#> SRR1177694 2 0.8016 0.85427 0.244 0.756
#> SRR1177695 1 0.0000 0.88973 1.000 0.000
#> SRR1177697 1 0.0000 0.88973 1.000 0.000
#> SRR1177696 1 0.0000 0.88973 1.000 0.000
#> SRR1177698 1 0.8016 0.68454 0.756 0.244
#> SRR1177700 1 0.1633 0.86562 0.976 0.024
#> SRR1177701 2 0.8081 0.85113 0.248 0.752
#> SRR1177702 1 0.0000 0.88973 1.000 0.000
#> SRR1177703 1 0.8327 0.41220 0.736 0.264
#> SRR1177704 1 0.0000 0.88973 1.000 0.000
#> SRR1177705 1 0.0000 0.88973 1.000 0.000
#> SRR1177706 1 0.0000 0.88973 1.000 0.000
#> SRR1177707 1 0.8386 0.40205 0.732 0.268
#> SRR1177708 1 0.4939 0.75319 0.892 0.108
#> SRR1177709 1 0.0000 0.88973 1.000 0.000
#> SRR1177710 1 0.8016 0.68454 0.756 0.244
#> SRR1177711 1 0.0000 0.88973 1.000 0.000
#> SRR1177712 1 0.3114 0.82739 0.944 0.056
#> SRR1177714 1 0.0000 0.88973 1.000 0.000
#> SRR1177713 1 0.0000 0.88973 1.000 0.000
#> SRR1177715 1 0.0000 0.88973 1.000 0.000
#> SRR1177716 1 0.8016 0.68454 0.756 0.244
#> SRR1177717 1 0.0000 0.88973 1.000 0.000
#> SRR1177718 1 0.0000 0.88973 1.000 0.000
#> SRR1177719 1 0.6712 0.62919 0.824 0.176
#> SRR1177720 1 0.8016 0.68454 0.756 0.244
#> SRR1177721 1 0.6048 0.68474 0.852 0.148
#> SRR1177722 1 0.8327 0.41220 0.736 0.264
#> SRR1177723 1 0.0000 0.88973 1.000 0.000
#> SRR1177725 1 0.0000 0.88973 1.000 0.000
#> SRR1177724 1 0.0000 0.88973 1.000 0.000
#> SRR1177726 1 0.8016 0.68454 0.756 0.244
#> SRR1177727 1 0.0000 0.88973 1.000 0.000
#> SRR1177728 1 0.8016 0.68454 0.756 0.244
#> SRR1177729 1 0.0000 0.88973 1.000 0.000
#> SRR1177730 1 0.8016 0.68454 0.756 0.244
#> SRR1177731 1 0.0000 0.88973 1.000 0.000
#> SRR1177732 1 0.0000 0.88973 1.000 0.000
#> SRR1177733 1 0.0000 0.88973 1.000 0.000
#> SRR1177734 1 0.0000 0.88973 1.000 0.000
#> SRR1177735 1 0.0000 0.88973 1.000 0.000
#> SRR1177736 1 0.0000 0.88973 1.000 0.000
#> SRR1177737 2 0.8016 0.85427 0.244 0.756
#> SRR1177738 2 0.9996 -0.26073 0.488 0.512
#> SRR1177739 1 0.0000 0.88973 1.000 0.000
#> SRR1177740 1 0.0000 0.88973 1.000 0.000
#> SRR1177741 1 0.0000 0.88973 1.000 0.000
#> SRR1177742 1 0.8016 0.68454 0.756 0.244
#> SRR1177743 1 0.0938 0.88183 0.988 0.012
#> SRR1177744 1 0.7602 0.70544 0.780 0.220
#> SRR1177745 1 0.0000 0.88973 1.000 0.000
#> SRR1177746 1 0.0000 0.88973 1.000 0.000
#> SRR1177747 1 0.8555 0.65927 0.720 0.280
#> SRR1177748 1 0.8016 0.68454 0.756 0.244
#> SRR1177749 1 0.0000 0.88973 1.000 0.000
#> SRR1177750 1 0.0000 0.88973 1.000 0.000
#> SRR1177751 1 0.0000 0.88973 1.000 0.000
#> SRR1177752 1 0.0000 0.88973 1.000 0.000
#> SRR1177753 1 0.0000 0.88973 1.000 0.000
#> SRR1177754 1 0.0672 0.88452 0.992 0.008
#> SRR1177755 1 0.0000 0.88973 1.000 0.000
#> SRR1177756 1 0.0000 0.88973 1.000 0.000
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.8103 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.8103 0.000 1.000 0.000
#> SRR1026872 2 0.0592 0.8110 0.000 0.988 0.012
#> SRR1026873 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026874 1 0.5810 0.4582 0.664 0.000 0.336
#> SRR1026875 2 0.2796 0.7442 0.000 0.908 0.092
#> SRR1026876 2 0.2796 0.7442 0.000 0.908 0.092
#> SRR1026877 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026878 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026879 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1026880 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1026881 2 0.0848 0.8160 0.008 0.984 0.008
#> SRR1026882 2 0.0848 0.8160 0.008 0.984 0.008
#> SRR1026883 2 0.5585 0.8142 0.204 0.772 0.024
#> SRR1026884 2 0.5585 0.8142 0.204 0.772 0.024
#> SRR1026885 2 0.6496 0.8036 0.208 0.736 0.056
#> SRR1026886 2 0.6588 0.8020 0.208 0.732 0.060
#> SRR1026887 3 0.1529 0.7543 0.000 0.040 0.960
#> SRR1026888 3 0.1529 0.7543 0.000 0.040 0.960
#> SRR1026889 2 0.0848 0.8160 0.008 0.984 0.008
#> SRR1026890 2 0.9191 0.5693 0.208 0.536 0.256
#> SRR1026891 2 0.6496 0.8037 0.208 0.736 0.056
#> SRR1026892 2 0.6588 0.8021 0.208 0.732 0.060
#> SRR1026893 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026894 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026895 2 0.6841 0.7987 0.200 0.724 0.076
#> SRR1026896 2 0.6841 0.7987 0.200 0.724 0.076
#> SRR1026897 3 0.6008 0.4579 0.372 0.000 0.628
#> SRR1026898 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1026899 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1026900 1 0.6297 0.6892 0.756 0.184 0.060
#> SRR1026901 1 0.8117 0.5374 0.636 0.128 0.236
#> SRR1026902 2 0.6588 0.8021 0.208 0.732 0.060
#> SRR1026903 2 0.6588 0.8021 0.208 0.732 0.060
#> SRR1026904 3 0.9888 0.0765 0.264 0.348 0.388
#> SRR1026905 3 0.9800 0.1048 0.244 0.344 0.412
#> SRR1026906 2 0.0000 0.8103 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.8103 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.8103 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.8103 0.000 1.000 0.000
#> SRR1026910 2 0.5318 0.8146 0.204 0.780 0.016
#> SRR1026911 2 0.5318 0.8146 0.204 0.780 0.016
#> SRR1026912 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026913 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026914 2 0.0424 0.8112 0.000 0.992 0.008
#> SRR1026915 2 0.0424 0.8112 0.000 0.992 0.008
#> SRR1026916 2 0.0237 0.8110 0.000 0.996 0.004
#> SRR1026917 2 0.0237 0.8110 0.000 0.996 0.004
#> SRR1026918 2 0.4963 0.8161 0.200 0.792 0.008
#> SRR1026919 2 0.4963 0.8161 0.200 0.792 0.008
#> SRR1026920 2 0.1015 0.8176 0.012 0.980 0.008
#> SRR1026921 2 0.1015 0.8176 0.012 0.980 0.008
#> SRR1026922 2 0.9949 -0.3414 0.308 0.384 0.308
#> SRR1026923 1 0.7333 0.6697 0.704 0.180 0.116
#> SRR1026924 2 0.4700 0.8222 0.180 0.812 0.008
#> SRR1026925 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026926 2 0.6696 0.8044 0.188 0.736 0.076
#> SRR1026927 2 0.6933 0.7934 0.208 0.716 0.076
#> SRR1026928 2 0.1031 0.8204 0.024 0.976 0.000
#> SRR1026929 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026930 1 0.8513 0.4013 0.568 0.316 0.116
#> SRR1026931 3 0.8703 0.5901 0.124 0.332 0.544
#> SRR1026932 2 0.2625 0.7416 0.000 0.916 0.084
#> SRR1026933 2 0.2625 0.7416 0.000 0.916 0.084
#> SRR1026934 2 0.0000 0.8103 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.8103 0.000 1.000 0.000
#> SRR1026936 2 0.6933 0.7934 0.208 0.716 0.076
#> SRR1026937 2 0.6933 0.7934 0.208 0.716 0.076
#> SRR1026938 2 0.0592 0.8110 0.000 0.988 0.012
#> SRR1026939 2 0.0592 0.8110 0.000 0.988 0.012
#> SRR1026940 1 0.0237 0.8588 0.996 0.000 0.004
#> SRR1026941 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1026942 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026943 1 0.2959 0.8067 0.900 0.100 0.000
#> SRR1026944 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026945 3 0.6079 0.3928 0.388 0.000 0.612
#> SRR1026947 2 0.0237 0.8084 0.000 0.996 0.004
#> SRR1026946 2 0.0000 0.8103 0.000 1.000 0.000
#> SRR1026948 3 0.8227 0.5347 0.080 0.384 0.536
#> SRR1026949 1 0.3043 0.8142 0.908 0.084 0.008
#> SRR1026950 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026951 1 0.7757 0.5793 0.664 0.112 0.224
#> SRR1026952 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026953 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1026954 2 0.5061 0.8111 0.208 0.784 0.008
#> SRR1026955 2 0.2625 0.7416 0.000 0.916 0.084
#> SRR1026956 2 0.6933 0.7934 0.208 0.716 0.076
#> SRR1026957 2 0.3434 0.7637 0.032 0.904 0.064
#> SRR1026958 1 0.2625 0.8183 0.916 0.084 0.000
#> SRR1026959 3 0.8487 0.5573 0.100 0.364 0.536
#> SRR1026960 2 0.4605 0.8125 0.204 0.796 0.000
#> SRR1026961 2 0.3267 0.8301 0.116 0.884 0.000
#> SRR1026962 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026964 2 0.5220 0.8116 0.208 0.780 0.012
#> SRR1026965 2 0.5171 0.8144 0.204 0.784 0.012
#> SRR1026966 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026967 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026968 2 0.1860 0.8267 0.052 0.948 0.000
#> SRR1026969 2 0.2878 0.8282 0.096 0.904 0.000
#> SRR1026970 2 0.6933 0.7934 0.208 0.716 0.076
#> SRR1026971 2 0.6933 0.7934 0.208 0.716 0.076
#> SRR1026972 1 0.7826 0.2696 0.612 0.312 0.076
#> SRR1026973 1 0.7801 0.2827 0.616 0.308 0.076
#> SRR1026974 2 0.4654 0.8093 0.208 0.792 0.000
#> SRR1026975 2 0.4654 0.8093 0.208 0.792 0.000
#> SRR1026976 2 0.5874 0.8098 0.208 0.760 0.032
#> SRR1026977 2 0.5756 0.8104 0.208 0.764 0.028
#> SRR1026978 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026979 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1026980 1 0.8688 -0.0643 0.460 0.104 0.436
#> SRR1026981 3 0.2796 0.7669 0.092 0.000 0.908
#> SRR1026982 2 0.3412 0.8295 0.124 0.876 0.000
#> SRR1026983 2 0.3192 0.8302 0.112 0.888 0.000
#> SRR1026984 2 0.1964 0.8272 0.056 0.944 0.000
#> SRR1026985 2 0.2066 0.8277 0.060 0.940 0.000
#> SRR1026986 1 0.4452 0.6429 0.808 0.192 0.000
#> SRR1026987 1 0.2625 0.8183 0.916 0.084 0.000
#> SRR1026988 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026989 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1026990 2 0.5220 0.8116 0.208 0.780 0.012
#> SRR1026991 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026992 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1026994 1 0.8242 0.3440 0.572 0.092 0.336
#> SRR1026995 1 0.2682 0.8350 0.920 0.004 0.076
#> SRR1026996 2 0.6933 0.7934 0.208 0.716 0.076
#> SRR1026997 2 0.6933 0.7934 0.208 0.716 0.076
#> SRR1026998 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1026999 3 0.0424 0.7658 0.000 0.008 0.992
#> SRR1027000 3 0.6299 0.2370 0.476 0.000 0.524
#> SRR1027001 1 0.5882 0.4082 0.652 0.000 0.348
#> SRR1027002 1 0.2682 0.8333 0.920 0.004 0.076
#> SRR1027003 1 0.7925 0.4208 0.604 0.080 0.316
#> SRR1027004 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1027005 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1027006 1 0.2356 0.8377 0.928 0.000 0.072
#> SRR1027007 1 0.2625 0.8183 0.916 0.084 0.000
#> SRR1027008 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1027009 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1027010 1 0.3941 0.7662 0.844 0.000 0.156
#> SRR1027011 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1177668 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1177667 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177669 3 0.6026 0.4260 0.376 0.000 0.624
#> SRR1177670 3 0.2878 0.7654 0.096 0.000 0.904
#> SRR1177671 3 0.8941 0.6141 0.160 0.292 0.548
#> SRR1177672 3 0.5926 0.4440 0.356 0.000 0.644
#> SRR1177673 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1177674 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1177675 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177676 1 0.3941 0.7662 0.844 0.000 0.156
#> SRR1177677 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1177678 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177679 3 0.8941 0.6141 0.160 0.292 0.548
#> SRR1177680 3 0.8962 0.6137 0.164 0.288 0.548
#> SRR1177681 1 0.2261 0.8387 0.932 0.000 0.068
#> SRR1177682 1 0.3752 0.7733 0.856 0.000 0.144
#> SRR1177683 3 0.8941 0.6141 0.160 0.292 0.548
#> SRR1177684 3 0.8941 0.6141 0.160 0.292 0.548
#> SRR1177685 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177686 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1177687 3 0.8941 0.6141 0.160 0.292 0.548
#> SRR1177688 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1177689 1 0.5848 0.7638 0.796 0.080 0.124
#> SRR1177690 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177691 3 0.8941 0.6141 0.160 0.292 0.548
#> SRR1177692 3 0.8425 0.3931 0.348 0.100 0.552
#> SRR1177693 2 0.0237 0.8084 0.000 0.996 0.004
#> SRR1177694 2 0.0829 0.8139 0.004 0.984 0.012
#> SRR1177695 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1177697 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177696 1 0.6180 0.1570 0.584 0.000 0.416
#> SRR1177698 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1177700 1 0.3043 0.8142 0.908 0.084 0.008
#> SRR1177701 2 0.4654 0.8093 0.208 0.792 0.000
#> SRR1177702 1 0.5327 0.5713 0.728 0.000 0.272
#> SRR1177703 1 0.4235 0.7295 0.824 0.176 0.000
#> SRR1177704 3 0.6675 0.3785 0.404 0.012 0.584
#> SRR1177705 1 0.3192 0.7969 0.888 0.112 0.000
#> SRR1177706 3 0.8346 0.3618 0.360 0.092 0.548
#> SRR1177707 1 0.4178 0.7389 0.828 0.172 0.000
#> SRR1177708 1 0.3610 0.8049 0.888 0.096 0.016
#> SRR1177709 1 0.2261 0.8387 0.932 0.000 0.068
#> SRR1177710 3 0.5948 0.4628 0.360 0.000 0.640
#> SRR1177711 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177712 1 0.7860 0.5996 0.664 0.132 0.204
#> SRR1177714 3 0.8941 0.6141 0.160 0.292 0.548
#> SRR1177713 1 0.5968 0.3740 0.636 0.000 0.364
#> SRR1177715 3 0.8962 0.6137 0.164 0.288 0.548
#> SRR1177716 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1177717 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177719 1 0.4002 0.7493 0.840 0.160 0.000
#> SRR1177720 3 0.2625 0.7674 0.084 0.000 0.916
#> SRR1177721 3 0.8227 0.5347 0.080 0.384 0.536
#> SRR1177722 3 0.8227 0.5347 0.080 0.384 0.536
#> SRR1177723 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177726 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1177727 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177728 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1177729 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177730 1 0.6192 0.2381 0.580 0.000 0.420
#> SRR1177731 1 0.0424 0.8581 0.992 0.000 0.008
#> SRR1177732 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1177733 1 0.2625 0.8183 0.916 0.084 0.000
#> SRR1177734 1 0.1964 0.8360 0.944 0.056 0.000
#> SRR1177735 1 0.2860 0.8164 0.912 0.084 0.004
#> SRR1177736 1 0.1289 0.8522 0.968 0.000 0.032
#> SRR1177737 2 0.0424 0.8147 0.008 0.992 0.000
#> SRR1177738 3 0.0592 0.7643 0.000 0.012 0.988
#> SRR1177739 1 0.2448 0.8234 0.924 0.076 0.000
#> SRR1177740 1 0.2625 0.8183 0.916 0.084 0.000
#> SRR1177741 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177742 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1177743 1 0.2537 0.8327 0.920 0.000 0.080
#> SRR1177744 1 0.5905 0.4009 0.648 0.000 0.352
#> SRR1177745 3 0.9021 0.6045 0.184 0.264 0.552
#> SRR1177746 3 0.8962 0.6137 0.164 0.288 0.548
#> SRR1177747 3 0.4750 0.6902 0.216 0.000 0.784
#> SRR1177748 3 0.2796 0.7671 0.092 0.000 0.908
#> SRR1177749 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177751 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1177752 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177754 1 0.2448 0.8347 0.924 0.000 0.076
#> SRR1177755 1 0.0000 0.8594 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.8594 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 4 0.2081 0.7845 0.000 0.084 0.000 0.916
#> SRR1026871 4 0.1792 0.7946 0.000 0.068 0.000 0.932
#> SRR1026872 4 0.1474 0.8017 0.000 0.052 0.000 0.948
#> SRR1026873 1 0.1139 0.8464 0.972 0.012 0.008 0.008
#> SRR1026874 1 0.5329 0.2490 0.568 0.012 0.420 0.000
#> SRR1026875 2 0.4776 0.5691 0.000 0.624 0.000 0.376
#> SRR1026876 2 0.4776 0.5691 0.000 0.624 0.000 0.376
#> SRR1026877 3 0.3443 0.8726 0.000 0.136 0.848 0.016
#> SRR1026878 3 0.3443 0.8726 0.000 0.136 0.848 0.016
#> SRR1026879 1 0.1721 0.8406 0.952 0.012 0.028 0.008
#> SRR1026880 1 0.1590 0.8411 0.956 0.008 0.028 0.008
#> SRR1026881 4 0.1389 0.8018 0.000 0.048 0.000 0.952
#> SRR1026882 4 0.1389 0.8018 0.000 0.048 0.000 0.952
#> SRR1026883 4 0.1767 0.8131 0.012 0.044 0.000 0.944
#> SRR1026884 4 0.1767 0.8131 0.012 0.044 0.000 0.944
#> SRR1026885 4 0.2256 0.8099 0.056 0.020 0.000 0.924
#> SRR1026886 4 0.2256 0.8099 0.056 0.020 0.000 0.924
#> SRR1026887 3 0.3813 0.8655 0.000 0.148 0.828 0.024
#> SRR1026888 3 0.3708 0.8682 0.000 0.148 0.832 0.020
#> SRR1026889 4 0.2647 0.7451 0.000 0.120 0.000 0.880
#> SRR1026890 4 0.3370 0.8041 0.056 0.028 0.028 0.888
#> SRR1026891 4 0.4121 0.6748 0.184 0.020 0.000 0.796
#> SRR1026892 4 0.4121 0.6748 0.184 0.020 0.000 0.796
#> SRR1026893 3 0.3597 0.8703 0.000 0.148 0.836 0.016
#> SRR1026894 3 0.3597 0.8703 0.000 0.148 0.836 0.016
#> SRR1026895 4 0.2089 0.8121 0.020 0.048 0.000 0.932
#> SRR1026896 4 0.2089 0.8121 0.020 0.048 0.000 0.932
#> SRR1026897 3 0.5112 0.3563 0.384 0.008 0.608 0.000
#> SRR1026898 1 0.0672 0.8462 0.984 0.008 0.000 0.008
#> SRR1026899 1 0.3271 0.7705 0.856 0.012 0.132 0.000
#> SRR1026900 1 0.7289 0.1538 0.532 0.268 0.000 0.200
#> SRR1026901 1 0.7439 0.2912 0.576 0.220 0.016 0.188
#> SRR1026902 4 0.3215 0.7810 0.092 0.032 0.000 0.876
#> SRR1026903 4 0.3342 0.7732 0.100 0.032 0.000 0.868
#> SRR1026904 4 0.6079 0.5437 0.180 0.060 0.040 0.720
#> SRR1026905 4 0.6121 0.5480 0.176 0.060 0.044 0.720
#> SRR1026906 4 0.4866 0.1668 0.000 0.404 0.000 0.596
#> SRR1026907 4 0.4866 0.1668 0.000 0.404 0.000 0.596
#> SRR1026908 4 0.4776 0.2464 0.000 0.376 0.000 0.624
#> SRR1026909 4 0.4843 0.1804 0.000 0.396 0.000 0.604
#> SRR1026910 4 0.1743 0.8120 0.056 0.004 0.000 0.940
#> SRR1026911 4 0.1743 0.8120 0.056 0.004 0.000 0.940
#> SRR1026912 3 0.3597 0.8703 0.000 0.148 0.836 0.016
#> SRR1026913 3 0.3597 0.8703 0.000 0.148 0.836 0.016
#> SRR1026914 4 0.1302 0.8039 0.000 0.044 0.000 0.956
#> SRR1026915 4 0.1302 0.8039 0.000 0.044 0.000 0.956
#> SRR1026916 4 0.1211 0.8052 0.000 0.040 0.000 0.960
#> SRR1026917 4 0.1211 0.8052 0.000 0.040 0.000 0.960
#> SRR1026918 4 0.2466 0.8138 0.056 0.028 0.000 0.916
#> SRR1026919 4 0.2466 0.8138 0.056 0.028 0.000 0.916
#> SRR1026920 4 0.1022 0.8085 0.000 0.032 0.000 0.968
#> SRR1026921 4 0.1022 0.8085 0.000 0.032 0.000 0.968
#> SRR1026922 2 0.7591 0.7636 0.160 0.552 0.020 0.268
#> SRR1026923 2 0.7276 0.7007 0.224 0.540 0.000 0.236
#> SRR1026924 4 0.2142 0.8138 0.016 0.056 0.000 0.928
#> SRR1026925 3 0.3443 0.8726 0.000 0.136 0.848 0.016
#> SRR1026926 4 0.1913 0.8155 0.020 0.040 0.000 0.940
#> SRR1026927 4 0.4079 0.6807 0.180 0.020 0.000 0.800
#> SRR1026928 4 0.1211 0.8045 0.000 0.040 0.000 0.960
#> SRR1026929 3 0.3443 0.8726 0.000 0.136 0.848 0.016
#> SRR1026930 2 0.6915 0.7529 0.212 0.592 0.000 0.196
#> SRR1026931 2 0.6796 0.8109 0.128 0.652 0.020 0.200
#> SRR1026932 2 0.4790 0.5631 0.000 0.620 0.000 0.380
#> SRR1026933 2 0.4790 0.5631 0.000 0.620 0.000 0.380
#> SRR1026934 4 0.4830 0.2021 0.000 0.392 0.000 0.608
#> SRR1026935 4 0.4830 0.2021 0.000 0.392 0.000 0.608
#> SRR1026936 4 0.2089 0.8121 0.020 0.048 0.000 0.932
#> SRR1026937 4 0.2089 0.8121 0.020 0.048 0.000 0.932
#> SRR1026938 4 0.1389 0.8018 0.000 0.048 0.000 0.952
#> SRR1026939 4 0.1389 0.8018 0.000 0.048 0.000 0.952
#> SRR1026940 1 0.3342 0.7896 0.880 0.032 0.008 0.080
#> SRR1026941 3 0.0817 0.8771 0.000 0.024 0.976 0.000
#> SRR1026942 1 0.1004 0.8456 0.972 0.024 0.000 0.004
#> SRR1026943 1 0.1624 0.8403 0.952 0.028 0.000 0.020
#> SRR1026944 1 0.1452 0.8371 0.956 0.036 0.000 0.008
#> SRR1026945 3 0.5407 -0.0356 0.484 0.012 0.504 0.000
#> SRR1026947 4 0.4989 -0.1205 0.000 0.472 0.000 0.528
#> SRR1026946 4 0.4804 0.2326 0.000 0.384 0.000 0.616
#> SRR1026948 2 0.6542 0.8031 0.100 0.668 0.020 0.212
#> SRR1026949 1 0.3958 0.7451 0.824 0.144 0.000 0.032
#> SRR1026950 1 0.2546 0.8107 0.900 0.092 0.000 0.008
#> SRR1026951 1 0.6344 0.5410 0.688 0.148 0.012 0.152
#> SRR1026952 1 0.0336 0.8462 0.992 0.008 0.000 0.000
#> SRR1026953 3 0.0524 0.8721 0.008 0.004 0.988 0.000
#> SRR1026954 4 0.1824 0.8102 0.060 0.004 0.000 0.936
#> SRR1026955 2 0.4804 0.5538 0.000 0.616 0.000 0.384
#> SRR1026956 4 0.4323 0.6818 0.184 0.028 0.000 0.788
#> SRR1026957 2 0.5948 0.3748 0.028 0.492 0.004 0.476
#> SRR1026958 1 0.1545 0.8359 0.952 0.040 0.000 0.008
#> SRR1026959 2 0.6642 0.8142 0.124 0.668 0.020 0.188
#> SRR1026960 4 0.4549 0.6740 0.188 0.036 0.000 0.776
#> SRR1026961 4 0.1406 0.8172 0.024 0.016 0.000 0.960
#> SRR1026962 1 0.1042 0.8429 0.972 0.020 0.008 0.000
#> SRR1026963 1 0.1114 0.8455 0.972 0.016 0.008 0.004
#> SRR1026964 4 0.1854 0.8111 0.012 0.048 0.000 0.940
#> SRR1026965 4 0.1854 0.8111 0.012 0.048 0.000 0.940
#> SRR1026966 3 0.3495 0.8722 0.000 0.140 0.844 0.016
#> SRR1026967 3 0.3495 0.8722 0.000 0.140 0.844 0.016
#> SRR1026968 4 0.2329 0.7948 0.012 0.072 0.000 0.916
#> SRR1026969 4 0.2450 0.7976 0.072 0.016 0.000 0.912
#> SRR1026970 4 0.4731 0.6939 0.160 0.060 0.000 0.780
#> SRR1026971 4 0.4731 0.6939 0.160 0.060 0.000 0.780
#> SRR1026972 1 0.7889 -0.2450 0.364 0.288 0.000 0.348
#> SRR1026973 1 0.7889 -0.2452 0.364 0.288 0.000 0.348
#> SRR1026974 4 0.4175 0.6442 0.212 0.012 0.000 0.776
#> SRR1026975 4 0.4059 0.6606 0.200 0.012 0.000 0.788
#> SRR1026976 4 0.1743 0.8120 0.056 0.004 0.000 0.940
#> SRR1026977 4 0.1743 0.8120 0.056 0.004 0.000 0.940
#> SRR1026978 1 0.1305 0.8440 0.960 0.036 0.000 0.004
#> SRR1026979 3 0.0336 0.8726 0.008 0.000 0.992 0.000
#> SRR1026980 1 0.5654 0.6328 0.748 0.080 0.020 0.152
#> SRR1026981 3 0.3243 0.8700 0.036 0.088 0.876 0.000
#> SRR1026982 4 0.1356 0.8182 0.032 0.008 0.000 0.960
#> SRR1026983 4 0.1356 0.8182 0.032 0.008 0.000 0.960
#> SRR1026984 4 0.1305 0.8082 0.004 0.036 0.000 0.960
#> SRR1026985 4 0.1305 0.8082 0.004 0.036 0.000 0.960
#> SRR1026986 1 0.1284 0.8422 0.964 0.024 0.000 0.012
#> SRR1026987 1 0.1913 0.8311 0.940 0.040 0.000 0.020
#> SRR1026988 1 0.1807 0.8302 0.940 0.008 0.052 0.000
#> SRR1026989 3 0.0657 0.8712 0.012 0.004 0.984 0.000
#> SRR1026990 4 0.4079 0.6844 0.180 0.020 0.000 0.800
#> SRR1026991 3 0.2987 0.8759 0.000 0.104 0.880 0.016
#> SRR1026992 1 0.0672 0.8460 0.984 0.008 0.000 0.008
#> SRR1026993 1 0.0469 0.8459 0.988 0.012 0.000 0.000
#> SRR1026994 1 0.5506 0.6445 0.744 0.116 0.004 0.136
#> SRR1026995 1 0.0672 0.8453 0.984 0.008 0.000 0.008
#> SRR1026996 4 0.2060 0.8100 0.016 0.052 0.000 0.932
#> SRR1026997 4 0.2060 0.8100 0.016 0.052 0.000 0.932
#> SRR1026998 3 0.3547 0.8714 0.000 0.144 0.840 0.016
#> SRR1026999 3 0.3547 0.8714 0.000 0.144 0.840 0.016
#> SRR1027000 1 0.4895 0.6461 0.740 0.232 0.020 0.008
#> SRR1027001 1 0.5055 0.4314 0.624 0.008 0.368 0.000
#> SRR1027002 1 0.1452 0.8421 0.956 0.036 0.000 0.008
#> SRR1027003 1 0.5688 0.5818 0.696 0.248 0.012 0.044
#> SRR1027004 1 0.0672 0.8464 0.984 0.008 0.000 0.008
#> SRR1027005 3 0.0921 0.8769 0.000 0.028 0.972 0.000
#> SRR1027006 1 0.3088 0.7746 0.864 0.008 0.128 0.000
#> SRR1027007 1 0.3501 0.7661 0.848 0.132 0.000 0.020
#> SRR1027008 1 0.0524 0.8455 0.988 0.004 0.000 0.008
#> SRR1027009 3 0.0524 0.8721 0.008 0.004 0.988 0.000
#> SRR1027010 1 0.4420 0.6577 0.748 0.012 0.240 0.000
#> SRR1027011 3 0.0524 0.8721 0.008 0.004 0.988 0.000
#> SRR1177668 1 0.2761 0.8178 0.908 0.016 0.064 0.012
#> SRR1177667 1 0.0937 0.8469 0.976 0.012 0.000 0.012
#> SRR1177669 1 0.5353 0.2627 0.556 0.012 0.432 0.000
#> SRR1177670 3 0.3377 0.7534 0.140 0.012 0.848 0.000
#> SRR1177671 2 0.6642 0.8142 0.124 0.668 0.020 0.188
#> SRR1177672 3 0.4453 0.6221 0.244 0.012 0.744 0.000
#> SRR1177673 1 0.1284 0.8407 0.964 0.012 0.024 0.000
#> SRR1177674 3 0.0672 0.8710 0.008 0.008 0.984 0.000
#> SRR1177675 1 0.1151 0.8417 0.968 0.024 0.008 0.000
#> SRR1177676 1 0.4098 0.6986 0.784 0.012 0.204 0.000
#> SRR1177677 1 0.0524 0.8459 0.988 0.004 0.000 0.008
#> SRR1177678 1 0.1139 0.8458 0.972 0.012 0.008 0.008
#> SRR1177679 2 0.6690 0.8140 0.128 0.664 0.020 0.188
#> SRR1177680 1 0.7817 0.1339 0.528 0.256 0.020 0.196
#> SRR1177681 1 0.0524 0.8456 0.988 0.004 0.000 0.008
#> SRR1177682 1 0.1722 0.8338 0.944 0.048 0.000 0.008
#> SRR1177683 2 0.6642 0.8142 0.124 0.668 0.020 0.188
#> SRR1177684 2 0.6690 0.8140 0.128 0.664 0.020 0.188
#> SRR1177685 1 0.0927 0.8437 0.976 0.016 0.008 0.000
#> SRR1177686 3 0.1022 0.8772 0.000 0.032 0.968 0.000
#> SRR1177687 1 0.7817 0.1339 0.528 0.256 0.020 0.196
#> SRR1177688 1 0.0524 0.8456 0.988 0.004 0.000 0.008
#> SRR1177689 1 0.4008 0.7414 0.820 0.148 0.000 0.032
#> SRR1177690 1 0.0592 0.8451 0.984 0.016 0.000 0.000
#> SRR1177691 2 0.6690 0.8140 0.128 0.664 0.020 0.188
#> SRR1177692 1 0.5700 0.6280 0.744 0.080 0.020 0.156
#> SRR1177693 4 0.4564 0.3795 0.000 0.328 0.000 0.672
#> SRR1177694 4 0.1118 0.8075 0.000 0.036 0.000 0.964
#> SRR1177695 1 0.1545 0.8379 0.952 0.040 0.000 0.008
#> SRR1177697 1 0.0592 0.8451 0.984 0.016 0.000 0.000
#> SRR1177696 1 0.2958 0.7917 0.896 0.004 0.028 0.072
#> SRR1177698 3 0.0524 0.8721 0.008 0.004 0.988 0.000
#> SRR1177700 1 0.5050 0.7117 0.784 0.100 0.008 0.108
#> SRR1177701 4 0.5062 0.6566 0.184 0.064 0.000 0.752
#> SRR1177702 1 0.3134 0.7946 0.880 0.012 0.100 0.008
#> SRR1177703 1 0.6537 0.4469 0.636 0.200 0.000 0.164
#> SRR1177704 1 0.7029 0.5045 0.636 0.024 0.200 0.140
#> SRR1177705 1 0.3037 0.8025 0.888 0.076 0.000 0.036
#> SRR1177706 2 0.7709 0.5258 0.332 0.504 0.020 0.144
#> SRR1177707 1 0.6112 0.5169 0.656 0.248 0.000 0.096
#> SRR1177708 1 0.4375 0.7077 0.812 0.036 0.008 0.144
#> SRR1177709 1 0.0712 0.8461 0.984 0.004 0.004 0.008
#> SRR1177710 1 0.5268 0.2086 0.540 0.008 0.452 0.000
#> SRR1177711 1 0.0927 0.8437 0.976 0.016 0.008 0.000
#> SRR1177712 1 0.2585 0.8221 0.916 0.032 0.004 0.048
#> SRR1177714 2 0.6642 0.8142 0.124 0.668 0.020 0.188
#> SRR1177713 1 0.5428 0.3489 0.600 0.020 0.380 0.000
#> SRR1177715 2 0.6813 0.4050 0.372 0.548 0.020 0.060
#> SRR1177716 3 0.0592 0.8752 0.000 0.016 0.984 0.000
#> SRR1177717 1 0.0592 0.8458 0.984 0.016 0.000 0.000
#> SRR1177718 1 0.1486 0.8449 0.960 0.024 0.008 0.008
#> SRR1177719 1 0.5436 0.6234 0.732 0.176 0.000 0.092
#> SRR1177720 3 0.2589 0.8750 0.000 0.116 0.884 0.000
#> SRR1177721 2 0.6634 0.8106 0.112 0.664 0.020 0.204
#> SRR1177722 2 0.6945 0.7628 0.092 0.600 0.020 0.288
#> SRR1177723 1 0.1151 0.8417 0.968 0.024 0.008 0.000
#> SRR1177725 1 0.0469 0.8460 0.988 0.012 0.000 0.000
#> SRR1177724 1 0.0672 0.8463 0.984 0.008 0.000 0.008
#> SRR1177726 3 0.0672 0.8710 0.008 0.008 0.984 0.000
#> SRR1177727 1 0.0524 0.8459 0.988 0.004 0.000 0.008
#> SRR1177728 3 0.0672 0.8710 0.008 0.008 0.984 0.000
#> SRR1177729 1 0.1151 0.8417 0.968 0.024 0.008 0.000
#> SRR1177730 3 0.4868 0.5315 0.304 0.012 0.684 0.000
#> SRR1177731 1 0.1247 0.8437 0.968 0.012 0.016 0.004
#> SRR1177732 1 0.1114 0.8461 0.972 0.004 0.016 0.008
#> SRR1177733 1 0.2002 0.8290 0.936 0.044 0.000 0.020
#> SRR1177734 1 0.0672 0.8453 0.984 0.008 0.000 0.008
#> SRR1177735 1 0.3606 0.7581 0.840 0.140 0.000 0.020
#> SRR1177736 1 0.0712 0.8464 0.984 0.004 0.008 0.004
#> SRR1177737 4 0.1389 0.8018 0.000 0.048 0.000 0.952
#> SRR1177738 3 0.3443 0.8726 0.000 0.136 0.848 0.016
#> SRR1177739 1 0.0672 0.8453 0.984 0.008 0.000 0.008
#> SRR1177740 1 0.1411 0.8408 0.960 0.020 0.000 0.020
#> SRR1177741 1 0.0672 0.8463 0.984 0.008 0.000 0.008
#> SRR1177742 3 0.0672 0.8710 0.008 0.008 0.984 0.000
#> SRR1177743 1 0.1938 0.8248 0.936 0.012 0.052 0.000
#> SRR1177744 1 0.4647 0.5944 0.704 0.008 0.288 0.000
#> SRR1177745 1 0.6156 0.5685 0.708 0.096 0.020 0.176
#> SRR1177746 1 0.7931 0.0465 0.504 0.280 0.020 0.196
#> SRR1177747 3 0.3485 0.7890 0.116 0.028 0.856 0.000
#> SRR1177748 3 0.0524 0.8721 0.008 0.004 0.988 0.000
#> SRR1177749 1 0.1262 0.8464 0.968 0.016 0.008 0.008
#> SRR1177750 1 0.0524 0.8459 0.988 0.004 0.000 0.008
#> SRR1177751 1 0.0817 0.8460 0.976 0.024 0.000 0.000
#> SRR1177752 1 0.0712 0.8465 0.984 0.008 0.004 0.004
#> SRR1177753 1 0.0672 0.8453 0.984 0.008 0.000 0.008
#> SRR1177754 1 0.1488 0.8360 0.956 0.012 0.032 0.000
#> SRR1177755 1 0.1004 0.8431 0.972 0.024 0.004 0.000
#> SRR1177756 1 0.1109 0.8438 0.968 0.028 0.000 0.004
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 4 0.5953 -0.4617 0.000 0.112 0.000 0.504 0.384
#> SRR1026871 4 0.5851 -0.2892 0.000 0.112 0.000 0.548 0.340
#> SRR1026872 4 0.4734 0.3518 0.000 0.108 0.000 0.732 0.160
#> SRR1026873 1 0.1018 0.8471 0.968 0.000 0.016 0.000 0.016
#> SRR1026874 1 0.4884 0.3084 0.584 0.008 0.392 0.000 0.016
#> SRR1026875 2 0.6510 -0.2401 0.000 0.488 0.000 0.256 0.256
#> SRR1026876 2 0.6510 -0.2401 0.000 0.488 0.000 0.256 0.256
#> SRR1026877 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1026878 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1026879 1 0.1686 0.8499 0.944 0.028 0.020 0.000 0.008
#> SRR1026880 1 0.2266 0.8314 0.912 0.008 0.064 0.000 0.016
#> SRR1026881 4 0.4768 0.5263 0.000 0.096 0.000 0.724 0.180
#> SRR1026882 4 0.4994 0.4956 0.000 0.112 0.000 0.704 0.184
#> SRR1026883 4 0.0609 0.6427 0.000 0.000 0.000 0.980 0.020
#> SRR1026884 4 0.0404 0.6416 0.000 0.000 0.000 0.988 0.012
#> SRR1026885 4 0.4279 0.5892 0.004 0.104 0.000 0.784 0.108
#> SRR1026886 4 0.4279 0.5892 0.004 0.104 0.000 0.784 0.108
#> SRR1026887 3 0.4310 0.7470 0.000 0.000 0.604 0.004 0.392
#> SRR1026888 3 0.4310 0.7470 0.000 0.000 0.604 0.004 0.392
#> SRR1026889 4 0.6330 -0.4379 0.000 0.160 0.000 0.456 0.384
#> SRR1026890 4 0.3888 0.6089 0.008 0.000 0.008 0.756 0.228
#> SRR1026891 4 0.4590 0.6166 0.020 0.116 0.000 0.776 0.088
#> SRR1026892 4 0.4644 0.6149 0.020 0.116 0.000 0.772 0.092
#> SRR1026893 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1026894 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1026895 4 0.2179 0.6147 0.000 0.000 0.000 0.888 0.112
#> SRR1026896 4 0.2020 0.6220 0.000 0.000 0.000 0.900 0.100
#> SRR1026897 3 0.4432 0.5121 0.312 0.008 0.672 0.004 0.004
#> SRR1026898 1 0.0880 0.8490 0.968 0.032 0.000 0.000 0.000
#> SRR1026899 1 0.3544 0.7760 0.812 0.008 0.164 0.000 0.016
#> SRR1026900 1 0.6569 0.3095 0.508 0.188 0.000 0.296 0.008
#> SRR1026901 1 0.5610 0.5901 0.640 0.120 0.000 0.236 0.004
#> SRR1026902 4 0.4377 0.5967 0.004 0.108 0.000 0.776 0.112
#> SRR1026903 4 0.4350 0.5961 0.008 0.108 0.000 0.784 0.100
#> SRR1026904 4 0.4225 0.5422 0.076 0.004 0.000 0.784 0.136
#> SRR1026905 4 0.4225 0.5422 0.076 0.004 0.000 0.784 0.136
#> SRR1026906 5 0.6472 0.8022 0.004 0.184 0.000 0.308 0.504
#> SRR1026907 5 0.6472 0.8023 0.004 0.184 0.000 0.308 0.504
#> SRR1026908 5 0.5903 0.8950 0.000 0.120 0.000 0.332 0.548
#> SRR1026909 5 0.5941 0.8960 0.000 0.124 0.000 0.332 0.544
#> SRR1026910 4 0.0854 0.6467 0.004 0.008 0.000 0.976 0.012
#> SRR1026911 4 0.0854 0.6467 0.004 0.008 0.000 0.976 0.012
#> SRR1026912 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1026913 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1026914 4 0.4617 0.3932 0.000 0.108 0.000 0.744 0.148
#> SRR1026915 4 0.4617 0.3932 0.000 0.108 0.000 0.744 0.148
#> SRR1026916 4 0.4617 0.3932 0.000 0.108 0.000 0.744 0.148
#> SRR1026917 4 0.4617 0.3932 0.000 0.108 0.000 0.744 0.148
#> SRR1026918 4 0.4599 0.5582 0.004 0.072 0.000 0.744 0.180
#> SRR1026919 4 0.4564 0.5619 0.004 0.072 0.000 0.748 0.176
#> SRR1026920 4 0.2813 0.5957 0.000 0.024 0.000 0.868 0.108
#> SRR1026921 4 0.2900 0.5917 0.000 0.028 0.000 0.864 0.108
#> SRR1026922 2 0.5192 0.5208 0.068 0.656 0.000 0.272 0.004
#> SRR1026923 2 0.5213 0.5188 0.068 0.652 0.000 0.276 0.004
#> SRR1026924 4 0.1197 0.6414 0.000 0.000 0.000 0.952 0.048
#> SRR1026925 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1026926 4 0.2074 0.6190 0.000 0.000 0.000 0.896 0.104
#> SRR1026927 4 0.4279 0.5870 0.004 0.104 0.000 0.784 0.108
#> SRR1026928 4 0.4521 0.5538 0.000 0.088 0.000 0.748 0.164
#> SRR1026929 3 0.4196 0.7522 0.000 0.000 0.640 0.004 0.356
#> SRR1026930 2 0.4994 0.5758 0.152 0.720 0.000 0.124 0.004
#> SRR1026931 2 0.3523 0.6310 0.044 0.832 0.000 0.120 0.004
#> SRR1026932 2 0.6707 -0.3352 0.000 0.424 0.000 0.308 0.268
#> SRR1026933 2 0.6707 -0.3352 0.000 0.424 0.000 0.308 0.268
#> SRR1026934 5 0.5977 0.8993 0.000 0.128 0.000 0.332 0.540
#> SRR1026935 5 0.5977 0.8993 0.000 0.128 0.000 0.332 0.540
#> SRR1026936 4 0.2329 0.6060 0.000 0.000 0.000 0.876 0.124
#> SRR1026937 4 0.2329 0.6060 0.000 0.000 0.000 0.876 0.124
#> SRR1026938 4 0.5399 0.4169 0.000 0.148 0.000 0.664 0.188
#> SRR1026939 4 0.5322 0.4337 0.000 0.140 0.000 0.672 0.188
#> SRR1026940 1 0.3871 0.7865 0.808 0.056 0.000 0.132 0.004
#> SRR1026941 3 0.0880 0.7775 0.000 0.000 0.968 0.000 0.032
#> SRR1026942 1 0.0671 0.8490 0.980 0.004 0.000 0.000 0.016
#> SRR1026943 1 0.2395 0.8450 0.904 0.072 0.000 0.008 0.016
#> SRR1026944 1 0.0609 0.8501 0.980 0.020 0.000 0.000 0.000
#> SRR1026945 3 0.4727 -0.1018 0.452 0.000 0.532 0.000 0.016
#> SRR1026947 5 0.6386 0.8328 0.000 0.188 0.000 0.320 0.492
#> SRR1026946 5 0.6303 0.8305 0.000 0.196 0.000 0.280 0.524
#> SRR1026948 2 0.2141 0.6568 0.016 0.916 0.000 0.064 0.004
#> SRR1026949 1 0.4779 0.7387 0.740 0.168 0.000 0.084 0.008
#> SRR1026950 1 0.1571 0.8387 0.936 0.060 0.000 0.000 0.004
#> SRR1026951 1 0.5159 0.6918 0.712 0.084 0.000 0.188 0.016
#> SRR1026952 1 0.0290 0.8501 0.992 0.008 0.000 0.000 0.000
#> SRR1026953 3 0.0000 0.7740 0.000 0.000 1.000 0.000 0.000
#> SRR1026954 4 0.0671 0.6413 0.004 0.000 0.000 0.980 0.016
#> SRR1026955 2 0.6707 -0.3352 0.000 0.424 0.000 0.308 0.268
#> SRR1026956 4 0.6441 0.4476 0.156 0.056 0.000 0.628 0.160
#> SRR1026957 4 0.7281 -0.4614 0.020 0.328 0.000 0.356 0.296
#> SRR1026958 1 0.1518 0.8468 0.944 0.048 0.000 0.004 0.004
#> SRR1026959 2 0.1670 0.6576 0.012 0.936 0.000 0.052 0.000
#> SRR1026960 4 0.5966 0.5077 0.100 0.060 0.000 0.676 0.164
#> SRR1026961 4 0.3087 0.5954 0.004 0.008 0.000 0.836 0.152
#> SRR1026962 1 0.0798 0.8488 0.976 0.000 0.008 0.000 0.016
#> SRR1026963 1 0.0912 0.8479 0.972 0.000 0.012 0.000 0.016
#> SRR1026964 4 0.1544 0.6366 0.000 0.000 0.000 0.932 0.068
#> SRR1026965 4 0.1638 0.6396 0.000 0.004 0.000 0.932 0.064
#> SRR1026966 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1026967 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1026968 4 0.3511 0.5686 0.004 0.012 0.000 0.800 0.184
#> SRR1026969 4 0.5066 0.5803 0.044 0.072 0.000 0.748 0.136
#> SRR1026970 4 0.6004 0.5680 0.032 0.104 0.000 0.640 0.224
#> SRR1026971 4 0.6005 0.5700 0.036 0.100 0.000 0.644 0.220
#> SRR1026972 4 0.8515 -0.0202 0.204 0.208 0.000 0.304 0.284
#> SRR1026973 4 0.8515 -0.0202 0.204 0.208 0.000 0.304 0.284
#> SRR1026974 4 0.5240 0.3790 0.232 0.020 0.000 0.688 0.060
#> SRR1026975 4 0.5314 0.4089 0.208 0.032 0.000 0.700 0.060
#> SRR1026976 4 0.0566 0.6427 0.004 0.000 0.000 0.984 0.012
#> SRR1026977 4 0.0566 0.6427 0.004 0.000 0.000 0.984 0.012
#> SRR1026978 1 0.1461 0.8498 0.952 0.028 0.000 0.004 0.016
#> SRR1026979 3 0.0000 0.7740 0.000 0.000 1.000 0.000 0.000
#> SRR1026980 1 0.4993 0.7018 0.724 0.072 0.000 0.188 0.016
#> SRR1026981 3 0.4457 0.6670 0.152 0.000 0.756 0.000 0.092
#> SRR1026982 4 0.3264 0.6079 0.004 0.020 0.000 0.836 0.140
#> SRR1026983 4 0.3169 0.6069 0.004 0.016 0.000 0.840 0.140
#> SRR1026984 4 0.4472 0.5707 0.004 0.076 0.000 0.760 0.160
#> SRR1026985 4 0.4472 0.5707 0.004 0.076 0.000 0.760 0.160
#> SRR1026986 1 0.1405 0.8500 0.956 0.020 0.000 0.008 0.016
#> SRR1026987 1 0.4181 0.7736 0.788 0.132 0.000 0.076 0.004
#> SRR1026988 1 0.2494 0.8445 0.908 0.032 0.044 0.000 0.016
#> SRR1026989 3 0.0451 0.7720 0.008 0.000 0.988 0.000 0.004
#> SRR1026990 4 0.4983 0.5778 0.016 0.116 0.000 0.740 0.128
#> SRR1026991 3 0.3766 0.7623 0.000 0.000 0.728 0.004 0.268
#> SRR1026992 1 0.0451 0.8501 0.988 0.008 0.000 0.000 0.004
#> SRR1026993 1 0.0510 0.8487 0.984 0.000 0.000 0.000 0.016
#> SRR1026994 1 0.4728 0.7404 0.740 0.164 0.000 0.092 0.004
#> SRR1026995 1 0.3546 0.8029 0.832 0.116 0.000 0.048 0.004
#> SRR1026996 4 0.2583 0.5958 0.000 0.004 0.000 0.864 0.132
#> SRR1026997 4 0.2583 0.5958 0.000 0.004 0.000 0.864 0.132
#> SRR1026998 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1026999 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1027000 1 0.4116 0.7213 0.732 0.248 0.000 0.016 0.004
#> SRR1027001 1 0.4777 0.5213 0.620 0.008 0.356 0.000 0.016
#> SRR1027002 1 0.1087 0.8504 0.968 0.008 0.000 0.008 0.016
#> SRR1027003 1 0.5592 0.6030 0.628 0.276 0.000 0.088 0.008
#> SRR1027004 1 0.0898 0.8510 0.972 0.020 0.000 0.008 0.000
#> SRR1027005 3 0.0963 0.7765 0.000 0.000 0.964 0.000 0.036
#> SRR1027006 1 0.4299 0.7775 0.792 0.008 0.148 0.036 0.016
#> SRR1027007 1 0.3961 0.7778 0.792 0.160 0.000 0.044 0.004
#> SRR1027008 1 0.0566 0.8500 0.984 0.012 0.000 0.000 0.004
#> SRR1027009 3 0.0000 0.7740 0.000 0.000 1.000 0.000 0.000
#> SRR1027010 1 0.4450 0.7009 0.728 0.020 0.236 0.000 0.016
#> SRR1027011 3 0.0000 0.7740 0.000 0.000 1.000 0.000 0.000
#> SRR1177668 1 0.4509 0.7920 0.788 0.100 0.092 0.004 0.016
#> SRR1177667 1 0.0671 0.8484 0.980 0.000 0.004 0.000 0.016
#> SRR1177669 1 0.4650 0.3069 0.520 0.000 0.468 0.000 0.012
#> SRR1177670 3 0.2077 0.7117 0.084 0.000 0.908 0.000 0.008
#> SRR1177671 2 0.2149 0.6687 0.036 0.916 0.000 0.048 0.000
#> SRR1177672 3 0.2773 0.6326 0.164 0.000 0.836 0.000 0.000
#> SRR1177673 1 0.1894 0.8328 0.920 0.008 0.072 0.000 0.000
#> SRR1177674 3 0.0000 0.7740 0.000 0.000 1.000 0.000 0.000
#> SRR1177675 1 0.1117 0.8473 0.964 0.000 0.020 0.000 0.016
#> SRR1177676 1 0.4175 0.7430 0.764 0.020 0.200 0.000 0.016
#> SRR1177677 1 0.1043 0.8494 0.960 0.040 0.000 0.000 0.000
#> SRR1177678 1 0.1117 0.8467 0.964 0.000 0.020 0.000 0.016
#> SRR1177679 2 0.3267 0.6688 0.044 0.844 0.000 0.112 0.000
#> SRR1177680 1 0.6280 0.5223 0.596 0.200 0.000 0.188 0.016
#> SRR1177681 1 0.1942 0.8432 0.920 0.068 0.000 0.012 0.000
#> SRR1177682 1 0.2770 0.8202 0.864 0.124 0.000 0.008 0.004
#> SRR1177683 2 0.2370 0.6726 0.040 0.904 0.000 0.056 0.000
#> SRR1177684 2 0.3413 0.6636 0.044 0.832 0.000 0.124 0.000
#> SRR1177685 1 0.1018 0.8478 0.968 0.000 0.016 0.000 0.016
#> SRR1177686 3 0.0963 0.7765 0.000 0.000 0.964 0.000 0.036
#> SRR1177687 1 0.6245 0.5316 0.600 0.208 0.000 0.176 0.016
#> SRR1177688 1 0.1270 0.8477 0.948 0.052 0.000 0.000 0.000
#> SRR1177689 1 0.5267 0.6589 0.672 0.232 0.000 0.092 0.004
#> SRR1177690 1 0.0510 0.8487 0.984 0.000 0.000 0.000 0.016
#> SRR1177691 2 0.3365 0.6659 0.044 0.836 0.000 0.120 0.000
#> SRR1177692 1 0.5211 0.6857 0.708 0.088 0.000 0.188 0.016
#> SRR1177693 5 0.5928 0.8974 0.000 0.124 0.000 0.328 0.548
#> SRR1177694 4 0.3967 0.5154 0.004 0.088 0.000 0.808 0.100
#> SRR1177695 1 0.1798 0.8384 0.928 0.064 0.000 0.004 0.004
#> SRR1177697 1 0.0510 0.8487 0.984 0.000 0.000 0.000 0.016
#> SRR1177696 1 0.3132 0.8209 0.864 0.036 0.008 0.092 0.000
#> SRR1177698 3 0.0000 0.7740 0.000 0.000 1.000 0.000 0.000
#> SRR1177700 1 0.4592 0.7556 0.756 0.100 0.000 0.140 0.004
#> SRR1177701 4 0.6631 0.3942 0.080 0.112 0.000 0.612 0.196
#> SRR1177702 1 0.1996 0.8440 0.932 0.016 0.040 0.004 0.008
#> SRR1177703 1 0.6955 0.3851 0.572 0.172 0.000 0.188 0.068
#> SRR1177704 1 0.6095 0.6513 0.660 0.012 0.116 0.188 0.024
#> SRR1177705 1 0.3849 0.7905 0.808 0.136 0.000 0.052 0.004
#> SRR1177706 2 0.4238 0.5667 0.136 0.776 0.000 0.088 0.000
#> SRR1177707 1 0.7639 0.2253 0.508 0.192 0.000 0.160 0.140
#> SRR1177708 1 0.4354 0.7582 0.768 0.068 0.000 0.160 0.004
#> SRR1177709 1 0.3189 0.8276 0.868 0.056 0.000 0.064 0.012
#> SRR1177710 1 0.4497 0.4129 0.568 0.000 0.424 0.000 0.008
#> SRR1177711 1 0.1117 0.8473 0.964 0.000 0.020 0.000 0.016
#> SRR1177712 1 0.4788 0.7307 0.740 0.120 0.000 0.136 0.004
#> SRR1177714 2 0.1981 0.6659 0.028 0.924 0.000 0.048 0.000
#> SRR1177713 1 0.4354 0.3966 0.624 0.008 0.368 0.000 0.000
#> SRR1177715 2 0.3569 0.6291 0.104 0.828 0.000 0.068 0.000
#> SRR1177716 3 0.0880 0.7762 0.000 0.000 0.968 0.000 0.032
#> SRR1177717 1 0.0510 0.8487 0.984 0.000 0.000 0.000 0.016
#> SRR1177718 1 0.1117 0.8467 0.964 0.000 0.020 0.000 0.016
#> SRR1177719 1 0.5246 0.6491 0.740 0.108 0.000 0.104 0.048
#> SRR1177720 3 0.3109 0.7673 0.000 0.000 0.800 0.000 0.200
#> SRR1177721 2 0.2846 0.6109 0.008 0.864 0.000 0.120 0.008
#> SRR1177722 2 0.4109 0.4604 0.008 0.724 0.000 0.260 0.008
#> SRR1177723 1 0.0671 0.8484 0.980 0.000 0.004 0.000 0.016
#> SRR1177725 1 0.0510 0.8487 0.984 0.000 0.000 0.000 0.016
#> SRR1177724 1 0.0510 0.8487 0.984 0.000 0.000 0.000 0.016
#> SRR1177726 3 0.0000 0.7740 0.000 0.000 1.000 0.000 0.000
#> SRR1177727 1 0.0992 0.8485 0.968 0.000 0.008 0.000 0.024
#> SRR1177728 3 0.0000 0.7740 0.000 0.000 1.000 0.000 0.000
#> SRR1177729 1 0.0798 0.8483 0.976 0.000 0.008 0.000 0.016
#> SRR1177730 3 0.4220 0.4116 0.300 0.008 0.688 0.000 0.004
#> SRR1177731 1 0.1617 0.8495 0.948 0.020 0.020 0.000 0.012
#> SRR1177732 1 0.1996 0.8415 0.932 0.008 0.040 0.004 0.016
#> SRR1177733 1 0.3340 0.8090 0.840 0.124 0.000 0.032 0.004
#> SRR1177734 1 0.1638 0.8454 0.932 0.064 0.000 0.000 0.004
#> SRR1177735 1 0.4548 0.7475 0.752 0.168 0.000 0.076 0.004
#> SRR1177736 1 0.1830 0.8477 0.932 0.040 0.000 0.028 0.000
#> SRR1177737 4 0.5116 0.4752 0.000 0.120 0.000 0.692 0.188
#> SRR1177738 3 0.4299 0.7493 0.000 0.000 0.608 0.004 0.388
#> SRR1177739 1 0.2352 0.8344 0.896 0.092 0.000 0.008 0.004
#> SRR1177740 1 0.1857 0.8445 0.928 0.060 0.000 0.008 0.004
#> SRR1177741 1 0.1018 0.8471 0.968 0.000 0.016 0.000 0.016
#> SRR1177742 3 0.0000 0.7740 0.000 0.000 1.000 0.000 0.000
#> SRR1177743 1 0.3019 0.8039 0.864 0.012 0.108 0.000 0.016
#> SRR1177744 1 0.4338 0.6905 0.712 0.008 0.264 0.000 0.016
#> SRR1177745 1 0.5211 0.6857 0.708 0.088 0.000 0.188 0.016
#> SRR1177746 1 0.6533 0.4352 0.552 0.248 0.000 0.184 0.016
#> SRR1177747 3 0.5467 0.6465 0.156 0.000 0.716 0.056 0.072
#> SRR1177748 3 0.0000 0.7740 0.000 0.000 1.000 0.000 0.000
#> SRR1177749 1 0.0912 0.8479 0.972 0.000 0.012 0.000 0.016
#> SRR1177750 1 0.0510 0.8487 0.984 0.000 0.000 0.000 0.016
#> SRR1177751 1 0.0912 0.8498 0.972 0.012 0.000 0.000 0.016
#> SRR1177752 1 0.0671 0.8484 0.980 0.000 0.004 0.000 0.016
#> SRR1177753 1 0.1410 0.8464 0.940 0.060 0.000 0.000 0.000
#> SRR1177754 1 0.4166 0.8208 0.832 0.052 0.040 0.060 0.016
#> SRR1177755 1 0.0510 0.8487 0.984 0.000 0.000 0.000 0.016
#> SRR1177756 1 0.0510 0.8487 0.984 0.000 0.000 0.000 0.016
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.2941 0.74231 0.000 0.780 0.000 0.220 0.000 0.000
#> SRR1026871 2 0.3023 0.73448 0.000 0.768 0.000 0.232 0.000 0.000
#> SRR1026872 2 0.3684 0.61498 0.000 0.628 0.000 0.372 0.000 0.000
#> SRR1026873 1 0.3247 0.75731 0.860 0.056 0.028 0.000 0.044 0.012
#> SRR1026874 1 0.6534 0.05257 0.452 0.120 0.376 0.000 0.028 0.024
#> SRR1026875 2 0.5200 0.56904 0.000 0.612 0.000 0.124 0.004 0.260
#> SRR1026876 2 0.5200 0.56904 0.000 0.612 0.000 0.124 0.004 0.260
#> SRR1026877 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026878 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026879 1 0.5250 0.65414 0.720 0.124 0.080 0.000 0.052 0.024
#> SRR1026880 1 0.5489 0.62782 0.696 0.124 0.108 0.000 0.052 0.020
#> SRR1026881 4 0.4252 0.57464 0.000 0.312 0.000 0.652 0.036 0.000
#> SRR1026882 4 0.4300 0.56091 0.000 0.324 0.000 0.640 0.036 0.000
#> SRR1026883 4 0.0146 0.66782 0.000 0.000 0.000 0.996 0.004 0.000
#> SRR1026884 4 0.0291 0.66793 0.000 0.004 0.000 0.992 0.004 0.000
#> SRR1026885 4 0.0458 0.66550 0.000 0.000 0.000 0.984 0.016 0.000
#> SRR1026886 4 0.0547 0.66502 0.000 0.000 0.000 0.980 0.020 0.000
#> SRR1026887 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026888 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026889 2 0.3797 0.12148 0.000 0.580 0.000 0.420 0.000 0.000
#> SRR1026890 4 0.4740 0.59723 0.000 0.276 0.028 0.660 0.036 0.000
#> SRR1026891 4 0.5856 0.60288 0.052 0.128 0.000 0.676 0.100 0.044
#> SRR1026892 4 0.5755 0.60651 0.048 0.128 0.000 0.684 0.096 0.044
#> SRR1026893 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026894 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026895 4 0.0777 0.66201 0.000 0.004 0.000 0.972 0.024 0.000
#> SRR1026896 4 0.0777 0.66201 0.000 0.004 0.000 0.972 0.024 0.000
#> SRR1026897 3 0.5909 0.34250 0.244 0.080 0.612 0.000 0.048 0.016
#> SRR1026898 1 0.2340 0.77383 0.896 0.056 0.004 0.000 0.000 0.044
#> SRR1026899 1 0.5937 0.57404 0.652 0.124 0.148 0.000 0.052 0.024
#> SRR1026900 1 0.6338 0.07172 0.456 0.008 0.000 0.236 0.008 0.292
#> SRR1026901 1 0.5496 0.51009 0.636 0.012 0.000 0.164 0.008 0.180
#> SRR1026902 4 0.2224 0.67330 0.000 0.064 0.000 0.904 0.020 0.012
#> SRR1026903 4 0.2224 0.67330 0.000 0.064 0.000 0.904 0.020 0.012
#> SRR1026904 4 0.6533 0.45952 0.068 0.292 0.000 0.528 0.016 0.096
#> SRR1026905 4 0.6533 0.45952 0.068 0.292 0.000 0.528 0.016 0.096
#> SRR1026906 2 0.3312 0.74813 0.000 0.792 0.000 0.180 0.000 0.028
#> SRR1026907 2 0.3345 0.74367 0.000 0.788 0.000 0.184 0.000 0.028
#> SRR1026908 2 0.2988 0.76480 0.000 0.828 0.000 0.144 0.000 0.028
#> SRR1026909 2 0.3134 0.76401 0.000 0.820 0.000 0.144 0.000 0.036
#> SRR1026910 4 0.0405 0.66898 0.000 0.000 0.000 0.988 0.004 0.008
#> SRR1026911 4 0.0405 0.66898 0.000 0.000 0.000 0.988 0.004 0.008
#> SRR1026912 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026913 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026914 2 0.4269 0.55397 0.000 0.568 0.000 0.412 0.020 0.000
#> SRR1026915 2 0.4269 0.55397 0.000 0.568 0.000 0.412 0.020 0.000
#> SRR1026916 2 0.4305 0.49691 0.000 0.544 0.000 0.436 0.020 0.000
#> SRR1026917 2 0.4310 0.48675 0.000 0.540 0.000 0.440 0.020 0.000
#> SRR1026918 4 0.3578 0.56838 0.000 0.340 0.000 0.660 0.000 0.000
#> SRR1026919 4 0.3578 0.56838 0.000 0.340 0.000 0.660 0.000 0.000
#> SRR1026920 4 0.3266 0.53016 0.000 0.272 0.000 0.728 0.000 0.000
#> SRR1026921 4 0.3244 0.53684 0.000 0.268 0.000 0.732 0.000 0.000
#> SRR1026922 6 0.6804 0.53971 0.088 0.184 0.000 0.212 0.004 0.512
#> SRR1026923 6 0.6727 0.49884 0.096 0.124 0.000 0.272 0.004 0.504
#> SRR1026924 4 0.0405 0.66771 0.000 0.008 0.000 0.988 0.000 0.004
#> SRR1026925 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026926 4 0.1176 0.66852 0.000 0.020 0.000 0.956 0.024 0.000
#> SRR1026927 4 0.3138 0.65521 0.012 0.040 0.000 0.868 0.040 0.040
#> SRR1026928 4 0.4109 0.57385 0.000 0.328 0.000 0.652 0.012 0.008
#> SRR1026929 5 0.3727 0.95935 0.000 0.000 0.388 0.000 0.612 0.000
#> SRR1026930 6 0.6087 0.32661 0.336 0.024 0.000 0.132 0.004 0.504
#> SRR1026931 6 0.4275 0.63520 0.040 0.216 0.000 0.012 0.004 0.728
#> SRR1026932 2 0.5180 0.57498 0.000 0.616 0.000 0.124 0.004 0.256
#> SRR1026933 2 0.5180 0.57498 0.000 0.616 0.000 0.124 0.004 0.256
#> SRR1026934 2 0.2442 0.76180 0.000 0.852 0.000 0.144 0.000 0.004
#> SRR1026935 2 0.2442 0.76180 0.000 0.852 0.000 0.144 0.000 0.004
#> SRR1026936 4 0.0603 0.66441 0.000 0.004 0.000 0.980 0.016 0.000
#> SRR1026937 4 0.0692 0.66340 0.000 0.004 0.000 0.976 0.020 0.000
#> SRR1026938 4 0.4565 0.31483 0.000 0.432 0.000 0.532 0.036 0.000
#> SRR1026939 4 0.4537 0.37536 0.000 0.412 0.000 0.552 0.036 0.000
#> SRR1026940 1 0.4426 0.65690 0.756 0.012 0.000 0.120 0.008 0.104
#> SRR1026941 3 0.1657 0.59013 0.000 0.016 0.928 0.000 0.056 0.000
#> SRR1026942 1 0.1478 0.77476 0.944 0.020 0.004 0.000 0.032 0.000
#> SRR1026943 1 0.4519 0.69099 0.764 0.008 0.000 0.096 0.032 0.100
#> SRR1026944 1 0.1405 0.77738 0.948 0.024 0.000 0.000 0.004 0.024
#> SRR1026945 3 0.6159 0.42754 0.260 0.120 0.564 0.000 0.052 0.004
#> SRR1026947 2 0.3680 0.74834 0.000 0.784 0.000 0.144 0.000 0.072
#> SRR1026946 2 0.2416 0.75656 0.000 0.844 0.000 0.156 0.000 0.000
#> SRR1026948 6 0.3934 0.46021 0.008 0.376 0.000 0.000 0.000 0.616
#> SRR1026949 1 0.4911 0.59465 0.700 0.008 0.000 0.128 0.008 0.156
#> SRR1026950 1 0.2384 0.76452 0.904 0.004 0.000 0.016 0.044 0.032
#> SRR1026951 1 0.5217 0.56291 0.672 0.012 0.000 0.148 0.008 0.160
#> SRR1026952 1 0.1562 0.77760 0.940 0.032 0.000 0.000 0.004 0.024
#> SRR1026953 3 0.0972 0.62360 0.000 0.028 0.964 0.000 0.008 0.000
#> SRR1026954 4 0.3912 0.65667 0.004 0.072 0.000 0.812 0.044 0.068
#> SRR1026955 2 0.5180 0.57498 0.000 0.616 0.000 0.124 0.004 0.256
#> SRR1026956 4 0.7733 0.38916 0.136 0.168 0.000 0.480 0.152 0.064
#> SRR1026957 4 0.6614 0.11237 0.036 0.224 0.000 0.468 0.004 0.268
#> SRR1026958 1 0.2357 0.76405 0.908 0.008 0.000 0.016 0.032 0.036
#> SRR1026959 6 0.3380 0.59090 0.004 0.244 0.000 0.000 0.004 0.748
#> SRR1026960 4 0.6107 0.54837 0.020 0.292 0.000 0.564 0.036 0.088
#> SRR1026961 4 0.5325 0.56356 0.000 0.300 0.000 0.604 0.036 0.060
#> SRR1026962 1 0.2689 0.76769 0.888 0.056 0.008 0.000 0.032 0.016
#> SRR1026963 1 0.2789 0.76647 0.884 0.056 0.012 0.000 0.032 0.016
#> SRR1026964 4 0.0405 0.66683 0.000 0.004 0.000 0.988 0.008 0.000
#> SRR1026965 4 0.0405 0.66889 0.000 0.004 0.000 0.988 0.008 0.000
#> SRR1026966 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026967 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026968 4 0.5192 0.53481 0.008 0.332 0.000 0.584 0.004 0.072
#> SRR1026969 4 0.6927 0.55245 0.048 0.184 0.000 0.564 0.124 0.080
#> SRR1026970 4 0.6703 0.50290 0.008 0.176 0.000 0.552 0.160 0.104
#> SRR1026971 4 0.6765 0.49806 0.012 0.176 0.000 0.552 0.156 0.104
#> SRR1026972 4 0.8153 0.22617 0.180 0.072 0.000 0.396 0.228 0.124
#> SRR1026973 4 0.8153 0.22617 0.180 0.072 0.000 0.396 0.228 0.124
#> SRR1026974 4 0.6626 0.40591 0.204 0.136 0.000 0.560 0.088 0.012
#> SRR1026975 4 0.6603 0.40915 0.200 0.136 0.000 0.564 0.088 0.012
#> SRR1026976 4 0.1759 0.64596 0.004 0.004 0.000 0.924 0.004 0.064
#> SRR1026977 4 0.2067 0.65073 0.004 0.016 0.000 0.912 0.004 0.064
#> SRR1026978 1 0.4232 0.71690 0.788 0.004 0.004 0.064 0.032 0.108
#> SRR1026979 3 0.0717 0.62527 0.000 0.016 0.976 0.000 0.008 0.000
#> SRR1026980 1 0.5386 0.56519 0.660 0.024 0.000 0.148 0.004 0.164
#> SRR1026981 3 0.5107 0.51239 0.132 0.072 0.708 0.000 0.088 0.000
#> SRR1026982 4 0.5429 0.57983 0.000 0.272 0.000 0.616 0.044 0.068
#> SRR1026983 4 0.5429 0.57983 0.000 0.272 0.000 0.616 0.044 0.068
#> SRR1026984 4 0.4702 0.58275 0.000 0.300 0.000 0.644 0.036 0.020
#> SRR1026985 4 0.4702 0.58275 0.000 0.300 0.000 0.644 0.036 0.020
#> SRR1026986 1 0.3710 0.73721 0.812 0.004 0.004 0.020 0.032 0.128
#> SRR1026987 1 0.4429 0.66398 0.760 0.008 0.000 0.116 0.016 0.100
#> SRR1026988 1 0.2568 0.77009 0.888 0.060 0.016 0.000 0.000 0.036
#> SRR1026989 3 0.2328 0.58439 0.000 0.052 0.892 0.000 0.056 0.000
#> SRR1026990 4 0.5069 0.61692 0.004 0.176 0.000 0.664 0.152 0.004
#> SRR1026991 5 0.3997 0.76177 0.000 0.000 0.488 0.004 0.508 0.000
#> SRR1026992 1 0.0993 0.77657 0.964 0.012 0.000 0.000 0.024 0.000
#> SRR1026993 1 0.2168 0.77215 0.916 0.028 0.004 0.000 0.036 0.016
#> SRR1026994 1 0.5420 0.54205 0.644 0.020 0.000 0.204 0.004 0.128
#> SRR1026995 1 0.2770 0.76092 0.880 0.024 0.000 0.024 0.004 0.068
#> SRR1026996 4 0.0547 0.66474 0.000 0.000 0.000 0.980 0.020 0.000
#> SRR1026997 4 0.0547 0.66474 0.000 0.000 0.000 0.980 0.020 0.000
#> SRR1026998 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1026999 5 0.3819 0.98394 0.000 0.000 0.372 0.004 0.624 0.000
#> SRR1027000 1 0.3865 0.66833 0.756 0.016 0.000 0.016 0.004 0.208
#> SRR1027001 1 0.6136 0.37281 0.536 0.112 0.312 0.000 0.020 0.020
#> SRR1027002 1 0.3197 0.75273 0.840 0.004 0.004 0.004 0.032 0.116
#> SRR1027003 1 0.5605 0.47063 0.604 0.016 0.000 0.132 0.004 0.244
#> SRR1027004 1 0.1477 0.77547 0.940 0.008 0.004 0.000 0.000 0.048
#> SRR1027005 3 0.1757 0.54564 0.000 0.008 0.916 0.000 0.076 0.000
#> SRR1027006 1 0.4994 0.63979 0.692 0.076 0.200 0.000 0.004 0.028
#> SRR1027007 1 0.3640 0.70834 0.800 0.008 0.000 0.032 0.008 0.152
#> SRR1027008 1 0.1377 0.77037 0.952 0.004 0.000 0.016 0.004 0.024
#> SRR1027009 3 0.0000 0.62729 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1027010 1 0.6446 0.44162 0.576 0.124 0.224 0.000 0.052 0.024
#> SRR1027011 3 0.1333 0.58770 0.000 0.008 0.944 0.000 0.048 0.000
#> SRR1177668 1 0.5861 0.57099 0.656 0.124 0.148 0.000 0.052 0.020
#> SRR1177667 1 0.2875 0.76337 0.876 0.052 0.008 0.000 0.052 0.012
#> SRR1177669 3 0.6278 0.40744 0.268 0.124 0.548 0.000 0.056 0.004
#> SRR1177670 3 0.4618 0.53045 0.080 0.120 0.748 0.000 0.052 0.000
#> SRR1177671 6 0.3043 0.62183 0.008 0.200 0.000 0.000 0.000 0.792
#> SRR1177672 3 0.5587 0.48738 0.164 0.120 0.660 0.000 0.052 0.004
#> SRR1177673 1 0.4883 0.68397 0.744 0.124 0.076 0.000 0.028 0.028
#> SRR1177674 3 0.0000 0.62729 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177675 1 0.3221 0.75935 0.860 0.056 0.016 0.000 0.052 0.016
#> SRR1177676 1 0.6683 0.24964 0.504 0.124 0.300 0.000 0.052 0.020
#> SRR1177677 1 0.0964 0.77701 0.968 0.012 0.004 0.000 0.000 0.016
#> SRR1177678 1 0.3298 0.75577 0.856 0.056 0.024 0.000 0.052 0.012
#> SRR1177679 6 0.3457 0.65318 0.036 0.020 0.000 0.124 0.000 0.820
#> SRR1177680 1 0.6271 0.06869 0.436 0.024 0.000 0.148 0.004 0.388
#> SRR1177681 1 0.1988 0.76793 0.924 0.016 0.000 0.016 0.004 0.040
#> SRR1177682 1 0.2840 0.75332 0.868 0.016 0.000 0.020 0.004 0.092
#> SRR1177683 6 0.3484 0.63506 0.016 0.188 0.000 0.012 0.000 0.784
#> SRR1177684 6 0.3612 0.62992 0.036 0.000 0.000 0.200 0.000 0.764
#> SRR1177685 1 0.2940 0.76433 0.876 0.048 0.012 0.000 0.048 0.016
#> SRR1177686 3 0.1757 0.54564 0.000 0.008 0.916 0.000 0.076 0.000
#> SRR1177687 1 0.6279 0.00214 0.416 0.024 0.000 0.148 0.004 0.408
#> SRR1177688 1 0.2061 0.76984 0.924 0.016 0.004 0.016 0.004 0.036
#> SRR1177689 1 0.5098 0.58142 0.684 0.016 0.000 0.144 0.004 0.152
#> SRR1177690 1 0.1194 0.77382 0.956 0.000 0.004 0.000 0.032 0.008
#> SRR1177691 6 0.3014 0.64532 0.036 0.000 0.000 0.132 0.000 0.832
#> SRR1177692 1 0.6430 0.14037 0.448 0.036 0.000 0.148 0.004 0.364
#> SRR1177693 2 0.2300 0.75983 0.000 0.856 0.000 0.144 0.000 0.000
#> SRR1177694 4 0.4371 0.23095 0.000 0.344 0.000 0.620 0.036 0.000
#> SRR1177695 1 0.2158 0.76611 0.912 0.012 0.000 0.016 0.004 0.056
#> SRR1177697 1 0.1338 0.77350 0.952 0.004 0.004 0.000 0.032 0.008
#> SRR1177696 1 0.3565 0.75354 0.828 0.068 0.008 0.012 0.000 0.084
#> SRR1177698 3 0.1333 0.58770 0.000 0.008 0.944 0.000 0.048 0.000
#> SRR1177700 1 0.5148 0.58308 0.680 0.012 0.000 0.160 0.008 0.140
#> SRR1177701 4 0.7378 0.38861 0.072 0.136 0.000 0.504 0.220 0.068
#> SRR1177702 1 0.5340 0.69051 0.736 0.040 0.100 0.016 0.032 0.076
#> SRR1177703 1 0.7188 0.16813 0.480 0.020 0.000 0.204 0.216 0.080
#> SRR1177704 1 0.7500 0.49291 0.556 0.048 0.132 0.148 0.036 0.080
#> SRR1177705 1 0.3242 0.74815 0.856 0.008 0.000 0.036 0.028 0.072
#> SRR1177706 6 0.4503 0.62850 0.108 0.000 0.000 0.192 0.000 0.700
#> SRR1177707 1 0.7746 0.08333 0.436 0.044 0.000 0.204 0.212 0.104
#> SRR1177708 1 0.4658 0.63324 0.732 0.012 0.000 0.144 0.008 0.104
#> SRR1177709 1 0.1464 0.77355 0.944 0.016 0.004 0.000 0.000 0.036
#> SRR1177710 3 0.6595 -0.02688 0.404 0.124 0.408 0.000 0.060 0.004
#> SRR1177711 1 0.3221 0.75935 0.860 0.056 0.016 0.000 0.052 0.016
#> SRR1177712 1 0.4730 0.61219 0.708 0.024 0.004 0.220 0.008 0.036
#> SRR1177714 6 0.3104 0.61323 0.004 0.204 0.000 0.000 0.004 0.788
#> SRR1177713 1 0.6583 0.24360 0.508 0.120 0.308 0.000 0.040 0.024
#> SRR1177715 6 0.3806 0.64062 0.080 0.012 0.000 0.112 0.000 0.796
#> SRR1177716 3 0.1757 0.54564 0.000 0.008 0.916 0.000 0.076 0.000
#> SRR1177717 1 0.2244 0.77117 0.912 0.036 0.004 0.000 0.032 0.016
#> SRR1177718 1 0.2882 0.76527 0.880 0.056 0.016 0.000 0.032 0.016
#> SRR1177719 1 0.6528 0.28463 0.544 0.012 0.000 0.180 0.216 0.048
#> SRR1177720 3 0.3534 -0.07998 0.000 0.008 0.716 0.000 0.276 0.000
#> SRR1177721 6 0.3956 0.50233 0.004 0.332 0.000 0.004 0.004 0.656
#> SRR1177722 6 0.4789 0.31815 0.004 0.404 0.000 0.036 0.004 0.552
#> SRR1177723 1 0.2501 0.76783 0.896 0.040 0.004 0.000 0.048 0.012
#> SRR1177725 1 0.2384 0.77130 0.904 0.044 0.004 0.000 0.032 0.016
#> SRR1177724 1 0.2501 0.76783 0.896 0.040 0.004 0.000 0.048 0.012
#> SRR1177726 3 0.0000 0.62729 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177727 1 0.2697 0.76647 0.888 0.056 0.012 0.000 0.032 0.012
#> SRR1177728 3 0.0000 0.62729 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177729 1 0.2503 0.76882 0.900 0.044 0.012 0.000 0.032 0.012
#> SRR1177730 3 0.6277 0.42042 0.264 0.120 0.556 0.000 0.052 0.008
#> SRR1177731 1 0.3330 0.75912 0.848 0.076 0.040 0.000 0.004 0.032
#> SRR1177732 1 0.4967 0.67289 0.744 0.112 0.072 0.000 0.048 0.024
#> SRR1177733 1 0.2462 0.76061 0.896 0.008 0.000 0.024 0.008 0.064
#> SRR1177734 1 0.1761 0.76673 0.936 0.008 0.000 0.016 0.008 0.032
#> SRR1177735 1 0.4871 0.62813 0.720 0.008 0.000 0.108 0.020 0.144
#> SRR1177736 1 0.1413 0.77340 0.948 0.008 0.004 0.000 0.004 0.036
#> SRR1177737 4 0.5179 0.56696 0.000 0.304 0.000 0.612 0.036 0.048
#> SRR1177738 5 0.3923 0.97585 0.000 0.000 0.372 0.008 0.620 0.000
#> SRR1177739 1 0.1761 0.76678 0.936 0.008 0.000 0.016 0.008 0.032
#> SRR1177740 1 0.2189 0.76800 0.916 0.008 0.000 0.020 0.016 0.040
#> SRR1177741 1 0.3298 0.75577 0.856 0.056 0.024 0.000 0.052 0.012
#> SRR1177742 3 0.0000 0.62729 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177743 1 0.5793 0.58573 0.664 0.124 0.140 0.000 0.052 0.020
#> SRR1177744 1 0.6364 0.34058 0.520 0.112 0.308 0.000 0.052 0.008
#> SRR1177745 1 0.6370 0.24204 0.484 0.036 0.000 0.148 0.004 0.328
#> SRR1177746 6 0.6073 0.21078 0.344 0.016 0.000 0.148 0.004 0.488
#> SRR1177747 3 0.5830 0.00894 0.156 0.024 0.572 0.000 0.248 0.000
#> SRR1177748 3 0.0820 0.62467 0.000 0.016 0.972 0.000 0.012 0.000
#> SRR1177749 1 0.3129 0.76094 0.864 0.056 0.012 0.000 0.052 0.016
#> SRR1177750 1 0.1921 0.77621 0.928 0.024 0.004 0.000 0.032 0.012
#> SRR1177751 1 0.1921 0.77575 0.928 0.012 0.004 0.000 0.032 0.024
#> SRR1177752 1 0.2501 0.76783 0.896 0.040 0.004 0.000 0.048 0.012
#> SRR1177753 1 0.0862 0.77353 0.972 0.004 0.000 0.000 0.008 0.016
#> SRR1177754 1 0.5250 0.65414 0.720 0.124 0.080 0.000 0.052 0.024
#> SRR1177755 1 0.2315 0.77033 0.908 0.040 0.004 0.000 0.032 0.016
#> SRR1177756 1 0.1837 0.77513 0.932 0.012 0.004 0.000 0.032 0.020
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["MAD", "NMF"]
# you can also extract it by
# res = res_list["MAD:NMF"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'MAD' method.
#> Subgroups are detected by 'NMF' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.877 0.931 0.971 0.4914 0.508 0.508
#> 3 3 0.950 0.922 0.970 0.3005 0.724 0.517
#> 4 4 0.626 0.661 0.822 0.1398 0.831 0.566
#> 5 5 0.638 0.621 0.816 0.0445 0.909 0.690
#> 6 6 0.585 0.492 0.738 0.0367 0.943 0.787
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.97327 0.000 1.000
#> SRR1026871 2 0.0000 0.97327 0.000 1.000
#> SRR1026872 2 0.0000 0.97327 0.000 1.000
#> SRR1026873 1 0.0000 0.96359 1.000 0.000
#> SRR1026874 1 0.0000 0.96359 1.000 0.000
#> SRR1026875 2 0.0000 0.97327 0.000 1.000
#> SRR1026876 2 0.0000 0.97327 0.000 1.000
#> SRR1026877 1 0.0000 0.96359 1.000 0.000
#> SRR1026878 1 0.0000 0.96359 1.000 0.000
#> SRR1026879 1 0.0000 0.96359 1.000 0.000
#> SRR1026880 1 0.0000 0.96359 1.000 0.000
#> SRR1026881 2 0.0000 0.97327 0.000 1.000
#> SRR1026882 2 0.0000 0.97327 0.000 1.000
#> SRR1026883 2 0.0000 0.97327 0.000 1.000
#> SRR1026884 2 0.0000 0.97327 0.000 1.000
#> SRR1026885 2 0.0000 0.97327 0.000 1.000
#> SRR1026886 2 0.0000 0.97327 0.000 1.000
#> SRR1026887 1 0.0000 0.96359 1.000 0.000
#> SRR1026888 1 0.0000 0.96359 1.000 0.000
#> SRR1026889 2 0.0000 0.97327 0.000 1.000
#> SRR1026890 2 0.0000 0.97327 0.000 1.000
#> SRR1026891 1 0.7674 0.72397 0.776 0.224
#> SRR1026892 1 0.8608 0.62215 0.716 0.284
#> SRR1026893 1 0.0000 0.96359 1.000 0.000
#> SRR1026894 1 0.0000 0.96359 1.000 0.000
#> SRR1026895 2 0.0000 0.97327 0.000 1.000
#> SRR1026896 2 0.0000 0.97327 0.000 1.000
#> SRR1026897 2 0.4939 0.86949 0.108 0.892
#> SRR1026898 1 0.0000 0.96359 1.000 0.000
#> SRR1026899 1 0.0000 0.96359 1.000 0.000
#> SRR1026900 2 0.0000 0.97327 0.000 1.000
#> SRR1026901 2 0.0938 0.96419 0.012 0.988
#> SRR1026902 2 0.2948 0.92868 0.052 0.948
#> SRR1026903 2 0.2778 0.93242 0.048 0.952
#> SRR1026904 2 0.0000 0.97327 0.000 1.000
#> SRR1026905 2 0.0000 0.97327 0.000 1.000
#> SRR1026906 2 0.0000 0.97327 0.000 1.000
#> SRR1026907 2 0.0000 0.97327 0.000 1.000
#> SRR1026908 2 0.0000 0.97327 0.000 1.000
#> SRR1026909 2 0.0000 0.97327 0.000 1.000
#> SRR1026910 2 0.0000 0.97327 0.000 1.000
#> SRR1026911 2 0.0000 0.97327 0.000 1.000
#> SRR1026912 2 0.4562 0.88353 0.096 0.904
#> SRR1026913 2 0.5178 0.86057 0.116 0.884
#> SRR1026914 2 0.0000 0.97327 0.000 1.000
#> SRR1026915 2 0.0000 0.97327 0.000 1.000
#> SRR1026916 2 0.0000 0.97327 0.000 1.000
#> SRR1026917 2 0.0000 0.97327 0.000 1.000
#> SRR1026918 2 0.0000 0.97327 0.000 1.000
#> SRR1026919 2 0.0000 0.97327 0.000 1.000
#> SRR1026920 2 0.0000 0.97327 0.000 1.000
#> SRR1026921 2 0.0000 0.97327 0.000 1.000
#> SRR1026922 2 0.0000 0.97327 0.000 1.000
#> SRR1026923 2 0.0000 0.97327 0.000 1.000
#> SRR1026924 2 0.0000 0.97327 0.000 1.000
#> SRR1026925 1 0.0000 0.96359 1.000 0.000
#> SRR1026926 2 0.0000 0.97327 0.000 1.000
#> SRR1026927 1 0.7139 0.76450 0.804 0.196
#> SRR1026928 2 0.0000 0.97327 0.000 1.000
#> SRR1026929 1 0.0000 0.96359 1.000 0.000
#> SRR1026930 2 0.0000 0.97327 0.000 1.000
#> SRR1026931 2 0.0000 0.97327 0.000 1.000
#> SRR1026932 2 0.0000 0.97327 0.000 1.000
#> SRR1026933 2 0.0000 0.97327 0.000 1.000
#> SRR1026934 2 0.0000 0.97327 0.000 1.000
#> SRR1026935 2 0.0000 0.97327 0.000 1.000
#> SRR1026936 2 0.0000 0.97327 0.000 1.000
#> SRR1026937 2 0.0000 0.97327 0.000 1.000
#> SRR1026938 2 0.0000 0.97327 0.000 1.000
#> SRR1026939 2 0.0000 0.97327 0.000 1.000
#> SRR1026940 2 0.9983 0.07352 0.476 0.524
#> SRR1026941 1 0.0000 0.96359 1.000 0.000
#> SRR1026942 1 0.5519 0.84913 0.872 0.128
#> SRR1026943 2 0.0000 0.97327 0.000 1.000
#> SRR1026944 1 0.0000 0.96359 1.000 0.000
#> SRR1026945 1 0.0000 0.96359 1.000 0.000
#> SRR1026947 2 0.0000 0.97327 0.000 1.000
#> SRR1026946 2 0.0000 0.97327 0.000 1.000
#> SRR1026948 2 0.0000 0.97327 0.000 1.000
#> SRR1026949 2 0.0000 0.97327 0.000 1.000
#> SRR1026950 1 0.9580 0.39326 0.620 0.380
#> SRR1026951 2 0.0376 0.97036 0.004 0.996
#> SRR1026952 1 0.0000 0.96359 1.000 0.000
#> SRR1026953 1 0.0000 0.96359 1.000 0.000
#> SRR1026954 2 0.0000 0.97327 0.000 1.000
#> SRR1026955 2 0.0000 0.97327 0.000 1.000
#> SRR1026956 2 0.9815 0.26213 0.420 0.580
#> SRR1026957 2 0.0000 0.97327 0.000 1.000
#> SRR1026958 2 0.8443 0.62765 0.272 0.728
#> SRR1026959 2 0.0000 0.97327 0.000 1.000
#> SRR1026960 2 0.0000 0.97327 0.000 1.000
#> SRR1026961 2 0.0000 0.97327 0.000 1.000
#> SRR1026962 1 0.0000 0.96359 1.000 0.000
#> SRR1026963 1 0.0000 0.96359 1.000 0.000
#> SRR1026964 2 0.0000 0.97327 0.000 1.000
#> SRR1026965 2 0.0000 0.97327 0.000 1.000
#> SRR1026966 1 0.0000 0.96359 1.000 0.000
#> SRR1026967 1 0.0000 0.96359 1.000 0.000
#> SRR1026968 2 0.0000 0.97327 0.000 1.000
#> SRR1026969 2 0.0000 0.97327 0.000 1.000
#> SRR1026970 2 0.0000 0.97327 0.000 1.000
#> SRR1026971 2 0.0000 0.97327 0.000 1.000
#> SRR1026972 2 0.0000 0.97327 0.000 1.000
#> SRR1026973 2 0.0000 0.97327 0.000 1.000
#> SRR1026974 1 0.6343 0.81151 0.840 0.160
#> SRR1026975 1 0.6531 0.80165 0.832 0.168
#> SRR1026976 2 0.0376 0.97040 0.004 0.996
#> SRR1026977 2 0.0376 0.97040 0.004 0.996
#> SRR1026978 2 0.0000 0.97327 0.000 1.000
#> SRR1026979 1 0.0000 0.96359 1.000 0.000
#> SRR1026980 2 0.0000 0.97327 0.000 1.000
#> SRR1026981 1 0.5629 0.84060 0.868 0.132
#> SRR1026982 2 0.0000 0.97327 0.000 1.000
#> SRR1026983 2 0.0000 0.97327 0.000 1.000
#> SRR1026984 2 0.0000 0.97327 0.000 1.000
#> SRR1026985 2 0.0000 0.97327 0.000 1.000
#> SRR1026986 2 0.0000 0.97327 0.000 1.000
#> SRR1026987 2 0.0376 0.97040 0.004 0.996
#> SRR1026988 1 0.0000 0.96359 1.000 0.000
#> SRR1026989 1 0.0000 0.96359 1.000 0.000
#> SRR1026990 2 0.0000 0.97327 0.000 1.000
#> SRR1026991 1 0.0000 0.96359 1.000 0.000
#> SRR1026992 1 0.0000 0.96359 1.000 0.000
#> SRR1026993 1 0.5629 0.84151 0.868 0.132
#> SRR1026994 2 0.0000 0.97327 0.000 1.000
#> SRR1026995 1 0.8499 0.62843 0.724 0.276
#> SRR1026996 2 0.0000 0.97327 0.000 1.000
#> SRR1026997 2 0.0000 0.97327 0.000 1.000
#> SRR1026998 1 0.0000 0.96359 1.000 0.000
#> SRR1026999 1 0.0000 0.96359 1.000 0.000
#> SRR1027000 1 0.6623 0.79221 0.828 0.172
#> SRR1027001 1 0.0000 0.96359 1.000 0.000
#> SRR1027002 2 0.0000 0.97327 0.000 1.000
#> SRR1027003 2 0.0000 0.97327 0.000 1.000
#> SRR1027004 1 0.0000 0.96359 1.000 0.000
#> SRR1027005 1 0.0000 0.96359 1.000 0.000
#> SRR1027006 1 0.0000 0.96359 1.000 0.000
#> SRR1027007 2 0.0000 0.97327 0.000 1.000
#> SRR1027008 1 0.9833 0.27423 0.576 0.424
#> SRR1027009 1 0.0000 0.96359 1.000 0.000
#> SRR1027010 1 0.0000 0.96359 1.000 0.000
#> SRR1027011 1 0.0000 0.96359 1.000 0.000
#> SRR1177668 1 0.0000 0.96359 1.000 0.000
#> SRR1177667 1 0.0000 0.96359 1.000 0.000
#> SRR1177669 1 0.0000 0.96359 1.000 0.000
#> SRR1177670 1 0.0000 0.96359 1.000 0.000
#> SRR1177671 2 0.0000 0.97327 0.000 1.000
#> SRR1177672 1 0.0000 0.96359 1.000 0.000
#> SRR1177673 1 0.0000 0.96359 1.000 0.000
#> SRR1177674 1 0.0000 0.96359 1.000 0.000
#> SRR1177675 1 0.0000 0.96359 1.000 0.000
#> SRR1177676 1 0.0000 0.96359 1.000 0.000
#> SRR1177677 1 0.0376 0.96067 0.996 0.004
#> SRR1177678 1 0.0000 0.96359 1.000 0.000
#> SRR1177679 2 0.0000 0.97327 0.000 1.000
#> SRR1177680 2 0.0000 0.97327 0.000 1.000
#> SRR1177681 1 0.0000 0.96359 1.000 0.000
#> SRR1177682 2 0.0938 0.96425 0.012 0.988
#> SRR1177683 2 0.0000 0.97327 0.000 1.000
#> SRR1177684 2 0.0000 0.97327 0.000 1.000
#> SRR1177685 1 0.0000 0.96359 1.000 0.000
#> SRR1177686 1 0.0000 0.96359 1.000 0.000
#> SRR1177687 2 0.0000 0.97327 0.000 1.000
#> SRR1177688 1 0.0000 0.96359 1.000 0.000
#> SRR1177689 2 0.0000 0.97327 0.000 1.000
#> SRR1177690 2 0.7602 0.71719 0.220 0.780
#> SRR1177691 2 0.0000 0.97327 0.000 1.000
#> SRR1177692 2 0.0000 0.97327 0.000 1.000
#> SRR1177693 2 0.0000 0.97327 0.000 1.000
#> SRR1177694 2 0.0000 0.97327 0.000 1.000
#> SRR1177695 2 0.0376 0.97037 0.004 0.996
#> SRR1177697 2 0.5629 0.84157 0.132 0.868
#> SRR1177696 1 0.0000 0.96359 1.000 0.000
#> SRR1177698 1 0.0000 0.96359 1.000 0.000
#> SRR1177700 1 0.9881 0.22626 0.564 0.436
#> SRR1177701 2 0.2603 0.93617 0.044 0.956
#> SRR1177702 2 0.0000 0.97327 0.000 1.000
#> SRR1177703 2 0.7602 0.71539 0.220 0.780
#> SRR1177704 2 0.0000 0.97327 0.000 1.000
#> SRR1177705 2 0.3431 0.91700 0.064 0.936
#> SRR1177706 2 0.0000 0.97327 0.000 1.000
#> SRR1177707 2 0.6887 0.77095 0.184 0.816
#> SRR1177708 1 0.1843 0.94248 0.972 0.028
#> SRR1177709 1 0.0000 0.96359 1.000 0.000
#> SRR1177710 1 0.0000 0.96359 1.000 0.000
#> SRR1177711 1 0.0000 0.96359 1.000 0.000
#> SRR1177712 2 0.0000 0.97327 0.000 1.000
#> SRR1177714 2 0.0000 0.97327 0.000 1.000
#> SRR1177713 2 0.0000 0.97327 0.000 1.000
#> SRR1177715 2 0.0000 0.97327 0.000 1.000
#> SRR1177716 1 0.0000 0.96359 1.000 0.000
#> SRR1177717 1 0.0000 0.96359 1.000 0.000
#> SRR1177718 1 0.0000 0.96359 1.000 0.000
#> SRR1177719 1 0.5294 0.85756 0.880 0.120
#> SRR1177720 2 1.0000 -0.00479 0.496 0.504
#> SRR1177721 2 0.0000 0.97327 0.000 1.000
#> SRR1177722 2 0.0000 0.97327 0.000 1.000
#> SRR1177723 1 0.0000 0.96359 1.000 0.000
#> SRR1177725 1 0.0000 0.96359 1.000 0.000
#> SRR1177724 1 0.0000 0.96359 1.000 0.000
#> SRR1177726 1 0.0000 0.96359 1.000 0.000
#> SRR1177727 1 0.0000 0.96359 1.000 0.000
#> SRR1177728 1 0.0000 0.96359 1.000 0.000
#> SRR1177729 1 0.5629 0.84482 0.868 0.132
#> SRR1177730 1 0.0000 0.96359 1.000 0.000
#> SRR1177731 1 0.0000 0.96359 1.000 0.000
#> SRR1177732 1 0.0000 0.96359 1.000 0.000
#> SRR1177733 2 0.2043 0.94715 0.032 0.968
#> SRR1177734 1 0.1414 0.94848 0.980 0.020
#> SRR1177735 2 0.0000 0.97327 0.000 1.000
#> SRR1177736 1 0.0000 0.96359 1.000 0.000
#> SRR1177737 2 0.0000 0.97327 0.000 1.000
#> SRR1177738 2 0.7139 0.75359 0.196 0.804
#> SRR1177739 1 0.0000 0.96359 1.000 0.000
#> SRR1177740 2 0.1414 0.95739 0.020 0.980
#> SRR1177741 1 0.0000 0.96359 1.000 0.000
#> SRR1177742 1 0.0000 0.96359 1.000 0.000
#> SRR1177743 1 0.0000 0.96359 1.000 0.000
#> SRR1177744 1 0.0000 0.96359 1.000 0.000
#> SRR1177745 2 0.0000 0.97327 0.000 1.000
#> SRR1177746 2 0.0000 0.97327 0.000 1.000
#> SRR1177747 1 0.0000 0.96359 1.000 0.000
#> SRR1177748 1 0.0000 0.96359 1.000 0.000
#> SRR1177749 1 0.0000 0.96359 1.000 0.000
#> SRR1177750 1 0.0376 0.96069 0.996 0.004
#> SRR1177751 2 0.0000 0.97327 0.000 1.000
#> SRR1177752 1 0.0000 0.96359 1.000 0.000
#> SRR1177753 1 0.0000 0.96359 1.000 0.000
#> SRR1177754 1 0.0000 0.96359 1.000 0.000
#> SRR1177755 2 0.4562 0.88411 0.096 0.904
#> SRR1177756 2 0.0000 0.97327 0.000 1.000
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026874 3 0.6305 0.11650 0.484 0.000 0.516
#> SRR1026875 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026879 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026880 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026881 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026883 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026884 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026885 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026886 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026887 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026889 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026890 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026891 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026892 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026893 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026895 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026896 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026897 3 0.3752 0.80657 0.000 0.144 0.856
#> SRR1026898 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026899 1 0.0424 0.96501 0.992 0.000 0.008
#> SRR1026900 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026901 2 0.0237 0.96550 0.000 0.996 0.004
#> SRR1026902 2 0.2448 0.89477 0.076 0.924 0.000
#> SRR1026903 2 0.2537 0.89049 0.080 0.920 0.000
#> SRR1026904 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026905 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026906 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026910 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026911 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026912 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026914 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026918 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026919 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026920 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026924 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026925 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026926 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026927 1 0.0424 0.96455 0.992 0.008 0.000
#> SRR1026928 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026929 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026930 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026931 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026936 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026937 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026938 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026940 2 0.5733 0.52315 0.324 0.676 0.000
#> SRR1026941 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026942 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026945 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026947 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026949 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026950 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026951 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026952 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026954 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026955 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026957 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026958 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026960 2 0.6291 0.12233 0.468 0.532 0.000
#> SRR1026961 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026962 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026964 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026965 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026966 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026968 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026969 2 0.4842 0.70733 0.224 0.776 0.000
#> SRR1026970 1 0.0237 0.96819 0.996 0.004 0.000
#> SRR1026971 1 0.0237 0.96819 0.996 0.004 0.000
#> SRR1026972 1 0.6305 0.03269 0.516 0.484 0.000
#> SRR1026973 2 0.6045 0.39829 0.380 0.620 0.000
#> SRR1026974 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026976 2 0.2165 0.90712 0.064 0.936 0.000
#> SRR1026977 2 0.2165 0.90705 0.064 0.936 0.000
#> SRR1026978 1 0.0592 0.96060 0.988 0.012 0.000
#> SRR1026979 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026980 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026981 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026982 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026983 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026984 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026985 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026986 1 0.3482 0.81954 0.872 0.128 0.000
#> SRR1026987 1 0.0592 0.96050 0.988 0.012 0.000
#> SRR1026988 1 0.1860 0.92259 0.948 0.000 0.052
#> SRR1026989 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026990 1 0.4974 0.66817 0.764 0.236 0.000
#> SRR1026991 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026994 2 0.1411 0.93578 0.036 0.964 0.000
#> SRR1026995 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1026996 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026997 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1026998 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1027000 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1027001 3 0.5905 0.48692 0.352 0.000 0.648
#> SRR1027002 1 0.6286 0.10420 0.536 0.464 0.000
#> SRR1027003 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1027004 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1027006 3 0.6260 0.23485 0.448 0.000 0.552
#> SRR1027007 1 0.0424 0.96439 0.992 0.008 0.000
#> SRR1027008 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1027010 3 0.1031 0.93092 0.024 0.000 0.976
#> SRR1027011 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177668 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177667 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177669 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177670 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177671 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177672 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177673 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177674 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177676 1 0.4654 0.71296 0.792 0.000 0.208
#> SRR1177677 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177679 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177680 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177681 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177682 1 0.0592 0.96060 0.988 0.012 0.000
#> SRR1177683 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177687 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177688 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177689 2 0.6008 0.42017 0.372 0.628 0.000
#> SRR1177690 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177692 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177693 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177695 1 0.0237 0.96819 0.996 0.004 0.000
#> SRR1177697 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177696 3 0.0424 0.94298 0.008 0.000 0.992
#> SRR1177698 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177700 2 0.9149 0.00806 0.416 0.440 0.144
#> SRR1177701 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177702 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177703 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177704 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177705 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177706 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177707 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177708 3 0.7425 0.48687 0.328 0.052 0.620
#> SRR1177709 1 0.1031 0.95057 0.976 0.000 0.024
#> SRR1177710 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177711 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177712 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177714 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177713 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177715 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177716 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177720 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177727 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177728 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177730 3 0.4974 0.69351 0.236 0.000 0.764
#> SRR1177731 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177732 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177733 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177735 2 0.4654 0.73815 0.208 0.792 0.000
#> SRR1177736 1 0.3482 0.83171 0.872 0.000 0.128
#> SRR1177737 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177738 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177739 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177741 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177742 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177743 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177744 3 0.5254 0.65173 0.264 0.000 0.736
#> SRR1177745 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177746 2 0.0000 0.96904 0.000 1.000 0.000
#> SRR1177747 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177748 3 0.0000 0.94904 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177754 1 0.1643 0.93072 0.956 0.000 0.044
#> SRR1177755 1 0.0000 0.97155 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.97155 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.4454 0.3662 0.000 0.692 0.000 0.308
#> SRR1026871 2 0.4500 0.3471 0.000 0.684 0.000 0.316
#> SRR1026872 2 0.4661 0.2615 0.000 0.652 0.000 0.348
#> SRR1026873 1 0.1940 0.8317 0.924 0.000 0.000 0.076
#> SRR1026874 1 0.4804 0.2766 0.616 0.000 0.384 0.000
#> SRR1026875 2 0.2216 0.7140 0.000 0.908 0.000 0.092
#> SRR1026876 2 0.2281 0.7104 0.000 0.904 0.000 0.096
#> SRR1026877 3 0.1022 0.9259 0.000 0.000 0.968 0.032
#> SRR1026878 3 0.1022 0.9259 0.000 0.000 0.968 0.032
#> SRR1026879 1 0.0188 0.8254 0.996 0.000 0.004 0.000
#> SRR1026880 1 0.0000 0.8259 1.000 0.000 0.000 0.000
#> SRR1026881 4 0.4992 0.3596 0.000 0.476 0.000 0.524
#> SRR1026882 4 0.5000 0.2971 0.000 0.496 0.000 0.504
#> SRR1026883 4 0.4925 0.4683 0.000 0.428 0.000 0.572
#> SRR1026884 4 0.4933 0.4602 0.000 0.432 0.000 0.568
#> SRR1026885 4 0.3219 0.7034 0.000 0.164 0.000 0.836
#> SRR1026886 4 0.3219 0.7034 0.000 0.164 0.000 0.836
#> SRR1026887 3 0.2408 0.8696 0.000 0.000 0.896 0.104
#> SRR1026888 3 0.2281 0.8775 0.000 0.000 0.904 0.096
#> SRR1026889 2 0.4972 -0.1189 0.000 0.544 0.000 0.456
#> SRR1026890 4 0.5366 0.3851 0.000 0.440 0.012 0.548
#> SRR1026891 4 0.3647 0.6332 0.108 0.040 0.000 0.852
#> SRR1026892 4 0.3734 0.6364 0.108 0.044 0.000 0.848
#> SRR1026893 3 0.0707 0.9294 0.000 0.000 0.980 0.020
#> SRR1026894 3 0.0707 0.9294 0.000 0.000 0.980 0.020
#> SRR1026895 4 0.5097 0.4649 0.000 0.428 0.004 0.568
#> SRR1026896 4 0.5088 0.4726 0.000 0.424 0.004 0.572
#> SRR1026897 2 0.4830 0.1749 0.000 0.608 0.392 0.000
#> SRR1026898 1 0.0336 0.8245 0.992 0.008 0.000 0.000
#> SRR1026899 1 0.1398 0.8165 0.956 0.000 0.040 0.004
#> SRR1026900 2 0.0188 0.7561 0.000 0.996 0.000 0.004
#> SRR1026901 2 0.0336 0.7535 0.000 0.992 0.008 0.000
#> SRR1026902 4 0.2760 0.6929 0.000 0.128 0.000 0.872
#> SRR1026903 4 0.2704 0.6913 0.000 0.124 0.000 0.876
#> SRR1026904 4 0.5126 0.4420 0.000 0.444 0.004 0.552
#> SRR1026905 4 0.5126 0.4420 0.000 0.444 0.004 0.552
#> SRR1026906 2 0.3649 0.5703 0.000 0.796 0.000 0.204
#> SRR1026907 2 0.3486 0.5946 0.000 0.812 0.000 0.188
#> SRR1026908 2 0.1118 0.7471 0.000 0.964 0.000 0.036
#> SRR1026909 2 0.1118 0.7471 0.000 0.964 0.000 0.036
#> SRR1026910 4 0.4331 0.6611 0.000 0.288 0.000 0.712
#> SRR1026911 4 0.4193 0.6788 0.000 0.268 0.000 0.732
#> SRR1026912 3 0.2589 0.8500 0.000 0.000 0.884 0.116
#> SRR1026913 3 0.2281 0.8697 0.000 0.000 0.904 0.096
#> SRR1026914 2 0.4843 0.0970 0.000 0.604 0.000 0.396
#> SRR1026915 2 0.4843 0.0970 0.000 0.604 0.000 0.396
#> SRR1026916 2 0.4746 0.1962 0.000 0.632 0.000 0.368
#> SRR1026917 2 0.4746 0.1962 0.000 0.632 0.000 0.368
#> SRR1026918 4 0.4955 0.4315 0.000 0.444 0.000 0.556
#> SRR1026919 4 0.4955 0.4315 0.000 0.444 0.000 0.556
#> SRR1026920 2 0.4985 -0.1900 0.000 0.532 0.000 0.468
#> SRR1026921 2 0.4985 -0.1900 0.000 0.532 0.000 0.468
#> SRR1026922 2 0.0188 0.7561 0.000 0.996 0.000 0.004
#> SRR1026923 2 0.0336 0.7550 0.000 0.992 0.000 0.008
#> SRR1026924 4 0.4933 0.4602 0.000 0.432 0.000 0.568
#> SRR1026925 3 0.0707 0.9294 0.000 0.000 0.980 0.020
#> SRR1026926 4 0.5112 0.4471 0.000 0.436 0.004 0.560
#> SRR1026927 4 0.0921 0.6151 0.028 0.000 0.000 0.972
#> SRR1026928 4 0.4888 0.5071 0.000 0.412 0.000 0.588
#> SRR1026929 3 0.0188 0.9351 0.000 0.000 0.996 0.004
#> SRR1026930 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1026931 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1026932 2 0.0592 0.7540 0.000 0.984 0.000 0.016
#> SRR1026933 2 0.0592 0.7540 0.000 0.984 0.000 0.016
#> SRR1026934 2 0.2081 0.7148 0.000 0.916 0.000 0.084
#> SRR1026935 2 0.2081 0.7148 0.000 0.916 0.000 0.084
#> SRR1026936 4 0.4283 0.6855 0.000 0.256 0.004 0.740
#> SRR1026937 4 0.4372 0.6769 0.000 0.268 0.004 0.728
#> SRR1026938 2 0.5000 -0.2964 0.000 0.500 0.000 0.500
#> SRR1026939 4 0.5000 0.2722 0.000 0.500 0.000 0.500
#> SRR1026940 2 0.8839 0.0187 0.348 0.424 0.104 0.124
#> SRR1026941 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.4193 0.7444 0.732 0.000 0.000 0.268
#> SRR1026943 1 0.4382 0.7243 0.704 0.000 0.000 0.296
#> SRR1026944 1 0.4543 0.6955 0.676 0.000 0.000 0.324
#> SRR1026945 3 0.0592 0.9323 0.016 0.000 0.984 0.000
#> SRR1026947 2 0.2216 0.7087 0.000 0.908 0.000 0.092
#> SRR1026946 2 0.4543 0.3245 0.000 0.676 0.000 0.324
#> SRR1026948 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1026949 2 0.3354 0.6901 0.044 0.872 0.000 0.084
#> SRR1026950 1 0.4564 0.6884 0.672 0.000 0.000 0.328
#> SRR1026951 2 0.0524 0.7548 0.000 0.988 0.004 0.008
#> SRR1026952 1 0.4500 0.7054 0.684 0.000 0.000 0.316
#> SRR1026953 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.3649 0.7043 0.000 0.204 0.000 0.796
#> SRR1026955 2 0.0921 0.7512 0.000 0.972 0.000 0.028
#> SRR1026956 4 0.3975 0.4278 0.240 0.000 0.000 0.760
#> SRR1026957 2 0.4933 -0.0281 0.000 0.568 0.000 0.432
#> SRR1026958 1 0.4431 0.7189 0.696 0.000 0.000 0.304
#> SRR1026959 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.4267 0.6971 0.024 0.188 0.000 0.788
#> SRR1026961 4 0.4761 0.5682 0.000 0.372 0.000 0.628
#> SRR1026962 1 0.4454 0.7144 0.692 0.000 0.000 0.308
#> SRR1026963 1 0.4277 0.7424 0.720 0.000 0.000 0.280
#> SRR1026964 4 0.4040 0.6904 0.000 0.248 0.000 0.752
#> SRR1026965 4 0.4134 0.6838 0.000 0.260 0.000 0.740
#> SRR1026966 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.4454 0.6478 0.000 0.308 0.000 0.692
#> SRR1026969 4 0.3610 0.7024 0.000 0.200 0.000 0.800
#> SRR1026970 4 0.0817 0.6151 0.024 0.000 0.000 0.976
#> SRR1026971 4 0.0921 0.6135 0.028 0.000 0.000 0.972
#> SRR1026972 4 0.1629 0.6259 0.024 0.024 0.000 0.952
#> SRR1026973 4 0.1629 0.6259 0.024 0.024 0.000 0.952
#> SRR1026974 4 0.3975 0.4511 0.240 0.000 0.000 0.760
#> SRR1026975 4 0.3975 0.4511 0.240 0.000 0.000 0.760
#> SRR1026976 4 0.3528 0.7044 0.000 0.192 0.000 0.808
#> SRR1026977 4 0.3486 0.7049 0.000 0.188 0.000 0.812
#> SRR1026978 1 0.5733 0.5545 0.640 0.312 0.000 0.048
#> SRR1026979 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1026980 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1026981 3 0.0524 0.9335 0.004 0.008 0.988 0.000
#> SRR1026982 4 0.3610 0.7045 0.000 0.200 0.000 0.800
#> SRR1026983 4 0.3649 0.7042 0.000 0.204 0.000 0.796
#> SRR1026984 4 0.4134 0.6867 0.000 0.260 0.000 0.740
#> SRR1026985 4 0.4134 0.6867 0.000 0.260 0.000 0.740
#> SRR1026986 1 0.6003 0.2059 0.504 0.456 0.000 0.040
#> SRR1026987 1 0.4614 0.7338 0.792 0.144 0.000 0.064
#> SRR1026988 1 0.3821 0.8184 0.840 0.000 0.040 0.120
#> SRR1026989 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1026990 4 0.3948 0.6912 0.036 0.136 0.000 0.828
#> SRR1026991 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1026992 1 0.3486 0.7986 0.812 0.000 0.000 0.188
#> SRR1026993 1 0.1211 0.8331 0.960 0.000 0.000 0.040
#> SRR1026994 2 0.3907 0.6333 0.044 0.836 0.000 0.120
#> SRR1026995 1 0.6388 0.5776 0.652 0.192 0.000 0.156
#> SRR1026996 4 0.3569 0.7050 0.000 0.196 0.000 0.804
#> SRR1026997 4 0.3569 0.7050 0.000 0.196 0.000 0.804
#> SRR1026998 3 0.0336 0.9341 0.000 0.000 0.992 0.008
#> SRR1026999 3 0.0336 0.9341 0.000 0.000 0.992 0.008
#> SRR1027000 1 0.4713 0.4514 0.640 0.360 0.000 0.000
#> SRR1027001 3 0.4630 0.6224 0.252 0.000 0.732 0.016
#> SRR1027002 2 0.3356 0.5835 0.176 0.824 0.000 0.000
#> SRR1027003 2 0.1637 0.7124 0.060 0.940 0.000 0.000
#> SRR1027004 1 0.1211 0.8301 0.960 0.000 0.000 0.040
#> SRR1027005 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1027006 3 0.5693 0.5726 0.240 0.000 0.688 0.072
#> SRR1027007 1 0.4543 0.6929 0.676 0.000 0.000 0.324
#> SRR1027008 1 0.0336 0.8245 0.992 0.008 0.000 0.000
#> SRR1027009 3 0.0188 0.9353 0.004 0.000 0.996 0.000
#> SRR1027010 3 0.4454 0.5933 0.308 0.000 0.692 0.000
#> SRR1027011 3 0.1022 0.9247 0.032 0.000 0.968 0.000
#> SRR1177668 1 0.3400 0.7490 0.820 0.000 0.000 0.180
#> SRR1177667 1 0.1474 0.8329 0.948 0.000 0.000 0.052
#> SRR1177669 3 0.0592 0.9323 0.016 0.000 0.984 0.000
#> SRR1177670 3 0.0592 0.9323 0.016 0.000 0.984 0.000
#> SRR1177671 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.2281 0.8774 0.096 0.000 0.904 0.000
#> SRR1177673 1 0.1229 0.8211 0.968 0.008 0.020 0.004
#> SRR1177674 3 0.0817 0.9289 0.024 0.000 0.976 0.000
#> SRR1177675 1 0.2081 0.8312 0.916 0.000 0.000 0.084
#> SRR1177676 1 0.3726 0.6395 0.788 0.000 0.212 0.000
#> SRR1177677 1 0.0336 0.8245 0.992 0.008 0.000 0.000
#> SRR1177678 1 0.0000 0.8259 1.000 0.000 0.000 0.000
#> SRR1177679 2 0.0188 0.7545 0.004 0.996 0.000 0.000
#> SRR1177680 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1177681 1 0.3123 0.7401 0.844 0.156 0.000 0.000
#> SRR1177682 1 0.4948 0.2763 0.560 0.440 0.000 0.000
#> SRR1177683 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.0817 0.8294 0.976 0.000 0.000 0.024
#> SRR1177686 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1177687 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1177688 1 0.3074 0.7434 0.848 0.152 0.000 0.000
#> SRR1177689 2 0.4790 0.2788 0.380 0.620 0.000 0.000
#> SRR1177690 1 0.0524 0.8263 0.988 0.008 0.000 0.004
#> SRR1177691 2 0.0469 0.7501 0.012 0.988 0.000 0.000
#> SRR1177692 2 0.0188 0.7545 0.004 0.996 0.000 0.000
#> SRR1177693 2 0.3219 0.6287 0.000 0.836 0.000 0.164
#> SRR1177694 2 0.4977 -0.1601 0.000 0.540 0.000 0.460
#> SRR1177695 1 0.4790 0.4121 0.620 0.380 0.000 0.000
#> SRR1177697 1 0.3907 0.7777 0.768 0.000 0.000 0.232
#> SRR1177696 2 0.7798 -0.0260 0.320 0.416 0.264 0.000
#> SRR1177698 3 0.3726 0.7565 0.212 0.000 0.788 0.000
#> SRR1177700 4 0.7599 0.5757 0.136 0.124 0.104 0.636
#> SRR1177701 4 0.3907 0.4692 0.232 0.000 0.000 0.768
#> SRR1177702 2 0.1118 0.7475 0.000 0.964 0.000 0.036
#> SRR1177703 4 0.4661 0.1642 0.348 0.000 0.000 0.652
#> SRR1177704 2 0.0817 0.7518 0.000 0.976 0.000 0.024
#> SRR1177705 1 0.4222 0.7407 0.728 0.000 0.000 0.272
#> SRR1177706 2 0.1798 0.7236 0.040 0.944 0.000 0.016
#> SRR1177707 4 0.4955 -0.1873 0.444 0.000 0.000 0.556
#> SRR1177708 4 0.6607 0.1793 0.016 0.048 0.412 0.524
#> SRR1177709 1 0.2888 0.7348 0.872 0.004 0.124 0.000
#> SRR1177710 3 0.0336 0.9346 0.008 0.000 0.992 0.000
#> SRR1177711 1 0.2149 0.8308 0.912 0.000 0.000 0.088
#> SRR1177712 2 0.4776 0.3006 0.000 0.624 0.000 0.376
#> SRR1177714 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1177713 2 0.1584 0.7488 0.012 0.952 0.000 0.036
#> SRR1177715 2 0.3528 0.5711 0.192 0.808 0.000 0.000
#> SRR1177716 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.3400 0.8055 0.820 0.000 0.000 0.180
#> SRR1177718 1 0.1022 0.8322 0.968 0.000 0.000 0.032
#> SRR1177719 1 0.4941 0.5014 0.564 0.000 0.000 0.436
#> SRR1177720 3 0.1305 0.9183 0.004 0.036 0.960 0.000
#> SRR1177721 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0188 0.7561 0.000 0.996 0.000 0.004
#> SRR1177723 1 0.1716 0.8321 0.936 0.000 0.000 0.064
#> SRR1177725 1 0.4304 0.7389 0.716 0.000 0.000 0.284
#> SRR1177724 1 0.0469 0.8299 0.988 0.000 0.000 0.012
#> SRR1177726 3 0.0188 0.9353 0.004 0.000 0.996 0.000
#> SRR1177727 1 0.3764 0.7845 0.784 0.000 0.000 0.216
#> SRR1177728 3 0.0188 0.9353 0.004 0.000 0.996 0.000
#> SRR1177729 1 0.3942 0.7688 0.764 0.000 0.000 0.236
#> SRR1177730 3 0.4866 0.4021 0.404 0.000 0.596 0.000
#> SRR1177731 1 0.0000 0.8259 1.000 0.000 0.000 0.000
#> SRR1177732 1 0.0707 0.8299 0.980 0.000 0.000 0.020
#> SRR1177733 1 0.3569 0.7951 0.804 0.000 0.000 0.196
#> SRR1177734 1 0.3649 0.7916 0.796 0.000 0.000 0.204
#> SRR1177735 2 0.6005 -0.0376 0.460 0.500 0.000 0.040
#> SRR1177736 1 0.4746 0.7401 0.776 0.000 0.168 0.056
#> SRR1177737 4 0.4955 0.4397 0.000 0.444 0.000 0.556
#> SRR1177738 3 0.2868 0.8207 0.000 0.000 0.864 0.136
#> SRR1177739 1 0.3486 0.7987 0.812 0.000 0.000 0.188
#> SRR1177740 1 0.3024 0.8140 0.852 0.000 0.000 0.148
#> SRR1177741 1 0.1389 0.8332 0.952 0.000 0.000 0.048
#> SRR1177742 3 0.0188 0.9353 0.004 0.000 0.996 0.000
#> SRR1177743 1 0.0592 0.8218 0.984 0.000 0.016 0.000
#> SRR1177744 3 0.3444 0.7634 0.184 0.000 0.816 0.000
#> SRR1177745 2 0.0000 0.7563 0.000 1.000 0.000 0.000
#> SRR1177746 2 0.0336 0.7524 0.008 0.992 0.000 0.000
#> SRR1177747 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1177748 3 0.0000 0.9357 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.3172 0.8133 0.840 0.000 0.000 0.160
#> SRR1177750 1 0.0188 0.8253 0.996 0.004 0.000 0.000
#> SRR1177751 1 0.1305 0.8179 0.960 0.036 0.000 0.004
#> SRR1177752 1 0.0188 0.8274 0.996 0.000 0.000 0.004
#> SRR1177753 1 0.0188 0.8274 0.996 0.000 0.000 0.004
#> SRR1177754 1 0.4106 0.7379 0.832 0.000 0.084 0.084
#> SRR1177755 1 0.4304 0.7384 0.716 0.000 0.000 0.284
#> SRR1177756 1 0.2334 0.8295 0.908 0.004 0.000 0.088
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.3421 0.73224 0.000 0.788 0.000 0.204 0.008
#> SRR1026871 2 0.3519 0.72045 0.000 0.776 0.000 0.216 0.008
#> SRR1026872 2 0.3196 0.74493 0.000 0.804 0.000 0.192 0.004
#> SRR1026873 1 0.2068 0.74135 0.904 0.000 0.000 0.092 0.004
#> SRR1026874 1 0.2864 0.66767 0.852 0.000 0.136 0.000 0.012
#> SRR1026875 2 0.2012 0.80933 0.000 0.920 0.000 0.060 0.020
#> SRR1026876 2 0.2012 0.80933 0.000 0.920 0.000 0.060 0.020
#> SRR1026877 3 0.3353 0.76330 0.000 0.000 0.796 0.008 0.196
#> SRR1026878 3 0.3209 0.78082 0.000 0.000 0.812 0.008 0.180
#> SRR1026879 1 0.0898 0.74715 0.972 0.000 0.008 0.000 0.020
#> SRR1026880 1 0.0579 0.74724 0.984 0.000 0.008 0.000 0.008
#> SRR1026881 2 0.4717 0.44630 0.000 0.584 0.000 0.396 0.020
#> SRR1026882 2 0.4555 0.54440 0.000 0.636 0.000 0.344 0.020
#> SRR1026883 4 0.6342 0.11218 0.000 0.208 0.000 0.520 0.272
#> SRR1026884 4 0.6349 0.11468 0.000 0.212 0.000 0.520 0.268
#> SRR1026885 4 0.2629 0.61131 0.004 0.012 0.000 0.880 0.104
#> SRR1026886 4 0.2681 0.60871 0.004 0.012 0.000 0.876 0.108
#> SRR1026887 3 0.4100 0.71256 0.000 0.000 0.764 0.044 0.192
#> SRR1026888 3 0.4100 0.71285 0.000 0.000 0.764 0.044 0.192
#> SRR1026889 2 0.5102 0.63983 0.000 0.696 0.000 0.176 0.128
#> SRR1026890 5 0.6366 0.43144 0.000 0.224 0.012 0.192 0.572
#> SRR1026891 4 0.1205 0.63655 0.040 0.000 0.000 0.956 0.004
#> SRR1026892 4 0.1041 0.63882 0.032 0.000 0.000 0.964 0.004
#> SRR1026893 3 0.1282 0.87843 0.000 0.000 0.952 0.004 0.044
#> SRR1026894 3 0.1484 0.87551 0.000 0.000 0.944 0.008 0.048
#> SRR1026895 4 0.6742 -0.00659 0.000 0.264 0.004 0.460 0.272
#> SRR1026896 4 0.6742 -0.00172 0.000 0.272 0.004 0.460 0.264
#> SRR1026897 2 0.4625 0.27079 0.004 0.652 0.324 0.000 0.020
#> SRR1026898 1 0.1630 0.73347 0.944 0.036 0.004 0.000 0.016
#> SRR1026899 1 0.1569 0.74559 0.948 0.000 0.032 0.008 0.012
#> SRR1026900 2 0.1251 0.80877 0.000 0.956 0.000 0.036 0.008
#> SRR1026901 2 0.2800 0.79264 0.000 0.892 0.052 0.040 0.016
#> SRR1026902 4 0.4235 0.32404 0.008 0.000 0.000 0.656 0.336
#> SRR1026903 4 0.4201 0.33977 0.008 0.000 0.000 0.664 0.328
#> SRR1026904 4 0.4904 0.30451 0.000 0.316 0.004 0.644 0.036
#> SRR1026905 4 0.5140 0.31036 0.000 0.304 0.012 0.644 0.040
#> SRR1026906 2 0.2848 0.77593 0.000 0.840 0.000 0.156 0.004
#> SRR1026907 2 0.2971 0.77307 0.000 0.836 0.000 0.156 0.008
#> SRR1026908 2 0.1952 0.80697 0.000 0.912 0.000 0.084 0.004
#> SRR1026909 2 0.1732 0.80858 0.000 0.920 0.000 0.080 0.000
#> SRR1026910 4 0.2514 0.61621 0.000 0.060 0.000 0.896 0.044
#> SRR1026911 4 0.2153 0.62622 0.000 0.040 0.000 0.916 0.044
#> SRR1026912 3 0.3146 0.81704 0.000 0.000 0.844 0.028 0.128
#> SRR1026913 3 0.3016 0.82178 0.000 0.000 0.848 0.020 0.132
#> SRR1026914 2 0.4193 0.62044 0.000 0.684 0.000 0.304 0.012
#> SRR1026915 2 0.4193 0.62044 0.000 0.684 0.000 0.304 0.012
#> SRR1026916 2 0.4118 0.57738 0.000 0.660 0.000 0.336 0.004
#> SRR1026917 2 0.4118 0.57738 0.000 0.660 0.000 0.336 0.004
#> SRR1026918 4 0.5720 0.26855 0.000 0.276 0.000 0.600 0.124
#> SRR1026919 4 0.5714 0.23045 0.000 0.312 0.000 0.580 0.108
#> SRR1026920 2 0.4181 0.65747 0.000 0.712 0.000 0.268 0.020
#> SRR1026921 2 0.4181 0.65747 0.000 0.712 0.000 0.268 0.020
#> SRR1026922 2 0.1430 0.81069 0.000 0.944 0.000 0.052 0.004
#> SRR1026923 2 0.1168 0.80824 0.000 0.960 0.000 0.032 0.008
#> SRR1026924 4 0.6461 0.12197 0.000 0.212 0.004 0.524 0.260
#> SRR1026925 3 0.0798 0.88331 0.000 0.000 0.976 0.016 0.008
#> SRR1026926 4 0.6441 0.18118 0.000 0.252 0.008 0.544 0.196
#> SRR1026927 4 0.1485 0.63583 0.032 0.000 0.000 0.948 0.020
#> SRR1026928 4 0.2970 0.54124 0.000 0.168 0.000 0.828 0.004
#> SRR1026929 3 0.0510 0.88421 0.000 0.000 0.984 0.000 0.016
#> SRR1026930 2 0.0992 0.80504 0.000 0.968 0.000 0.024 0.008
#> SRR1026931 2 0.0162 0.79720 0.000 0.996 0.000 0.000 0.004
#> SRR1026932 2 0.1357 0.81030 0.000 0.948 0.000 0.048 0.004
#> SRR1026933 2 0.1357 0.81030 0.000 0.948 0.000 0.048 0.004
#> SRR1026934 2 0.2338 0.79806 0.000 0.884 0.000 0.112 0.004
#> SRR1026935 2 0.2338 0.79806 0.000 0.884 0.000 0.112 0.004
#> SRR1026936 4 0.3130 0.58935 0.000 0.048 0.000 0.856 0.096
#> SRR1026937 4 0.3003 0.59474 0.000 0.044 0.000 0.864 0.092
#> SRR1026938 2 0.4491 0.56695 0.000 0.652 0.000 0.328 0.020
#> SRR1026939 2 0.4366 0.58506 0.000 0.664 0.000 0.320 0.016
#> SRR1026940 4 0.7730 0.37024 0.152 0.160 0.076 0.564 0.048
#> SRR1026941 3 0.0451 0.88456 0.000 0.000 0.988 0.004 0.008
#> SRR1026942 4 0.4637 -0.07329 0.452 0.000 0.000 0.536 0.012
#> SRR1026943 1 0.5968 0.15398 0.452 0.000 0.000 0.440 0.108
#> SRR1026944 4 0.4047 0.33482 0.320 0.000 0.000 0.676 0.004
#> SRR1026945 3 0.0898 0.88196 0.020 0.000 0.972 0.000 0.008
#> SRR1026947 2 0.2124 0.80308 0.000 0.900 0.000 0.096 0.004
#> SRR1026946 2 0.3160 0.74638 0.000 0.808 0.000 0.188 0.004
#> SRR1026948 2 0.0451 0.79813 0.000 0.988 0.000 0.004 0.008
#> SRR1026949 2 0.5250 0.33247 0.040 0.552 0.000 0.404 0.004
#> SRR1026950 4 0.3210 0.51459 0.212 0.000 0.000 0.788 0.000
#> SRR1026951 2 0.3597 0.78668 0.004 0.844 0.028 0.104 0.020
#> SRR1026952 4 0.3885 0.42854 0.268 0.000 0.000 0.724 0.008
#> SRR1026953 3 0.0324 0.88446 0.004 0.000 0.992 0.000 0.004
#> SRR1026954 4 0.0865 0.64164 0.000 0.024 0.004 0.972 0.000
#> SRR1026955 2 0.1697 0.80994 0.000 0.932 0.000 0.060 0.008
#> SRR1026956 4 0.2305 0.60716 0.092 0.000 0.000 0.896 0.012
#> SRR1026957 2 0.4360 0.70911 0.000 0.752 0.000 0.184 0.064
#> SRR1026958 4 0.4380 0.17934 0.376 0.000 0.000 0.616 0.008
#> SRR1026959 2 0.0290 0.79594 0.000 0.992 0.000 0.000 0.008
#> SRR1026960 4 0.0579 0.64332 0.008 0.008 0.000 0.984 0.000
#> SRR1026961 4 0.2852 0.54080 0.000 0.172 0.000 0.828 0.000
#> SRR1026962 4 0.4045 0.24967 0.356 0.000 0.000 0.644 0.000
#> SRR1026963 4 0.4560 -0.17530 0.484 0.000 0.000 0.508 0.008
#> SRR1026964 4 0.5140 0.36278 0.004 0.060 0.000 0.652 0.284
#> SRR1026965 4 0.5258 0.33484 0.004 0.064 0.000 0.636 0.296
#> SRR1026966 3 0.1282 0.87940 0.000 0.000 0.952 0.004 0.044
#> SRR1026967 3 0.1282 0.87940 0.000 0.000 0.952 0.004 0.044
#> SRR1026968 4 0.1671 0.62229 0.000 0.076 0.000 0.924 0.000
#> SRR1026969 4 0.0324 0.64263 0.004 0.004 0.000 0.992 0.000
#> SRR1026970 4 0.2628 0.62464 0.028 0.000 0.000 0.884 0.088
#> SRR1026971 4 0.2511 0.62770 0.028 0.000 0.000 0.892 0.080
#> SRR1026972 5 0.2266 0.75230 0.016 0.008 0.000 0.064 0.912
#> SRR1026973 5 0.2266 0.75230 0.016 0.008 0.000 0.064 0.912
#> SRR1026974 4 0.1544 0.62645 0.068 0.000 0.000 0.932 0.000
#> SRR1026975 4 0.1544 0.62645 0.068 0.000 0.000 0.932 0.000
#> SRR1026976 4 0.0566 0.64243 0.000 0.012 0.004 0.984 0.000
#> SRR1026977 4 0.0451 0.64257 0.000 0.008 0.004 0.988 0.000
#> SRR1026978 1 0.5564 0.26055 0.548 0.392 0.000 0.048 0.012
#> SRR1026979 3 0.0566 0.88455 0.000 0.000 0.984 0.004 0.012
#> SRR1026980 2 0.0451 0.80116 0.000 0.988 0.004 0.008 0.000
#> SRR1026981 3 0.1209 0.88065 0.012 0.012 0.964 0.000 0.012
#> SRR1026982 4 0.0771 0.64368 0.004 0.020 0.000 0.976 0.000
#> SRR1026983 4 0.0865 0.64302 0.004 0.024 0.000 0.972 0.000
#> SRR1026984 4 0.1282 0.63778 0.004 0.044 0.000 0.952 0.000
#> SRR1026985 4 0.1357 0.63644 0.004 0.048 0.000 0.948 0.000
#> SRR1026986 2 0.6776 0.00564 0.288 0.488 0.000 0.212 0.012
#> SRR1026987 1 0.5344 0.60099 0.688 0.188 0.000 0.116 0.008
#> SRR1026988 1 0.5980 0.49809 0.576 0.000 0.128 0.292 0.004
#> SRR1026989 3 0.0324 0.88446 0.004 0.000 0.992 0.000 0.004
#> SRR1026990 4 0.0771 0.64188 0.020 0.004 0.000 0.976 0.000
#> SRR1026991 3 0.0898 0.88371 0.000 0.000 0.972 0.008 0.020
#> SRR1026992 1 0.4015 0.51115 0.652 0.000 0.000 0.348 0.000
#> SRR1026993 1 0.3579 0.65118 0.756 0.000 0.000 0.240 0.004
#> SRR1026994 2 0.3496 0.55237 0.200 0.788 0.000 0.000 0.012
#> SRR1026995 1 0.4727 0.59876 0.756 0.136 0.012 0.000 0.096
#> SRR1026996 4 0.4477 0.45144 0.004 0.028 0.004 0.724 0.240
#> SRR1026997 4 0.4421 0.46279 0.004 0.028 0.004 0.732 0.232
#> SRR1026998 3 0.1894 0.86906 0.000 0.000 0.920 0.008 0.072
#> SRR1026999 3 0.1894 0.86906 0.000 0.000 0.920 0.008 0.072
#> SRR1027000 1 0.3399 0.61792 0.812 0.172 0.004 0.000 0.012
#> SRR1027001 3 0.4347 0.61599 0.232 0.000 0.732 0.004 0.032
#> SRR1027002 2 0.2583 0.67579 0.132 0.864 0.000 0.000 0.004
#> SRR1027003 2 0.1894 0.74127 0.072 0.920 0.000 0.000 0.008
#> SRR1027004 1 0.5144 0.27598 0.520 0.000 0.008 0.448 0.024
#> SRR1027005 3 0.0000 0.88428 0.000 0.000 1.000 0.000 0.000
#> SRR1027006 3 0.4332 0.64088 0.064 0.000 0.768 0.164 0.004
#> SRR1027007 4 0.4655 0.36501 0.312 0.024 0.000 0.660 0.004
#> SRR1027008 1 0.1686 0.74261 0.944 0.028 0.000 0.008 0.020
#> SRR1027009 3 0.0290 0.88422 0.008 0.000 0.992 0.000 0.000
#> SRR1027010 3 0.5037 0.48799 0.320 0.000 0.636 0.008 0.036
#> SRR1027011 3 0.0898 0.88119 0.020 0.000 0.972 0.000 0.008
#> SRR1177668 1 0.4787 0.38142 0.608 0.000 0.028 0.000 0.364
#> SRR1177667 1 0.1444 0.74909 0.948 0.000 0.000 0.040 0.012
#> SRR1177669 3 0.1522 0.87125 0.044 0.000 0.944 0.000 0.012
#> SRR1177670 3 0.0880 0.87772 0.032 0.000 0.968 0.000 0.000
#> SRR1177671 2 0.0451 0.79334 0.004 0.988 0.000 0.000 0.008
#> SRR1177672 3 0.2753 0.78233 0.136 0.000 0.856 0.000 0.008
#> SRR1177673 1 0.1314 0.74513 0.960 0.004 0.008 0.004 0.024
#> SRR1177674 3 0.0865 0.88037 0.024 0.000 0.972 0.000 0.004
#> SRR1177675 1 0.4182 0.40726 0.600 0.000 0.000 0.400 0.000
#> SRR1177676 1 0.2389 0.69408 0.880 0.000 0.116 0.000 0.004
#> SRR1177677 1 0.1251 0.73825 0.956 0.036 0.000 0.000 0.008
#> SRR1177678 1 0.0404 0.74925 0.988 0.000 0.000 0.012 0.000
#> SRR1177679 2 0.0807 0.78892 0.012 0.976 0.000 0.000 0.012
#> SRR1177680 2 0.1281 0.77714 0.032 0.956 0.000 0.000 0.012
#> SRR1177681 1 0.2642 0.70334 0.888 0.084 0.004 0.000 0.024
#> SRR1177682 1 0.3961 0.51737 0.736 0.248 0.000 0.000 0.016
#> SRR1177683 2 0.0566 0.79349 0.004 0.984 0.000 0.000 0.012
#> SRR1177684 2 0.0451 0.79450 0.004 0.988 0.000 0.000 0.008
#> SRR1177685 1 0.2017 0.74657 0.912 0.000 0.000 0.080 0.008
#> SRR1177686 3 0.1041 0.88169 0.004 0.000 0.964 0.000 0.032
#> SRR1177687 2 0.1168 0.78349 0.008 0.960 0.000 0.000 0.032
#> SRR1177688 1 0.2470 0.69112 0.884 0.104 0.000 0.000 0.012
#> SRR1177689 1 0.4620 0.25720 0.592 0.392 0.000 0.000 0.016
#> SRR1177690 1 0.1243 0.74323 0.960 0.028 0.000 0.004 0.008
#> SRR1177691 2 0.1012 0.78379 0.020 0.968 0.000 0.000 0.012
#> SRR1177692 2 0.1195 0.78019 0.028 0.960 0.000 0.000 0.012
#> SRR1177693 2 0.2573 0.79827 0.000 0.880 0.000 0.104 0.016
#> SRR1177694 2 0.4054 0.68124 0.000 0.732 0.000 0.248 0.020
#> SRR1177695 1 0.3663 0.57578 0.776 0.208 0.000 0.000 0.016
#> SRR1177697 1 0.4304 0.21699 0.516 0.000 0.000 0.484 0.000
#> SRR1177696 1 0.6041 0.41499 0.620 0.188 0.180 0.000 0.012
#> SRR1177698 3 0.4473 0.36037 0.412 0.000 0.580 0.000 0.008
#> SRR1177700 4 0.4442 0.53857 0.068 0.020 0.128 0.784 0.000
#> SRR1177701 4 0.1764 0.62803 0.064 0.000 0.000 0.928 0.008
#> SRR1177702 2 0.1956 0.81129 0.000 0.916 0.000 0.076 0.008
#> SRR1177703 4 0.1892 0.61888 0.080 0.000 0.000 0.916 0.004
#> SRR1177704 2 0.2171 0.80904 0.000 0.912 0.000 0.064 0.024
#> SRR1177705 1 0.4830 0.17846 0.492 0.000 0.000 0.488 0.020
#> SRR1177706 2 0.1331 0.77576 0.040 0.952 0.000 0.000 0.008
#> SRR1177707 4 0.1544 0.62791 0.068 0.000 0.000 0.932 0.000
#> SRR1177708 4 0.6024 0.21563 0.016 0.012 0.316 0.592 0.064
#> SRR1177709 1 0.2282 0.73178 0.920 0.032 0.036 0.004 0.008
#> SRR1177710 3 0.3715 0.61944 0.260 0.000 0.736 0.000 0.004
#> SRR1177711 1 0.4321 0.41997 0.600 0.000 0.000 0.396 0.004
#> SRR1177712 2 0.5094 0.34177 0.000 0.600 0.000 0.048 0.352
#> SRR1177714 2 0.0290 0.79506 0.000 0.992 0.000 0.000 0.008
#> SRR1177713 2 0.2529 0.80589 0.004 0.900 0.000 0.056 0.040
#> SRR1177715 2 0.2470 0.70008 0.104 0.884 0.000 0.000 0.012
#> SRR1177716 3 0.0324 0.88446 0.004 0.000 0.992 0.000 0.004
#> SRR1177717 4 0.4452 -0.20114 0.496 0.000 0.000 0.500 0.004
#> SRR1177718 1 0.1638 0.74845 0.932 0.000 0.000 0.064 0.004
#> SRR1177719 4 0.3123 0.53974 0.184 0.000 0.000 0.812 0.004
#> SRR1177720 3 0.3538 0.76454 0.012 0.128 0.832 0.000 0.028
#> SRR1177721 2 0.0290 0.79594 0.000 0.992 0.000 0.000 0.008
#> SRR1177722 2 0.0671 0.80383 0.000 0.980 0.000 0.016 0.004
#> SRR1177723 1 0.2605 0.71622 0.852 0.000 0.000 0.148 0.000
#> SRR1177725 4 0.4302 -0.13690 0.480 0.000 0.000 0.520 0.000
#> SRR1177724 1 0.1124 0.75140 0.960 0.000 0.000 0.036 0.004
#> SRR1177726 3 0.0162 0.88433 0.004 0.000 0.996 0.000 0.000
#> SRR1177727 1 0.3106 0.71997 0.840 0.000 0.000 0.140 0.020
#> SRR1177728 3 0.0451 0.88465 0.008 0.000 0.988 0.000 0.004
#> SRR1177729 1 0.4302 0.22284 0.520 0.000 0.000 0.480 0.000
#> SRR1177730 1 0.4562 -0.03662 0.500 0.000 0.492 0.000 0.008
#> SRR1177731 1 0.0451 0.74649 0.988 0.000 0.004 0.000 0.008
#> SRR1177732 1 0.2198 0.74258 0.920 0.000 0.020 0.012 0.048
#> SRR1177733 1 0.4007 0.66740 0.756 0.004 0.000 0.220 0.020
#> SRR1177734 1 0.4235 0.53060 0.656 0.000 0.000 0.336 0.008
#> SRR1177735 4 0.7185 0.06841 0.240 0.364 0.000 0.376 0.020
#> SRR1177736 1 0.7323 0.25511 0.440 0.000 0.344 0.164 0.052
#> SRR1177737 4 0.3715 0.42503 0.000 0.260 0.000 0.736 0.004
#> SRR1177738 3 0.1901 0.84348 0.000 0.004 0.928 0.056 0.012
#> SRR1177739 1 0.3812 0.68053 0.772 0.000 0.000 0.204 0.024
#> SRR1177740 1 0.2783 0.72960 0.868 0.004 0.000 0.116 0.012
#> SRR1177741 1 0.1741 0.74816 0.936 0.000 0.000 0.040 0.024
#> SRR1177742 3 0.0324 0.88502 0.004 0.000 0.992 0.000 0.004
#> SRR1177743 1 0.0693 0.74665 0.980 0.000 0.012 0.000 0.008
#> SRR1177744 3 0.3838 0.58279 0.280 0.000 0.716 0.004 0.000
#> SRR1177745 2 0.1117 0.78403 0.020 0.964 0.000 0.000 0.016
#> SRR1177746 2 0.1444 0.76963 0.040 0.948 0.000 0.000 0.012
#> SRR1177747 3 0.1877 0.86986 0.000 0.000 0.924 0.012 0.064
#> SRR1177748 3 0.0162 0.88416 0.000 0.000 0.996 0.000 0.004
#> SRR1177749 1 0.3966 0.53114 0.664 0.000 0.000 0.336 0.000
#> SRR1177750 1 0.0566 0.74647 0.984 0.012 0.000 0.000 0.004
#> SRR1177751 1 0.2102 0.72245 0.916 0.068 0.000 0.004 0.012
#> SRR1177752 1 0.0771 0.75032 0.976 0.000 0.000 0.020 0.004
#> SRR1177753 1 0.1106 0.75006 0.964 0.000 0.000 0.024 0.012
#> SRR1177754 1 0.3008 0.70635 0.868 0.000 0.092 0.004 0.036
#> SRR1177755 4 0.4288 0.16488 0.384 0.000 0.000 0.612 0.004
#> SRR1177756 1 0.2408 0.74083 0.892 0.000 0.000 0.092 0.016
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.3438 0.6445 0.000 0.820 0.000 0.120 0.012 0.048
#> SRR1026871 2 0.3480 0.6418 0.000 0.816 0.000 0.124 0.012 0.048
#> SRR1026872 2 0.3194 0.6661 0.000 0.840 0.000 0.104 0.012 0.044
#> SRR1026873 1 0.4484 0.5240 0.688 0.000 0.000 0.252 0.012 0.048
#> SRR1026874 1 0.4157 0.5053 0.760 0.000 0.132 0.000 0.008 0.100
#> SRR1026875 2 0.2213 0.6851 0.000 0.908 0.000 0.048 0.032 0.012
#> SRR1026876 2 0.2213 0.6851 0.000 0.908 0.000 0.048 0.032 0.012
#> SRR1026877 3 0.3393 0.7097 0.000 0.000 0.820 0.004 0.108 0.068
#> SRR1026878 3 0.2789 0.7352 0.000 0.000 0.864 0.004 0.088 0.044
#> SRR1026879 1 0.4981 0.4876 0.672 0.000 0.000 0.100 0.016 0.212
#> SRR1026880 1 0.1592 0.6312 0.944 0.000 0.024 0.012 0.004 0.016
#> SRR1026881 2 0.5110 0.4217 0.000 0.604 0.000 0.316 0.020 0.060
#> SRR1026882 2 0.5032 0.4527 0.000 0.624 0.000 0.296 0.020 0.060
#> SRR1026883 4 0.6956 0.1322 0.000 0.236 0.000 0.464 0.204 0.096
#> SRR1026884 4 0.6971 0.1243 0.000 0.240 0.000 0.460 0.204 0.096
#> SRR1026885 4 0.4623 0.4356 0.004 0.016 0.000 0.720 0.072 0.188
#> SRR1026886 4 0.4623 0.4356 0.004 0.016 0.000 0.720 0.072 0.188
#> SRR1026887 3 0.7027 0.1463 0.000 0.000 0.452 0.100 0.216 0.232
#> SRR1026888 3 0.7023 0.1239 0.000 0.000 0.440 0.092 0.212 0.256
#> SRR1026889 2 0.4542 0.6230 0.000 0.740 0.000 0.084 0.148 0.028
#> SRR1026890 5 0.6767 0.1915 0.000 0.292 0.004 0.148 0.480 0.076
#> SRR1026891 4 0.1503 0.5640 0.032 0.000 0.000 0.944 0.016 0.008
#> SRR1026892 4 0.1409 0.5655 0.032 0.000 0.000 0.948 0.012 0.008
#> SRR1026893 3 0.0820 0.7675 0.000 0.000 0.972 0.000 0.012 0.016
#> SRR1026894 3 0.0909 0.7674 0.000 0.000 0.968 0.000 0.012 0.020
#> SRR1026895 2 0.6642 0.1749 0.000 0.476 0.004 0.320 0.132 0.068
#> SRR1026896 2 0.6635 0.1791 0.000 0.476 0.004 0.324 0.124 0.072
#> SRR1026897 2 0.6374 0.0348 0.004 0.400 0.256 0.000 0.008 0.332
#> SRR1026898 1 0.2358 0.6137 0.876 0.016 0.000 0.000 0.000 0.108
#> SRR1026899 1 0.3689 0.5907 0.808 0.000 0.032 0.036 0.000 0.124
#> SRR1026900 2 0.2806 0.6753 0.000 0.872 0.000 0.056 0.012 0.060
#> SRR1026901 2 0.6161 0.3013 0.016 0.584 0.276 0.028 0.016 0.080
#> SRR1026902 4 0.5294 0.3852 0.004 0.016 0.000 0.660 0.168 0.152
#> SRR1026903 4 0.5199 0.3985 0.004 0.016 0.000 0.672 0.156 0.152
#> SRR1026904 4 0.5811 0.2615 0.000 0.320 0.004 0.548 0.024 0.104
#> SRR1026905 4 0.5912 0.2553 0.000 0.320 0.008 0.544 0.024 0.104
#> SRR1026906 2 0.2662 0.6810 0.000 0.856 0.000 0.120 0.000 0.024
#> SRR1026907 2 0.2480 0.6846 0.000 0.872 0.000 0.104 0.000 0.024
#> SRR1026908 2 0.1285 0.6872 0.000 0.944 0.000 0.052 0.004 0.000
#> SRR1026909 2 0.1219 0.6874 0.000 0.948 0.000 0.048 0.004 0.000
#> SRR1026910 4 0.4863 0.4670 0.000 0.088 0.000 0.708 0.032 0.172
#> SRR1026911 4 0.4816 0.4703 0.000 0.084 0.000 0.712 0.032 0.172
#> SRR1026912 3 0.5705 0.4987 0.000 0.016 0.636 0.024 0.120 0.204
#> SRR1026913 3 0.5643 0.4963 0.000 0.012 0.632 0.020 0.128 0.208
#> SRR1026914 2 0.4770 0.5241 0.000 0.672 0.000 0.224 0.004 0.100
#> SRR1026915 2 0.4727 0.5278 0.000 0.676 0.000 0.224 0.004 0.096
#> SRR1026916 2 0.4565 0.5285 0.000 0.680 0.000 0.244 0.004 0.072
#> SRR1026917 2 0.4565 0.5285 0.000 0.680 0.000 0.244 0.004 0.072
#> SRR1026918 2 0.5582 0.1446 0.000 0.460 0.000 0.448 0.044 0.048
#> SRR1026919 2 0.5580 0.1636 0.000 0.468 0.000 0.440 0.044 0.048
#> SRR1026920 2 0.4507 0.5856 0.000 0.736 0.004 0.176 0.020 0.064
#> SRR1026921 2 0.4539 0.5813 0.000 0.732 0.004 0.180 0.020 0.064
#> SRR1026922 2 0.2828 0.6778 0.000 0.868 0.000 0.080 0.012 0.040
#> SRR1026923 2 0.3323 0.6688 0.008 0.848 0.000 0.072 0.016 0.056
#> SRR1026924 4 0.7025 0.1070 0.000 0.236 0.000 0.452 0.212 0.100
#> SRR1026925 3 0.0692 0.7674 0.000 0.000 0.976 0.004 0.000 0.020
#> SRR1026926 4 0.7073 0.1016 0.000 0.180 0.000 0.424 0.104 0.292
#> SRR1026927 4 0.2609 0.5561 0.024 0.004 0.000 0.892 0.052 0.028
#> SRR1026928 4 0.4387 0.4471 0.000 0.232 0.000 0.704 0.008 0.056
#> SRR1026929 3 0.0603 0.7663 0.000 0.000 0.980 0.000 0.004 0.016
#> SRR1026930 2 0.3056 0.6338 0.004 0.804 0.000 0.008 0.000 0.184
#> SRR1026931 2 0.1556 0.6672 0.000 0.920 0.000 0.000 0.000 0.080
#> SRR1026932 2 0.2039 0.6783 0.000 0.908 0.000 0.016 0.004 0.072
#> SRR1026933 2 0.2039 0.6783 0.000 0.908 0.000 0.016 0.004 0.072
#> SRR1026934 2 0.3223 0.6541 0.000 0.836 0.000 0.104 0.008 0.052
#> SRR1026935 2 0.3112 0.6559 0.000 0.840 0.000 0.104 0.004 0.052
#> SRR1026936 4 0.5486 0.4663 0.000 0.148 0.000 0.672 0.084 0.096
#> SRR1026937 4 0.5428 0.4670 0.000 0.152 0.000 0.676 0.080 0.092
#> SRR1026938 2 0.4519 0.5137 0.000 0.684 0.000 0.260 0.024 0.032
#> SRR1026939 2 0.4497 0.5189 0.000 0.688 0.000 0.256 0.024 0.032
#> SRR1026940 6 0.4887 0.5034 0.028 0.024 0.012 0.280 0.000 0.656
#> SRR1026941 3 0.2703 0.7132 0.000 0.000 0.824 0.000 0.004 0.172
#> SRR1026942 4 0.4151 0.0872 0.412 0.000 0.000 0.576 0.008 0.004
#> SRR1026943 1 0.5612 0.1228 0.428 0.000 0.000 0.428 0.144 0.000
#> SRR1026944 4 0.3853 0.3406 0.304 0.000 0.000 0.680 0.000 0.016
#> SRR1026945 3 0.2662 0.7284 0.120 0.000 0.856 0.000 0.000 0.024
#> SRR1026947 2 0.2583 0.6890 0.000 0.884 0.000 0.056 0.008 0.052
#> SRR1026946 2 0.3862 0.6760 0.000 0.788 0.000 0.100 0.008 0.104
#> SRR1026948 2 0.2416 0.6443 0.000 0.844 0.000 0.000 0.000 0.156
#> SRR1026949 2 0.5197 0.0983 0.032 0.480 0.000 0.460 0.004 0.024
#> SRR1026950 4 0.2848 0.4565 0.176 0.000 0.000 0.816 0.000 0.008
#> SRR1026951 2 0.4567 0.5359 0.000 0.664 0.004 0.048 0.004 0.280
#> SRR1026952 4 0.4191 0.3779 0.180 0.000 0.000 0.732 0.000 0.088
#> SRR1026953 3 0.0717 0.7674 0.016 0.000 0.976 0.000 0.000 0.008
#> SRR1026954 4 0.2619 0.5667 0.000 0.072 0.008 0.880 0.000 0.040
#> SRR1026955 2 0.2068 0.6843 0.000 0.916 0.000 0.020 0.016 0.048
#> SRR1026956 4 0.1914 0.5539 0.056 0.000 0.000 0.920 0.016 0.008
#> SRR1026957 2 0.4287 0.6720 0.000 0.780 0.000 0.080 0.072 0.068
#> SRR1026958 4 0.4934 0.2598 0.264 0.000 0.000 0.628 0.000 0.108
#> SRR1026959 2 0.2706 0.6362 0.008 0.832 0.000 0.000 0.000 0.160
#> SRR1026960 4 0.2164 0.5731 0.012 0.060 0.000 0.908 0.000 0.020
#> SRR1026961 4 0.4846 0.2836 0.000 0.328 0.000 0.608 0.008 0.056
#> SRR1026962 4 0.3448 0.3541 0.280 0.000 0.000 0.716 0.000 0.004
#> SRR1026963 4 0.4487 0.0122 0.420 0.000 0.000 0.552 0.004 0.024
#> SRR1026964 4 0.6197 0.2884 0.004 0.068 0.000 0.568 0.104 0.256
#> SRR1026965 4 0.6263 0.2953 0.004 0.072 0.000 0.568 0.112 0.244
#> SRR1026966 3 0.2069 0.7540 0.000 0.000 0.908 0.004 0.020 0.068
#> SRR1026967 3 0.2094 0.7545 0.000 0.000 0.908 0.004 0.024 0.064
#> SRR1026968 4 0.3265 0.5492 0.000 0.112 0.000 0.828 0.004 0.056
#> SRR1026969 4 0.0914 0.5747 0.000 0.016 0.000 0.968 0.000 0.016
#> SRR1026970 4 0.2502 0.5660 0.020 0.012 0.000 0.884 0.084 0.000
#> SRR1026971 4 0.2502 0.5660 0.020 0.012 0.000 0.884 0.084 0.000
#> SRR1026972 5 0.0820 0.5474 0.012 0.016 0.000 0.000 0.972 0.000
#> SRR1026973 5 0.0820 0.5474 0.012 0.016 0.000 0.000 0.972 0.000
#> SRR1026974 4 0.1333 0.5560 0.048 0.000 0.000 0.944 0.000 0.008
#> SRR1026975 4 0.1219 0.5578 0.048 0.000 0.000 0.948 0.000 0.004
#> SRR1026976 4 0.2711 0.5631 0.000 0.068 0.000 0.872 0.004 0.056
#> SRR1026977 4 0.2649 0.5642 0.000 0.068 0.000 0.876 0.004 0.052
#> SRR1026978 1 0.6633 0.1579 0.432 0.388 0.000 0.124 0.024 0.032
#> SRR1026979 3 0.3828 0.6049 0.000 0.000 0.696 0.004 0.012 0.288
#> SRR1026980 2 0.2848 0.6585 0.004 0.872 0.076 0.004 0.004 0.040
#> SRR1026981 3 0.2176 0.7362 0.000 0.080 0.896 0.000 0.000 0.024
#> SRR1026982 4 0.1657 0.5748 0.000 0.056 0.000 0.928 0.000 0.016
#> SRR1026983 4 0.1719 0.5750 0.000 0.060 0.000 0.924 0.000 0.016
#> SRR1026984 4 0.3940 0.5085 0.004 0.168 0.000 0.772 0.008 0.048
#> SRR1026985 4 0.3905 0.5110 0.004 0.164 0.000 0.776 0.008 0.048
#> SRR1026986 2 0.7377 -0.0159 0.264 0.380 0.000 0.224 0.000 0.132
#> SRR1026987 1 0.6988 0.3354 0.496 0.208 0.000 0.116 0.004 0.176
#> SRR1026988 3 0.5882 0.1342 0.400 0.000 0.456 0.128 0.000 0.016
#> SRR1026989 3 0.1563 0.7606 0.056 0.000 0.932 0.000 0.000 0.012
#> SRR1026990 4 0.1585 0.5685 0.012 0.012 0.000 0.940 0.000 0.036
#> SRR1026991 3 0.2517 0.7455 0.000 0.000 0.876 0.008 0.016 0.100
#> SRR1026992 1 0.4314 0.2578 0.536 0.000 0.000 0.444 0.000 0.020
#> SRR1026993 1 0.3898 0.4843 0.684 0.000 0.000 0.296 0.000 0.020
#> SRR1026994 2 0.5652 0.4171 0.212 0.616 0.000 0.000 0.032 0.140
#> SRR1026995 1 0.4856 0.4988 0.720 0.152 0.008 0.000 0.100 0.020
#> SRR1026996 4 0.5083 0.4704 0.000 0.060 0.000 0.700 0.164 0.076
#> SRR1026997 4 0.4983 0.4810 0.000 0.060 0.000 0.712 0.152 0.076
#> SRR1026998 3 0.4806 0.4716 0.000 0.004 0.604 0.008 0.040 0.344
#> SRR1026999 3 0.4806 0.4716 0.000 0.004 0.604 0.008 0.040 0.344
#> SRR1027000 1 0.3068 0.5837 0.840 0.088 0.000 0.000 0.000 0.072
#> SRR1027001 3 0.3329 0.6353 0.220 0.000 0.768 0.004 0.000 0.008
#> SRR1027002 2 0.4874 0.4620 0.248 0.668 0.000 0.012 0.004 0.068
#> SRR1027003 2 0.3726 0.5424 0.216 0.752 0.000 0.000 0.004 0.028
#> SRR1027004 4 0.4469 -0.1035 0.468 0.000 0.000 0.504 0.000 0.028
#> SRR1027005 3 0.0363 0.7665 0.000 0.000 0.988 0.000 0.000 0.012
#> SRR1027006 3 0.3864 0.6748 0.128 0.000 0.796 0.044 0.000 0.032
#> SRR1027007 4 0.6226 0.3134 0.232 0.224 0.000 0.516 0.000 0.028
#> SRR1027008 1 0.4409 0.5287 0.716 0.060 0.000 0.012 0.000 0.212
#> SRR1027009 3 0.1858 0.7629 0.012 0.000 0.912 0.000 0.000 0.076
#> SRR1027010 6 0.5578 0.3807 0.140 0.000 0.200 0.032 0.000 0.628
#> SRR1027011 3 0.2923 0.7492 0.052 0.000 0.848 0.000 0.000 0.100
#> SRR1177668 1 0.4291 0.2135 0.548 0.000 0.008 0.000 0.436 0.008
#> SRR1177667 1 0.2692 0.6230 0.840 0.000 0.000 0.148 0.012 0.000
#> SRR1177669 3 0.2629 0.7430 0.060 0.000 0.872 0.000 0.000 0.068
#> SRR1177670 3 0.2812 0.7388 0.096 0.000 0.856 0.000 0.000 0.048
#> SRR1177671 2 0.3201 0.6083 0.012 0.780 0.000 0.000 0.000 0.208
#> SRR1177672 3 0.3078 0.6716 0.192 0.000 0.796 0.000 0.000 0.012
#> SRR1177673 1 0.4332 0.4424 0.644 0.000 0.000 0.040 0.000 0.316
#> SRR1177674 3 0.2608 0.7560 0.048 0.000 0.872 0.000 0.000 0.080
#> SRR1177675 1 0.4089 0.2148 0.524 0.000 0.000 0.468 0.000 0.008
#> SRR1177676 1 0.3307 0.5213 0.808 0.000 0.148 0.000 0.000 0.044
#> SRR1177677 1 0.1857 0.6286 0.924 0.028 0.000 0.000 0.004 0.044
#> SRR1177678 1 0.1644 0.6411 0.920 0.000 0.000 0.076 0.000 0.004
#> SRR1177679 2 0.3884 0.5658 0.036 0.724 0.000 0.000 0.000 0.240
#> SRR1177680 2 0.4435 0.5195 0.064 0.672 0.000 0.000 0.000 0.264
#> SRR1177681 1 0.4905 0.4325 0.620 0.096 0.000 0.000 0.000 0.284
#> SRR1177682 1 0.5783 0.2832 0.496 0.212 0.000 0.000 0.000 0.292
#> SRR1177683 2 0.3345 0.6040 0.020 0.776 0.000 0.000 0.000 0.204
#> SRR1177684 2 0.3037 0.6316 0.016 0.820 0.000 0.000 0.004 0.160
#> SRR1177685 1 0.4075 0.5330 0.712 0.000 0.000 0.240 0.000 0.048
#> SRR1177686 3 0.2969 0.6789 0.000 0.000 0.776 0.000 0.000 0.224
#> SRR1177687 2 0.4361 0.4929 0.044 0.648 0.000 0.000 0.000 0.308
#> SRR1177688 1 0.3508 0.5749 0.800 0.068 0.000 0.000 0.000 0.132
#> SRR1177689 1 0.6016 0.1480 0.412 0.340 0.000 0.000 0.000 0.248
#> SRR1177690 1 0.1820 0.6394 0.928 0.016 0.000 0.012 0.000 0.044
#> SRR1177691 2 0.4191 0.5468 0.056 0.704 0.000 0.000 0.000 0.240
#> SRR1177692 2 0.4476 0.5097 0.064 0.664 0.000 0.000 0.000 0.272
#> SRR1177693 2 0.3008 0.6662 0.000 0.860 0.000 0.072 0.016 0.052
#> SRR1177694 2 0.4072 0.6137 0.000 0.772 0.000 0.148 0.020 0.060
#> SRR1177695 1 0.5646 0.3296 0.532 0.204 0.000 0.000 0.000 0.264
#> SRR1177697 4 0.3843 -0.0428 0.452 0.000 0.000 0.548 0.000 0.000
#> SRR1177696 1 0.5671 0.2386 0.564 0.120 0.296 0.000 0.000 0.020
#> SRR1177698 3 0.5040 0.2986 0.408 0.000 0.516 0.000 0.000 0.076
#> SRR1177700 4 0.4478 0.4695 0.048 0.036 0.124 0.772 0.000 0.020
#> SRR1177701 4 0.1434 0.5586 0.048 0.000 0.000 0.940 0.000 0.012
#> SRR1177702 2 0.2563 0.6868 0.000 0.880 0.000 0.028 0.008 0.084
#> SRR1177703 4 0.3370 0.5008 0.072 0.008 0.000 0.828 0.000 0.092
#> SRR1177704 2 0.3001 0.6730 0.000 0.868 0.004 0.048 0.020 0.060
#> SRR1177705 4 0.5192 0.0314 0.404 0.000 0.000 0.528 0.024 0.044
#> SRR1177706 2 0.4178 0.5914 0.104 0.764 0.000 0.000 0.012 0.120
#> SRR1177707 4 0.1820 0.5589 0.056 0.008 0.000 0.924 0.000 0.012
#> SRR1177708 6 0.4792 0.4789 0.004 0.012 0.032 0.312 0.004 0.636
#> SRR1177709 1 0.2127 0.6245 0.920 0.024 0.032 0.000 0.008 0.016
#> SRR1177710 3 0.2149 0.7511 0.104 0.000 0.888 0.000 0.004 0.004
#> SRR1177711 1 0.4179 0.1903 0.516 0.000 0.000 0.472 0.000 0.012
#> SRR1177712 2 0.3384 0.5572 0.000 0.760 0.000 0.008 0.228 0.004
#> SRR1177714 2 0.2738 0.6338 0.004 0.820 0.000 0.000 0.000 0.176
#> SRR1177713 2 0.3420 0.6772 0.016 0.848 0.000 0.048 0.020 0.068
#> SRR1177715 2 0.5143 0.4407 0.140 0.612 0.000 0.000 0.000 0.248
#> SRR1177716 3 0.0520 0.7673 0.008 0.000 0.984 0.000 0.000 0.008
#> SRR1177717 4 0.4229 -0.0113 0.436 0.000 0.000 0.548 0.000 0.016
#> SRR1177718 1 0.2489 0.6283 0.860 0.000 0.000 0.128 0.000 0.012
#> SRR1177719 4 0.2633 0.5032 0.104 0.000 0.000 0.864 0.000 0.032
#> SRR1177720 3 0.6026 0.2802 0.016 0.200 0.520 0.000 0.000 0.264
#> SRR1177721 2 0.2805 0.6283 0.004 0.812 0.000 0.000 0.000 0.184
#> SRR1177722 2 0.1863 0.6629 0.000 0.896 0.000 0.000 0.000 0.104
#> SRR1177723 1 0.3672 0.5057 0.688 0.000 0.000 0.304 0.000 0.008
#> SRR1177725 4 0.4876 0.1329 0.368 0.000 0.000 0.564 0.000 0.068
#> SRR1177724 1 0.2709 0.6304 0.848 0.000 0.000 0.132 0.000 0.020
#> SRR1177726 3 0.1010 0.7660 0.036 0.000 0.960 0.000 0.000 0.004
#> SRR1177727 1 0.4469 0.5106 0.676 0.000 0.000 0.272 0.012 0.040
#> SRR1177728 3 0.1856 0.7649 0.032 0.000 0.920 0.000 0.000 0.048
#> SRR1177729 4 0.3854 -0.0838 0.464 0.000 0.000 0.536 0.000 0.000
#> SRR1177730 3 0.3816 0.5421 0.296 0.000 0.688 0.000 0.000 0.016
#> SRR1177731 1 0.0767 0.6362 0.976 0.000 0.008 0.004 0.000 0.012
#> SRR1177732 1 0.3662 0.6094 0.832 0.000 0.016 0.028 0.040 0.084
#> SRR1177733 1 0.6211 0.1711 0.436 0.008 0.000 0.372 0.008 0.176
#> SRR1177734 4 0.6284 -0.1585 0.340 0.000 0.000 0.412 0.012 0.236
#> SRR1177735 4 0.6816 -0.1271 0.160 0.076 0.000 0.416 0.000 0.348
#> SRR1177736 6 0.4980 0.5338 0.076 0.000 0.032 0.208 0.000 0.684
#> SRR1177737 4 0.4894 0.0490 0.000 0.412 0.000 0.532 0.004 0.052
#> SRR1177738 3 0.3632 0.6562 0.000 0.096 0.824 0.016 0.008 0.056
#> SRR1177739 6 0.6547 0.0949 0.300 0.000 0.000 0.340 0.020 0.340
#> SRR1177740 1 0.4087 0.4783 0.668 0.004 0.000 0.312 0.008 0.008
#> SRR1177741 1 0.3015 0.6263 0.844 0.000 0.000 0.120 0.024 0.012
#> SRR1177742 3 0.2544 0.7406 0.004 0.000 0.852 0.000 0.004 0.140
#> SRR1177743 1 0.3628 0.5709 0.796 0.000 0.012 0.028 0.004 0.160
#> SRR1177744 3 0.5893 0.0994 0.360 0.000 0.496 0.008 0.008 0.128
#> SRR1177745 2 0.4002 0.5567 0.036 0.704 0.000 0.000 0.000 0.260
#> SRR1177746 2 0.4606 0.5039 0.076 0.656 0.000 0.000 0.000 0.268
#> SRR1177747 6 0.4924 0.2291 0.016 0.000 0.304 0.028 0.016 0.636
#> SRR1177748 3 0.0146 0.7666 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177749 1 0.4310 0.3697 0.580 0.000 0.000 0.396 0.000 0.024
#> SRR1177750 1 0.1096 0.6385 0.964 0.008 0.000 0.004 0.004 0.020
#> SRR1177751 1 0.3806 0.5593 0.776 0.088 0.000 0.000 0.000 0.136
#> SRR1177752 1 0.1910 0.6371 0.892 0.000 0.000 0.108 0.000 0.000
#> SRR1177753 1 0.2169 0.6433 0.900 0.000 0.000 0.080 0.008 0.012
#> SRR1177754 1 0.2577 0.6123 0.888 0.000 0.040 0.000 0.056 0.016
#> SRR1177755 4 0.3835 0.3049 0.320 0.000 0.000 0.668 0.000 0.012
#> SRR1177756 1 0.3632 0.5765 0.752 0.008 0.000 0.228 0.008 0.004
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["ATC", "hclust"]
# you can also extract it by
# res = res_list["ATC:hclust"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'ATC' method.
#> Subgroups are detected by 'hclust' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.333 0.721 0.835 0.4155 0.579 0.579
#> 3 3 0.445 0.667 0.832 0.4384 0.769 0.610
#> 4 4 0.490 0.575 0.753 0.0918 0.862 0.682
#> 5 5 0.524 0.640 0.791 0.0520 0.904 0.752
#> 6 6 0.578 0.624 0.804 0.0332 0.996 0.987
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.873 0.000 1.000
#> SRR1026871 2 0.0000 0.873 0.000 1.000
#> SRR1026872 2 0.0000 0.873 0.000 1.000
#> SRR1026873 1 0.1633 0.768 0.976 0.024
#> SRR1026874 1 0.0000 0.764 1.000 0.000
#> SRR1026875 2 0.0000 0.873 0.000 1.000
#> SRR1026876 2 0.0000 0.873 0.000 1.000
#> SRR1026877 1 0.0000 0.764 1.000 0.000
#> SRR1026878 1 0.0000 0.764 1.000 0.000
#> SRR1026879 1 0.0000 0.764 1.000 0.000
#> SRR1026880 1 0.0000 0.764 1.000 0.000
#> SRR1026881 2 0.2778 0.854 0.048 0.952
#> SRR1026882 2 0.2778 0.854 0.048 0.952
#> SRR1026883 1 0.9909 0.494 0.556 0.444
#> SRR1026884 1 0.9909 0.494 0.556 0.444
#> SRR1026885 1 0.9608 0.610 0.616 0.384
#> SRR1026886 1 0.9608 0.610 0.616 0.384
#> SRR1026887 1 0.0000 0.764 1.000 0.000
#> SRR1026888 1 0.0000 0.764 1.000 0.000
#> SRR1026889 2 0.2236 0.859 0.036 0.964
#> SRR1026890 1 0.9754 0.569 0.592 0.408
#> SRR1026891 1 0.6247 0.764 0.844 0.156
#> SRR1026892 1 0.6247 0.764 0.844 0.156
#> SRR1026893 1 0.0000 0.764 1.000 0.000
#> SRR1026894 1 0.0000 0.764 1.000 0.000
#> SRR1026895 1 0.9998 0.355 0.508 0.492
#> SRR1026896 1 0.9998 0.355 0.508 0.492
#> SRR1026897 1 0.0000 0.764 1.000 0.000
#> SRR1026898 1 0.6801 0.760 0.820 0.180
#> SRR1026899 1 0.0000 0.764 1.000 0.000
#> SRR1026900 2 0.6973 0.723 0.188 0.812
#> SRR1026901 2 0.8443 0.562 0.272 0.728
#> SRR1026902 1 0.7674 0.744 0.776 0.224
#> SRR1026903 1 0.7674 0.744 0.776 0.224
#> SRR1026904 1 0.9732 0.576 0.596 0.404
#> SRR1026905 1 0.9732 0.576 0.596 0.404
#> SRR1026906 2 0.0000 0.873 0.000 1.000
#> SRR1026907 2 0.0000 0.873 0.000 1.000
#> SRR1026908 2 0.0000 0.873 0.000 1.000
#> SRR1026909 2 0.0000 0.873 0.000 1.000
#> SRR1026910 1 0.9850 0.530 0.572 0.428
#> SRR1026911 1 0.9850 0.530 0.572 0.428
#> SRR1026912 1 0.0000 0.764 1.000 0.000
#> SRR1026913 1 0.0000 0.764 1.000 0.000
#> SRR1026914 2 0.0000 0.873 0.000 1.000
#> SRR1026915 2 0.0000 0.873 0.000 1.000
#> SRR1026916 2 0.0000 0.873 0.000 1.000
#> SRR1026917 2 0.0000 0.873 0.000 1.000
#> SRR1026918 2 0.4431 0.825 0.092 0.908
#> SRR1026919 2 0.4431 0.825 0.092 0.908
#> SRR1026920 2 0.4161 0.831 0.084 0.916
#> SRR1026921 2 0.4161 0.831 0.084 0.916
#> SRR1026922 2 0.0000 0.873 0.000 1.000
#> SRR1026923 2 0.0000 0.873 0.000 1.000
#> SRR1026924 1 0.9909 0.494 0.556 0.444
#> SRR1026925 1 0.0000 0.764 1.000 0.000
#> SRR1026926 1 0.9909 0.494 0.556 0.444
#> SRR1026927 1 0.6247 0.764 0.844 0.156
#> SRR1026928 2 0.8144 0.614 0.252 0.748
#> SRR1026929 1 0.0000 0.764 1.000 0.000
#> SRR1026930 2 0.7219 0.705 0.200 0.800
#> SRR1026931 2 0.0000 0.873 0.000 1.000
#> SRR1026932 2 0.0000 0.873 0.000 1.000
#> SRR1026933 2 0.0000 0.873 0.000 1.000
#> SRR1026934 2 0.0000 0.873 0.000 1.000
#> SRR1026935 2 0.0000 0.873 0.000 1.000
#> SRR1026936 1 0.9909 0.494 0.556 0.444
#> SRR1026937 1 0.9909 0.494 0.556 0.444
#> SRR1026938 2 0.0000 0.873 0.000 1.000
#> SRR1026939 2 0.0000 0.873 0.000 1.000
#> SRR1026940 1 0.7602 0.746 0.780 0.220
#> SRR1026941 1 0.0000 0.764 1.000 0.000
#> SRR1026942 1 0.5059 0.770 0.888 0.112
#> SRR1026943 1 0.9170 0.674 0.668 0.332
#> SRR1026944 1 0.5059 0.770 0.888 0.112
#> SRR1026945 1 0.0000 0.764 1.000 0.000
#> SRR1026947 2 0.0000 0.873 0.000 1.000
#> SRR1026946 2 0.0000 0.873 0.000 1.000
#> SRR1026948 2 0.0000 0.873 0.000 1.000
#> SRR1026949 1 0.9850 0.530 0.572 0.428
#> SRR1026950 1 0.9170 0.674 0.668 0.332
#> SRR1026951 2 0.9087 0.405 0.324 0.676
#> SRR1026952 1 0.5059 0.770 0.888 0.112
#> SRR1026953 1 0.0000 0.764 1.000 0.000
#> SRR1026954 1 0.9552 0.622 0.624 0.376
#> SRR1026955 2 0.0000 0.873 0.000 1.000
#> SRR1026956 1 0.6343 0.763 0.840 0.160
#> SRR1026957 2 0.3274 0.847 0.060 0.940
#> SRR1026958 1 0.9358 0.654 0.648 0.352
#> SRR1026959 2 0.0000 0.873 0.000 1.000
#> SRR1026960 2 0.8081 0.621 0.248 0.752
#> SRR1026961 2 0.8081 0.621 0.248 0.752
#> SRR1026962 1 0.4562 0.770 0.904 0.096
#> SRR1026963 1 0.1414 0.767 0.980 0.020
#> SRR1026964 1 0.9909 0.494 0.556 0.444
#> SRR1026965 1 0.9909 0.494 0.556 0.444
#> SRR1026966 1 0.0000 0.764 1.000 0.000
#> SRR1026967 1 0.0000 0.764 1.000 0.000
#> SRR1026968 1 0.9866 0.522 0.568 0.432
#> SRR1026969 1 0.9608 0.610 0.616 0.384
#> SRR1026970 1 0.9460 0.639 0.636 0.364
#> SRR1026971 1 0.9460 0.639 0.636 0.364
#> SRR1026972 1 0.9129 0.673 0.672 0.328
#> SRR1026973 1 0.9129 0.673 0.672 0.328
#> SRR1026974 1 0.5946 0.766 0.856 0.144
#> SRR1026975 1 0.5946 0.766 0.856 0.144
#> SRR1026976 1 0.9580 0.616 0.620 0.380
#> SRR1026977 1 0.9580 0.616 0.620 0.380
#> SRR1026978 2 0.7883 0.646 0.236 0.764
#> SRR1026979 1 0.0000 0.764 1.000 0.000
#> SRR1026980 1 0.9933 0.465 0.548 0.452
#> SRR1026981 1 0.8267 0.727 0.740 0.260
#> SRR1026982 2 0.9998 -0.309 0.492 0.508
#> SRR1026983 2 0.9998 -0.309 0.492 0.508
#> SRR1026984 2 0.8081 0.621 0.248 0.752
#> SRR1026985 2 0.8081 0.621 0.248 0.752
#> SRR1026986 2 0.8081 0.621 0.248 0.752
#> SRR1026987 1 0.9358 0.654 0.648 0.352
#> SRR1026988 1 0.2236 0.769 0.964 0.036
#> SRR1026989 1 0.0000 0.764 1.000 0.000
#> SRR1026990 1 0.9460 0.639 0.636 0.364
#> SRR1026991 1 0.0000 0.764 1.000 0.000
#> SRR1026992 1 0.6887 0.759 0.816 0.184
#> SRR1026993 1 0.9248 0.666 0.660 0.340
#> SRR1026994 1 0.9850 0.523 0.572 0.428
#> SRR1026995 1 0.9129 0.666 0.672 0.328
#> SRR1026996 1 0.9580 0.617 0.620 0.380
#> SRR1026997 1 0.9580 0.617 0.620 0.380
#> SRR1026998 1 0.0000 0.764 1.000 0.000
#> SRR1026999 1 0.0000 0.764 1.000 0.000
#> SRR1027000 1 0.9209 0.670 0.664 0.336
#> SRR1027001 1 0.0000 0.764 1.000 0.000
#> SRR1027002 2 0.7528 0.680 0.216 0.784
#> SRR1027003 2 0.8016 0.630 0.244 0.756
#> SRR1027004 1 0.8207 0.729 0.744 0.256
#> SRR1027005 1 0.0000 0.764 1.000 0.000
#> SRR1027006 1 0.2778 0.769 0.952 0.048
#> SRR1027007 2 0.8207 0.603 0.256 0.744
#> SRR1027008 1 0.9358 0.654 0.648 0.352
#> SRR1027009 1 0.0000 0.764 1.000 0.000
#> SRR1027010 1 0.0000 0.764 1.000 0.000
#> SRR1027011 1 0.0000 0.764 1.000 0.000
#> SRR1177668 1 0.0000 0.764 1.000 0.000
#> SRR1177667 1 0.4939 0.770 0.892 0.108
#> SRR1177669 1 0.0376 0.764 0.996 0.004
#> SRR1177670 1 0.0000 0.764 1.000 0.000
#> SRR1177671 2 0.0000 0.873 0.000 1.000
#> SRR1177672 1 0.0000 0.764 1.000 0.000
#> SRR1177673 1 0.1633 0.768 0.976 0.024
#> SRR1177674 1 0.0000 0.764 1.000 0.000
#> SRR1177675 1 0.4939 0.770 0.892 0.108
#> SRR1177676 1 0.0000 0.764 1.000 0.000
#> SRR1177677 1 0.9209 0.670 0.664 0.336
#> SRR1177678 1 0.1633 0.768 0.976 0.024
#> SRR1177679 2 0.0000 0.873 0.000 1.000
#> SRR1177680 2 0.6887 0.723 0.184 0.816
#> SRR1177681 1 0.8386 0.722 0.732 0.268
#> SRR1177682 1 0.9209 0.670 0.664 0.336
#> SRR1177683 2 0.0000 0.873 0.000 1.000
#> SRR1177684 2 0.0000 0.873 0.000 1.000
#> SRR1177685 1 0.5059 0.770 0.888 0.112
#> SRR1177686 1 0.0000 0.764 1.000 0.000
#> SRR1177687 2 0.6887 0.723 0.184 0.816
#> SRR1177688 1 0.8207 0.730 0.744 0.256
#> SRR1177689 1 0.9522 0.629 0.628 0.372
#> SRR1177690 1 0.9522 0.629 0.628 0.372
#> SRR1177691 2 0.0000 0.873 0.000 1.000
#> SRR1177692 2 0.7674 0.657 0.224 0.776
#> SRR1177693 2 0.0000 0.873 0.000 1.000
#> SRR1177694 2 0.0000 0.873 0.000 1.000
#> SRR1177695 1 0.9522 0.629 0.628 0.372
#> SRR1177697 1 0.9248 0.666 0.660 0.340
#> SRR1177696 1 0.8327 0.725 0.736 0.264
#> SRR1177698 1 0.0000 0.764 1.000 0.000
#> SRR1177700 1 0.8499 0.718 0.724 0.276
#> SRR1177701 1 0.9393 0.649 0.644 0.356
#> SRR1177702 1 0.0000 0.764 1.000 0.000
#> SRR1177703 1 0.9393 0.649 0.644 0.356
#> SRR1177704 1 0.0000 0.764 1.000 0.000
#> SRR1177705 1 0.9358 0.654 0.648 0.352
#> SRR1177706 2 0.2948 0.851 0.052 0.948
#> SRR1177707 1 0.9393 0.649 0.644 0.356
#> SRR1177708 1 0.7528 0.747 0.784 0.216
#> SRR1177709 1 0.7453 0.749 0.788 0.212
#> SRR1177710 1 0.0376 0.764 0.996 0.004
#> SRR1177711 1 0.3733 0.770 0.928 0.072
#> SRR1177712 1 0.1184 0.767 0.984 0.016
#> SRR1177714 2 0.0000 0.873 0.000 1.000
#> SRR1177713 1 0.0000 0.764 1.000 0.000
#> SRR1177715 2 0.0672 0.871 0.008 0.992
#> SRR1177716 1 0.0000 0.764 1.000 0.000
#> SRR1177717 1 0.8713 0.707 0.708 0.292
#> SRR1177718 1 0.1633 0.768 0.976 0.024
#> SRR1177719 1 0.7674 0.745 0.776 0.224
#> SRR1177720 1 0.0000 0.764 1.000 0.000
#> SRR1177721 2 0.0000 0.873 0.000 1.000
#> SRR1177722 2 0.0000 0.873 0.000 1.000
#> SRR1177723 1 0.8909 0.695 0.692 0.308
#> SRR1177725 1 0.8713 0.707 0.708 0.292
#> SRR1177724 1 0.8909 0.695 0.692 0.308
#> SRR1177726 1 0.0000 0.764 1.000 0.000
#> SRR1177727 1 0.1414 0.767 0.980 0.020
#> SRR1177728 1 0.0000 0.764 1.000 0.000
#> SRR1177729 1 0.8713 0.707 0.708 0.292
#> SRR1177730 1 0.0000 0.764 1.000 0.000
#> SRR1177731 1 0.0376 0.764 0.996 0.004
#> SRR1177732 1 0.0000 0.764 1.000 0.000
#> SRR1177733 1 0.9000 0.690 0.684 0.316
#> SRR1177734 1 0.9000 0.690 0.684 0.316
#> SRR1177735 1 0.9850 0.530 0.572 0.428
#> SRR1177736 1 0.7602 0.746 0.780 0.220
#> SRR1177737 2 0.0000 0.873 0.000 1.000
#> SRR1177738 1 0.5629 0.767 0.868 0.132
#> SRR1177739 1 0.7602 0.746 0.780 0.220
#> SRR1177740 1 0.9358 0.654 0.648 0.352
#> SRR1177741 1 0.1633 0.768 0.976 0.024
#> SRR1177742 1 0.0000 0.764 1.000 0.000
#> SRR1177743 1 0.0000 0.764 1.000 0.000
#> SRR1177744 1 0.0000 0.764 1.000 0.000
#> SRR1177745 2 0.8327 0.568 0.264 0.736
#> SRR1177746 2 0.6887 0.723 0.184 0.816
#> SRR1177747 1 0.0000 0.764 1.000 0.000
#> SRR1177748 1 0.0000 0.764 1.000 0.000
#> SRR1177749 1 0.1633 0.768 0.976 0.024
#> SRR1177750 1 0.8207 0.730 0.744 0.256
#> SRR1177751 1 0.9522 0.629 0.628 0.372
#> SRR1177752 1 0.6623 0.762 0.828 0.172
#> SRR1177753 1 0.8207 0.730 0.744 0.256
#> SRR1177754 1 0.0376 0.764 0.996 0.004
#> SRR1177755 1 0.9248 0.666 0.660 0.340
#> SRR1177756 1 0.9248 0.666 0.660 0.340
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0237 0.7997 0.004 0.996 0.000
#> SRR1026871 2 0.0237 0.7997 0.004 0.996 0.000
#> SRR1026872 2 0.0237 0.7997 0.004 0.996 0.000
#> SRR1026873 1 0.4842 0.5635 0.776 0.000 0.224
#> SRR1026874 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1026875 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1026877 3 0.1529 0.8322 0.040 0.000 0.960
#> SRR1026878 3 0.1529 0.8322 0.040 0.000 0.960
#> SRR1026879 3 0.6309 0.2420 0.500 0.000 0.500
#> SRR1026880 1 0.6309 -0.2636 0.500 0.000 0.500
#> SRR1026881 2 0.3038 0.7772 0.104 0.896 0.000
#> SRR1026882 2 0.3038 0.7772 0.104 0.896 0.000
#> SRR1026883 1 0.4605 0.7066 0.796 0.204 0.000
#> SRR1026884 1 0.4605 0.7066 0.796 0.204 0.000
#> SRR1026885 1 0.3619 0.7704 0.864 0.136 0.000
#> SRR1026886 1 0.3619 0.7704 0.864 0.136 0.000
#> SRR1026887 3 0.2356 0.8267 0.072 0.000 0.928
#> SRR1026888 3 0.2356 0.8267 0.072 0.000 0.928
#> SRR1026889 2 0.2796 0.7837 0.092 0.908 0.000
#> SRR1026890 1 0.4002 0.7520 0.840 0.160 0.000
#> SRR1026891 1 0.3112 0.7375 0.900 0.004 0.096
#> SRR1026892 1 0.3112 0.7375 0.900 0.004 0.096
#> SRR1026893 3 0.2356 0.8267 0.072 0.000 0.928
#> SRR1026894 3 0.2356 0.8267 0.072 0.000 0.928
#> SRR1026895 1 0.5138 0.6296 0.748 0.252 0.000
#> SRR1026896 1 0.5138 0.6296 0.748 0.252 0.000
#> SRR1026897 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1026898 1 0.3805 0.7587 0.884 0.024 0.092
#> SRR1026899 3 0.6305 0.2641 0.484 0.000 0.516
#> SRR1026900 2 0.6126 0.4740 0.400 0.600 0.000
#> SRR1026901 2 0.6309 0.1876 0.500 0.500 0.000
#> SRR1026902 1 0.4821 0.7770 0.848 0.064 0.088
#> SRR1026903 1 0.4821 0.7770 0.848 0.064 0.088
#> SRR1026904 1 0.3941 0.7552 0.844 0.156 0.000
#> SRR1026905 1 0.3941 0.7552 0.844 0.156 0.000
#> SRR1026906 2 0.1289 0.8075 0.032 0.968 0.000
#> SRR1026907 2 0.1289 0.8075 0.032 0.968 0.000
#> SRR1026908 2 0.0237 0.7997 0.004 0.996 0.000
#> SRR1026909 2 0.0237 0.7997 0.004 0.996 0.000
#> SRR1026910 1 0.4291 0.7319 0.820 0.180 0.000
#> SRR1026911 1 0.4291 0.7319 0.820 0.180 0.000
#> SRR1026912 3 0.1860 0.8305 0.052 0.000 0.948
#> SRR1026913 3 0.1860 0.8305 0.052 0.000 0.948
#> SRR1026914 2 0.1411 0.8076 0.036 0.964 0.000
#> SRR1026915 2 0.1411 0.8076 0.036 0.964 0.000
#> SRR1026916 2 0.1411 0.8076 0.036 0.964 0.000
#> SRR1026917 2 0.1411 0.8076 0.036 0.964 0.000
#> SRR1026918 2 0.5529 0.6345 0.296 0.704 0.000
#> SRR1026919 2 0.5529 0.6345 0.296 0.704 0.000
#> SRR1026920 2 0.5465 0.6440 0.288 0.712 0.000
#> SRR1026921 2 0.5465 0.6440 0.288 0.712 0.000
#> SRR1026922 2 0.1289 0.8075 0.032 0.968 0.000
#> SRR1026923 2 0.1411 0.8076 0.036 0.964 0.000
#> SRR1026924 1 0.4605 0.7066 0.796 0.204 0.000
#> SRR1026925 3 0.2356 0.8267 0.072 0.000 0.928
#> SRR1026926 1 0.4605 0.7066 0.796 0.204 0.000
#> SRR1026927 1 0.3112 0.7375 0.900 0.004 0.096
#> SRR1026928 2 0.6286 0.3121 0.464 0.536 0.000
#> SRR1026929 3 0.1529 0.8322 0.040 0.000 0.960
#> SRR1026930 2 0.6180 0.4409 0.416 0.584 0.000
#> SRR1026931 2 0.0592 0.8022 0.012 0.988 0.000
#> SRR1026932 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1026934 2 0.0237 0.7997 0.004 0.996 0.000
#> SRR1026935 2 0.0237 0.7997 0.004 0.996 0.000
#> SRR1026936 1 0.4605 0.7066 0.796 0.204 0.000
#> SRR1026937 1 0.4605 0.7066 0.796 0.204 0.000
#> SRR1026938 2 0.1289 0.8075 0.032 0.968 0.000
#> SRR1026939 2 0.1289 0.8075 0.032 0.968 0.000
#> SRR1026940 1 0.4544 0.7774 0.860 0.056 0.084
#> SRR1026941 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1026942 1 0.3918 0.6943 0.856 0.004 0.140
#> SRR1026943 1 0.2625 0.7914 0.916 0.084 0.000
#> SRR1026944 1 0.3918 0.6943 0.856 0.004 0.140
#> SRR1026945 3 0.6309 0.2554 0.496 0.000 0.504
#> SRR1026947 2 0.0237 0.7997 0.004 0.996 0.000
#> SRR1026946 2 0.1289 0.8075 0.032 0.968 0.000
#> SRR1026948 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1026949 1 0.4399 0.7283 0.812 0.188 0.000
#> SRR1026950 1 0.2625 0.7914 0.916 0.084 0.000
#> SRR1026951 1 0.6235 0.0695 0.564 0.436 0.000
#> SRR1026952 1 0.3918 0.6943 0.856 0.004 0.140
#> SRR1026953 3 0.1289 0.8259 0.032 0.000 0.968
#> SRR1026954 1 0.3619 0.7720 0.864 0.136 0.000
#> SRR1026955 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1026956 1 0.3030 0.7401 0.904 0.004 0.092
#> SRR1026957 2 0.4796 0.7040 0.220 0.780 0.000
#> SRR1026958 1 0.3038 0.7876 0.896 0.104 0.000
#> SRR1026959 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1026960 2 0.6286 0.3164 0.464 0.536 0.000
#> SRR1026961 2 0.6286 0.3164 0.464 0.536 0.000
#> SRR1026962 1 0.3879 0.6731 0.848 0.000 0.152
#> SRR1026963 1 0.5216 0.5051 0.740 0.000 0.260
#> SRR1026964 1 0.4605 0.7066 0.796 0.204 0.000
#> SRR1026965 1 0.4605 0.7066 0.796 0.204 0.000
#> SRR1026966 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1026968 1 0.4452 0.7225 0.808 0.192 0.000
#> SRR1026969 1 0.3752 0.7668 0.856 0.144 0.000
#> SRR1026970 1 0.3267 0.7823 0.884 0.116 0.000
#> SRR1026971 1 0.3267 0.7823 0.884 0.116 0.000
#> SRR1026972 1 0.7398 0.6490 0.700 0.120 0.180
#> SRR1026973 1 0.7398 0.6490 0.700 0.120 0.180
#> SRR1026974 1 0.3349 0.7273 0.888 0.004 0.108
#> SRR1026975 1 0.3349 0.7273 0.888 0.004 0.108
#> SRR1026976 1 0.3551 0.7732 0.868 0.132 0.000
#> SRR1026977 1 0.3551 0.7732 0.868 0.132 0.000
#> SRR1026978 2 0.6286 0.3201 0.464 0.536 0.000
#> SRR1026979 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1026980 1 0.8192 0.5398 0.636 0.220 0.144
#> SRR1026981 1 0.8227 0.2814 0.536 0.080 0.384
#> SRR1026982 1 0.5291 0.5911 0.732 0.268 0.000
#> SRR1026983 1 0.5291 0.5911 0.732 0.268 0.000
#> SRR1026984 2 0.6286 0.3164 0.464 0.536 0.000
#> SRR1026985 2 0.6286 0.3164 0.464 0.536 0.000
#> SRR1026986 2 0.6286 0.3164 0.464 0.536 0.000
#> SRR1026987 1 0.3038 0.7876 0.896 0.104 0.000
#> SRR1026988 1 0.4702 0.5826 0.788 0.000 0.212
#> SRR1026989 3 0.2261 0.8242 0.068 0.000 0.932
#> SRR1026990 1 0.3267 0.7823 0.884 0.116 0.000
#> SRR1026991 3 0.5254 0.6361 0.264 0.000 0.736
#> SRR1026992 1 0.2774 0.7580 0.920 0.008 0.072
#> SRR1026993 1 0.2796 0.7892 0.908 0.092 0.000
#> SRR1026994 1 0.8112 0.5636 0.648 0.192 0.160
#> SRR1026995 1 0.8017 0.6064 0.652 0.140 0.208
#> SRR1026996 1 0.3551 0.7735 0.868 0.132 0.000
#> SRR1026997 1 0.3551 0.7735 0.868 0.132 0.000
#> SRR1026998 3 0.1529 0.8322 0.040 0.000 0.960
#> SRR1026999 3 0.1529 0.8322 0.040 0.000 0.960
#> SRR1027000 1 0.2711 0.7904 0.912 0.088 0.000
#> SRR1027001 3 0.6180 0.3936 0.416 0.000 0.584
#> SRR1027002 2 0.6225 0.4045 0.432 0.568 0.000
#> SRR1027003 2 0.6295 0.2948 0.472 0.528 0.000
#> SRR1027004 1 0.4475 0.7889 0.864 0.072 0.064
#> SRR1027005 3 0.1529 0.8322 0.040 0.000 0.960
#> SRR1027006 1 0.4605 0.5973 0.796 0.000 0.204
#> SRR1027007 2 0.6302 0.2670 0.480 0.520 0.000
#> SRR1027008 1 0.3038 0.7876 0.896 0.104 0.000
#> SRR1027009 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1027010 1 0.6309 -0.2636 0.500 0.000 0.500
#> SRR1027011 3 0.1163 0.8263 0.028 0.000 0.972
#> SRR1177668 3 0.6111 0.4329 0.396 0.000 0.604
#> SRR1177667 1 0.3686 0.6899 0.860 0.000 0.140
#> SRR1177669 1 0.6291 -0.1475 0.532 0.000 0.468
#> SRR1177670 3 0.6291 0.3212 0.468 0.000 0.532
#> SRR1177671 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1177672 3 0.6204 0.3819 0.424 0.000 0.576
#> SRR1177673 1 0.5517 0.4862 0.728 0.004 0.268
#> SRR1177674 3 0.5988 0.4814 0.368 0.000 0.632
#> SRR1177675 1 0.3686 0.6899 0.860 0.000 0.140
#> SRR1177676 1 0.6309 -0.2636 0.500 0.000 0.500
#> SRR1177677 1 0.2711 0.7904 0.912 0.088 0.000
#> SRR1177678 1 0.4842 0.5635 0.776 0.000 0.224
#> SRR1177679 2 0.1031 0.8059 0.024 0.976 0.000
#> SRR1177680 2 0.6140 0.4548 0.404 0.596 0.000
#> SRR1177681 1 0.4179 0.7910 0.876 0.072 0.052
#> SRR1177682 1 0.2711 0.7904 0.912 0.088 0.000
#> SRR1177683 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1177684 2 0.0424 0.8011 0.008 0.992 0.000
#> SRR1177685 1 0.3619 0.6946 0.864 0.000 0.136
#> SRR1177686 3 0.1529 0.8322 0.040 0.000 0.960
#> SRR1177687 2 0.6140 0.4548 0.404 0.596 0.000
#> SRR1177688 1 0.3481 0.7925 0.904 0.052 0.044
#> SRR1177689 1 0.3482 0.7773 0.872 0.128 0.000
#> SRR1177690 1 0.3482 0.7773 0.872 0.128 0.000
#> SRR1177691 2 0.1031 0.8059 0.024 0.976 0.000
#> SRR1177692 2 0.6260 0.3443 0.448 0.552 0.000
#> SRR1177693 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1177694 2 0.1411 0.8076 0.036 0.964 0.000
#> SRR1177695 1 0.3482 0.7773 0.872 0.128 0.000
#> SRR1177697 1 0.2796 0.7892 0.908 0.092 0.000
#> SRR1177696 1 0.4281 0.7904 0.872 0.072 0.056
#> SRR1177698 3 0.1163 0.8263 0.028 0.000 0.972
#> SRR1177700 1 0.3967 0.7922 0.884 0.072 0.044
#> SRR1177701 1 0.3116 0.7858 0.892 0.108 0.000
#> SRR1177702 3 0.1529 0.8322 0.040 0.000 0.960
#> SRR1177703 1 0.3116 0.7858 0.892 0.108 0.000
#> SRR1177704 3 0.1529 0.8322 0.040 0.000 0.960
#> SRR1177705 1 0.3038 0.7876 0.896 0.104 0.000
#> SRR1177706 2 0.5254 0.6688 0.264 0.736 0.000
#> SRR1177707 1 0.3116 0.7858 0.892 0.108 0.000
#> SRR1177708 1 0.4628 0.7749 0.856 0.056 0.088
#> SRR1177709 1 0.4709 0.7737 0.852 0.056 0.092
#> SRR1177710 1 0.6291 -0.1475 0.532 0.000 0.468
#> SRR1177711 1 0.4235 0.6408 0.824 0.000 0.176
#> SRR1177712 3 0.3116 0.8005 0.108 0.000 0.892
#> SRR1177714 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1177713 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1177715 2 0.4605 0.7181 0.204 0.796 0.000
#> SRR1177716 3 0.1753 0.8309 0.048 0.000 0.952
#> SRR1177717 1 0.1643 0.7907 0.956 0.044 0.000
#> SRR1177718 1 0.4842 0.5635 0.776 0.000 0.224
#> SRR1177719 1 0.3237 0.7821 0.912 0.032 0.056
#> SRR1177720 3 0.1529 0.8322 0.040 0.000 0.960
#> SRR1177721 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.7973 0.000 1.000 0.000
#> SRR1177723 1 0.2066 0.7922 0.940 0.060 0.000
#> SRR1177725 1 0.1643 0.7907 0.956 0.044 0.000
#> SRR1177724 1 0.2066 0.7922 0.940 0.060 0.000
#> SRR1177726 3 0.1289 0.8259 0.032 0.000 0.968
#> SRR1177727 1 0.5216 0.5051 0.740 0.000 0.260
#> SRR1177728 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1177729 1 0.1643 0.7907 0.956 0.044 0.000
#> SRR1177730 3 0.6225 0.3616 0.432 0.000 0.568
#> SRR1177731 1 0.6291 -0.1475 0.532 0.000 0.468
#> SRR1177732 3 0.6180 0.3936 0.416 0.000 0.584
#> SRR1177733 1 0.2866 0.7938 0.916 0.076 0.008
#> SRR1177734 1 0.2866 0.7938 0.916 0.076 0.008
#> SRR1177735 1 0.4399 0.7283 0.812 0.188 0.000
#> SRR1177736 1 0.4544 0.7774 0.860 0.056 0.084
#> SRR1177737 2 0.1411 0.8076 0.036 0.964 0.000
#> SRR1177738 3 0.6161 0.5940 0.272 0.020 0.708
#> SRR1177739 1 0.4544 0.7774 0.860 0.056 0.084
#> SRR1177740 1 0.3038 0.7876 0.896 0.104 0.000
#> SRR1177741 1 0.4842 0.5635 0.776 0.000 0.224
#> SRR1177742 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1177743 3 0.6305 0.2641 0.484 0.000 0.516
#> SRR1177744 3 0.6305 0.2641 0.484 0.000 0.516
#> SRR1177745 2 0.6309 0.1862 0.496 0.504 0.000
#> SRR1177746 2 0.6140 0.4548 0.404 0.596 0.000
#> SRR1177747 3 0.6309 0.2554 0.496 0.000 0.504
#> SRR1177748 3 0.0000 0.8216 0.000 0.000 1.000
#> SRR1177749 1 0.4842 0.5635 0.776 0.000 0.224
#> SRR1177750 1 0.3481 0.7925 0.904 0.052 0.044
#> SRR1177751 1 0.3482 0.7773 0.872 0.128 0.000
#> SRR1177752 1 0.3043 0.7504 0.908 0.008 0.084
#> SRR1177753 1 0.3481 0.7925 0.904 0.052 0.044
#> SRR1177754 1 0.6291 -0.1475 0.532 0.000 0.468
#> SRR1177755 1 0.2796 0.7892 0.908 0.092 0.000
#> SRR1177756 1 0.2796 0.7892 0.908 0.092 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.1305 0.83340 0.036 0.960 0.004 0.000
#> SRR1026871 2 0.1305 0.83340 0.036 0.960 0.004 0.000
#> SRR1026872 2 0.1305 0.83340 0.036 0.960 0.004 0.000
#> SRR1026873 1 0.5268 0.23335 0.540 0.000 0.452 0.008
#> SRR1026874 4 0.0817 0.65990 0.000 0.000 0.024 0.976
#> SRR1026875 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1026876 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1026877 3 0.4661 0.41732 0.000 0.000 0.652 0.348
#> SRR1026878 3 0.4661 0.41732 0.000 0.000 0.652 0.348
#> SRR1026879 3 0.7557 0.25088 0.284 0.000 0.484 0.232
#> SRR1026880 3 0.7557 0.25088 0.284 0.000 0.484 0.232
#> SRR1026881 2 0.3172 0.79868 0.160 0.840 0.000 0.000
#> SRR1026882 2 0.3172 0.79868 0.160 0.840 0.000 0.000
#> SRR1026883 1 0.2530 0.73564 0.888 0.112 0.000 0.000
#> SRR1026884 1 0.2530 0.73564 0.888 0.112 0.000 0.000
#> SRR1026885 1 0.1576 0.76335 0.948 0.048 0.004 0.000
#> SRR1026886 1 0.1576 0.76335 0.948 0.048 0.004 0.000
#> SRR1026887 3 0.5233 0.42186 0.020 0.000 0.648 0.332
#> SRR1026888 3 0.5233 0.42186 0.020 0.000 0.648 0.332
#> SRR1026889 2 0.2868 0.81381 0.136 0.864 0.000 0.000
#> SRR1026890 1 0.2053 0.75747 0.924 0.072 0.004 0.000
#> SRR1026891 1 0.4193 0.59624 0.732 0.000 0.268 0.000
#> SRR1026892 1 0.4193 0.59624 0.732 0.000 0.268 0.000
#> SRR1026893 3 0.5233 0.42186 0.020 0.000 0.648 0.332
#> SRR1026894 3 0.5233 0.42186 0.020 0.000 0.648 0.332
#> SRR1026895 1 0.3172 0.68829 0.840 0.160 0.000 0.000
#> SRR1026896 1 0.3172 0.68829 0.840 0.160 0.000 0.000
#> SRR1026897 4 0.1118 0.65440 0.000 0.000 0.036 0.964
#> SRR1026898 1 0.3311 0.68764 0.828 0.000 0.172 0.000
#> SRR1026899 3 0.7640 0.22769 0.280 0.000 0.468 0.252
#> SRR1026900 2 0.4996 0.23716 0.484 0.516 0.000 0.000
#> SRR1026901 1 0.4888 0.14278 0.588 0.412 0.000 0.000
#> SRR1026902 1 0.3495 0.71278 0.844 0.016 0.140 0.000
#> SRR1026903 1 0.3495 0.71278 0.844 0.016 0.140 0.000
#> SRR1026904 1 0.1978 0.75848 0.928 0.068 0.004 0.000
#> SRR1026905 1 0.1978 0.75848 0.928 0.068 0.004 0.000
#> SRR1026906 2 0.2149 0.84192 0.088 0.912 0.000 0.000
#> SRR1026907 2 0.2149 0.84192 0.088 0.912 0.000 0.000
#> SRR1026908 2 0.1118 0.83412 0.036 0.964 0.000 0.000
#> SRR1026909 2 0.1118 0.83412 0.036 0.964 0.000 0.000
#> SRR1026910 1 0.2149 0.75101 0.912 0.088 0.000 0.000
#> SRR1026911 1 0.2149 0.75101 0.912 0.088 0.000 0.000
#> SRR1026912 3 0.5038 0.42807 0.012 0.000 0.652 0.336
#> SRR1026913 3 0.5038 0.42807 0.012 0.000 0.652 0.336
#> SRR1026914 2 0.2149 0.84190 0.088 0.912 0.000 0.000
#> SRR1026915 2 0.2149 0.84190 0.088 0.912 0.000 0.000
#> SRR1026916 2 0.2149 0.84190 0.088 0.912 0.000 0.000
#> SRR1026917 2 0.2149 0.84190 0.088 0.912 0.000 0.000
#> SRR1026918 2 0.4790 0.50824 0.380 0.620 0.000 0.000
#> SRR1026919 2 0.4790 0.50824 0.380 0.620 0.000 0.000
#> SRR1026920 2 0.4746 0.53222 0.368 0.632 0.000 0.000
#> SRR1026921 2 0.4746 0.53222 0.368 0.632 0.000 0.000
#> SRR1026922 2 0.2149 0.84192 0.088 0.912 0.000 0.000
#> SRR1026923 2 0.2216 0.84053 0.092 0.908 0.000 0.000
#> SRR1026924 1 0.2530 0.73564 0.888 0.112 0.000 0.000
#> SRR1026925 3 0.5233 0.42186 0.020 0.000 0.648 0.332
#> SRR1026926 1 0.2530 0.73564 0.888 0.112 0.000 0.000
#> SRR1026927 1 0.4193 0.59624 0.732 0.000 0.268 0.000
#> SRR1026928 1 0.4967 -0.01402 0.548 0.452 0.000 0.000
#> SRR1026929 3 0.4661 0.41732 0.000 0.000 0.652 0.348
#> SRR1026930 2 0.5000 0.18496 0.500 0.500 0.000 0.000
#> SRR1026931 2 0.1489 0.83631 0.044 0.952 0.004 0.000
#> SRR1026932 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1026933 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1026934 2 0.1118 0.83412 0.036 0.964 0.000 0.000
#> SRR1026935 2 0.1118 0.83412 0.036 0.964 0.000 0.000
#> SRR1026936 1 0.2530 0.73564 0.888 0.112 0.000 0.000
#> SRR1026937 1 0.2530 0.73564 0.888 0.112 0.000 0.000
#> SRR1026938 2 0.2149 0.84192 0.088 0.912 0.000 0.000
#> SRR1026939 2 0.2149 0.84192 0.088 0.912 0.000 0.000
#> SRR1026940 1 0.3196 0.71271 0.856 0.008 0.136 0.000
#> SRR1026941 4 0.0000 0.67944 0.000 0.000 0.000 1.000
#> SRR1026942 1 0.4222 0.58125 0.728 0.000 0.272 0.000
#> SRR1026943 1 0.1798 0.75997 0.944 0.016 0.040 0.000
#> SRR1026944 1 0.4222 0.58125 0.728 0.000 0.272 0.000
#> SRR1026945 3 0.7520 0.25295 0.280 0.000 0.492 0.228
#> SRR1026947 2 0.1118 0.83412 0.036 0.964 0.000 0.000
#> SRR1026946 2 0.2149 0.84192 0.088 0.912 0.000 0.000
#> SRR1026948 2 0.1488 0.80442 0.012 0.956 0.032 0.000
#> SRR1026949 1 0.2281 0.74874 0.904 0.096 0.000 0.000
#> SRR1026950 1 0.1888 0.75942 0.940 0.016 0.044 0.000
#> SRR1026951 1 0.4643 0.34242 0.656 0.344 0.000 0.000
#> SRR1026952 1 0.4222 0.58125 0.728 0.000 0.272 0.000
#> SRR1026953 4 0.1767 0.66574 0.012 0.000 0.044 0.944
#> SRR1026954 1 0.1722 0.76482 0.944 0.048 0.008 0.000
#> SRR1026955 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1026956 1 0.4193 0.59626 0.732 0.000 0.268 0.000
#> SRR1026957 2 0.4222 0.67413 0.272 0.728 0.000 0.000
#> SRR1026958 1 0.0927 0.76574 0.976 0.016 0.008 0.000
#> SRR1026959 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1026960 1 0.4967 -0.01657 0.548 0.452 0.000 0.000
#> SRR1026961 1 0.4967 -0.01657 0.548 0.452 0.000 0.000
#> SRR1026962 1 0.4477 0.52491 0.688 0.000 0.312 0.000
#> SRR1026963 1 0.5296 0.13975 0.500 0.000 0.492 0.008
#> SRR1026964 1 0.2530 0.73564 0.888 0.112 0.000 0.000
#> SRR1026965 1 0.2530 0.73564 0.888 0.112 0.000 0.000
#> SRR1026966 4 0.0000 0.67944 0.000 0.000 0.000 1.000
#> SRR1026967 4 0.0000 0.67944 0.000 0.000 0.000 1.000
#> SRR1026968 1 0.2345 0.74698 0.900 0.100 0.000 0.000
#> SRR1026969 1 0.1890 0.76321 0.936 0.056 0.008 0.000
#> SRR1026970 1 0.1488 0.76649 0.956 0.032 0.012 0.000
#> SRR1026971 1 0.1488 0.76649 0.956 0.032 0.012 0.000
#> SRR1026972 1 0.5854 0.61899 0.728 0.060 0.184 0.028
#> SRR1026973 1 0.5854 0.61899 0.728 0.060 0.184 0.028
#> SRR1026974 1 0.4331 0.57154 0.712 0.000 0.288 0.000
#> SRR1026975 1 0.4331 0.57154 0.712 0.000 0.288 0.000
#> SRR1026976 1 0.1489 0.76419 0.952 0.044 0.004 0.000
#> SRR1026977 1 0.1489 0.76419 0.952 0.044 0.004 0.000
#> SRR1026978 1 0.4961 -0.00769 0.552 0.448 0.000 0.000
#> SRR1026979 4 0.0000 0.67944 0.000 0.000 0.000 1.000
#> SRR1026980 1 0.6128 0.60832 0.728 0.128 0.112 0.032
#> SRR1026981 1 0.7836 0.27594 0.552 0.036 0.256 0.156
#> SRR1026982 1 0.3356 0.66140 0.824 0.176 0.000 0.000
#> SRR1026983 1 0.3356 0.66140 0.824 0.176 0.000 0.000
#> SRR1026984 1 0.4967 -0.01657 0.548 0.452 0.000 0.000
#> SRR1026985 1 0.4967 -0.01657 0.548 0.452 0.000 0.000
#> SRR1026986 1 0.4967 -0.01657 0.548 0.452 0.000 0.000
#> SRR1026987 1 0.0927 0.76574 0.976 0.016 0.008 0.000
#> SRR1026988 1 0.5250 0.26189 0.552 0.000 0.440 0.008
#> SRR1026989 3 0.5571 0.39943 0.024 0.000 0.580 0.396
#> SRR1026990 1 0.1488 0.76649 0.956 0.032 0.012 0.000
#> SRR1026991 4 0.6635 0.31451 0.152 0.000 0.228 0.620
#> SRR1026992 1 0.3610 0.66034 0.800 0.000 0.200 0.000
#> SRR1026993 1 0.2214 0.76261 0.928 0.028 0.044 0.000
#> SRR1026994 1 0.6068 0.61331 0.732 0.104 0.132 0.032
#> SRR1026995 1 0.6402 0.57809 0.688 0.076 0.204 0.032
#> SRR1026996 1 0.1489 0.76444 0.952 0.044 0.004 0.000
#> SRR1026997 1 0.1489 0.76444 0.952 0.044 0.004 0.000
#> SRR1026998 3 0.4661 0.41732 0.000 0.000 0.652 0.348
#> SRR1026999 3 0.4661 0.41732 0.000 0.000 0.652 0.348
#> SRR1027000 1 0.1520 0.76470 0.956 0.020 0.024 0.000
#> SRR1027001 4 0.7658 0.13957 0.236 0.000 0.308 0.456
#> SRR1027002 1 0.4996 -0.15038 0.516 0.484 0.000 0.000
#> SRR1027003 1 0.4948 0.02712 0.560 0.440 0.000 0.000
#> SRR1027004 1 0.2741 0.73678 0.892 0.012 0.096 0.000
#> SRR1027005 3 0.4843 0.39686 0.000 0.000 0.604 0.396
#> SRR1027006 1 0.5236 0.28441 0.560 0.000 0.432 0.008
#> SRR1027007 1 0.4933 0.05760 0.568 0.432 0.000 0.000
#> SRR1027008 1 0.0927 0.76574 0.976 0.016 0.008 0.000
#> SRR1027009 4 0.0000 0.67944 0.000 0.000 0.000 1.000
#> SRR1027010 3 0.7557 0.25088 0.284 0.000 0.484 0.232
#> SRR1027011 4 0.1545 0.66914 0.008 0.000 0.040 0.952
#> SRR1177668 4 0.7587 0.16002 0.232 0.000 0.292 0.476
#> SRR1177667 1 0.4304 0.56608 0.716 0.000 0.284 0.000
#> SRR1177669 3 0.7429 0.26299 0.316 0.000 0.492 0.192
#> SRR1177670 3 0.7628 0.20375 0.260 0.000 0.472 0.268
#> SRR1177671 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1177672 4 0.7731 0.09475 0.240 0.000 0.332 0.428
#> SRR1177673 1 0.5992 0.16086 0.516 0.000 0.444 0.040
#> SRR1177674 4 0.7049 0.29402 0.192 0.000 0.236 0.572
#> SRR1177675 1 0.4331 0.56119 0.712 0.000 0.288 0.000
#> SRR1177676 3 0.7557 0.25088 0.284 0.000 0.484 0.232
#> SRR1177677 1 0.1520 0.76470 0.956 0.020 0.024 0.000
#> SRR1177678 1 0.5268 0.23335 0.540 0.000 0.452 0.008
#> SRR1177679 2 0.1940 0.84138 0.076 0.924 0.000 0.000
#> SRR1177680 2 0.4999 0.18657 0.492 0.508 0.000 0.000
#> SRR1177681 1 0.2542 0.74271 0.904 0.012 0.084 0.000
#> SRR1177682 1 0.1520 0.76470 0.956 0.020 0.024 0.000
#> SRR1177683 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1177684 2 0.1489 0.83636 0.044 0.952 0.004 0.000
#> SRR1177685 1 0.4304 0.56747 0.716 0.000 0.284 0.000
#> SRR1177686 3 0.4843 0.39686 0.000 0.000 0.604 0.396
#> SRR1177687 2 0.4999 0.18657 0.492 0.508 0.000 0.000
#> SRR1177688 1 0.2334 0.74100 0.908 0.004 0.088 0.000
#> SRR1177689 1 0.1398 0.76633 0.956 0.040 0.004 0.000
#> SRR1177690 1 0.1398 0.76633 0.956 0.040 0.004 0.000
#> SRR1177691 2 0.1940 0.84138 0.076 0.924 0.000 0.000
#> SRR1177692 1 0.4981 -0.03865 0.536 0.464 0.000 0.000
#> SRR1177693 2 0.1004 0.82567 0.024 0.972 0.004 0.000
#> SRR1177694 2 0.2216 0.84053 0.092 0.908 0.000 0.000
#> SRR1177695 1 0.1398 0.76633 0.956 0.040 0.004 0.000
#> SRR1177697 1 0.2214 0.76261 0.928 0.028 0.044 0.000
#> SRR1177696 1 0.2610 0.74061 0.900 0.012 0.088 0.000
#> SRR1177698 4 0.1545 0.66914 0.008 0.000 0.040 0.952
#> SRR1177700 1 0.2402 0.74628 0.912 0.012 0.076 0.000
#> SRR1177701 1 0.1284 0.76641 0.964 0.024 0.012 0.000
#> SRR1177702 3 0.4643 0.40445 0.000 0.000 0.656 0.344
#> SRR1177703 1 0.1284 0.76641 0.964 0.024 0.012 0.000
#> SRR1177704 3 0.4643 0.41789 0.000 0.000 0.656 0.344
#> SRR1177705 1 0.0927 0.76574 0.976 0.016 0.008 0.000
#> SRR1177706 2 0.4624 0.57848 0.340 0.660 0.000 0.000
#> SRR1177707 1 0.1284 0.76641 0.964 0.024 0.012 0.000
#> SRR1177708 1 0.3249 0.70954 0.852 0.008 0.140 0.000
#> SRR1177709 1 0.3300 0.70826 0.848 0.008 0.144 0.000
#> SRR1177710 3 0.7429 0.26299 0.316 0.000 0.492 0.192
#> SRR1177711 1 0.4877 0.35909 0.592 0.000 0.408 0.000
#> SRR1177712 3 0.6265 0.38964 0.072 0.000 0.588 0.340
#> SRR1177714 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1177713 4 0.1118 0.65440 0.000 0.000 0.036 0.964
#> SRR1177715 2 0.4250 0.67410 0.276 0.724 0.000 0.000
#> SRR1177716 3 0.5161 0.39560 0.008 0.000 0.592 0.400
#> SRR1177717 1 0.1940 0.74147 0.924 0.000 0.076 0.000
#> SRR1177718 1 0.5268 0.23335 0.540 0.000 0.452 0.008
#> SRR1177719 1 0.3123 0.69692 0.844 0.000 0.156 0.000
#> SRR1177720 3 0.4643 0.41789 0.000 0.000 0.656 0.344
#> SRR1177721 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1177722 2 0.1211 0.79189 0.000 0.960 0.040 0.000
#> SRR1177723 1 0.1389 0.75203 0.952 0.000 0.048 0.000
#> SRR1177725 1 0.1940 0.74147 0.924 0.000 0.076 0.000
#> SRR1177724 1 0.1389 0.75203 0.952 0.000 0.048 0.000
#> SRR1177726 4 0.1767 0.66574 0.012 0.000 0.044 0.944
#> SRR1177727 1 0.5295 0.14710 0.504 0.000 0.488 0.008
#> SRR1177728 4 0.0000 0.67944 0.000 0.000 0.000 1.000
#> SRR1177729 1 0.1940 0.74147 0.924 0.000 0.076 0.000
#> SRR1177730 4 0.7763 0.07659 0.248 0.000 0.332 0.420
#> SRR1177731 3 0.7429 0.26299 0.316 0.000 0.492 0.192
#> SRR1177732 4 0.7689 0.11897 0.236 0.000 0.320 0.444
#> SRR1177733 1 0.1584 0.76122 0.952 0.012 0.036 0.000
#> SRR1177734 1 0.1584 0.76122 0.952 0.012 0.036 0.000
#> SRR1177735 1 0.2281 0.74874 0.904 0.096 0.000 0.000
#> SRR1177736 1 0.3196 0.71271 0.856 0.008 0.136 0.000
#> SRR1177737 2 0.2216 0.84053 0.092 0.908 0.000 0.000
#> SRR1177738 3 0.7803 0.24693 0.248 0.004 0.464 0.284
#> SRR1177739 1 0.3196 0.71271 0.856 0.008 0.136 0.000
#> SRR1177740 1 0.0927 0.76574 0.976 0.016 0.008 0.000
#> SRR1177741 1 0.5268 0.23335 0.540 0.000 0.452 0.008
#> SRR1177742 4 0.0000 0.67944 0.000 0.000 0.000 1.000
#> SRR1177743 3 0.7640 0.22769 0.280 0.000 0.468 0.252
#> SRR1177744 3 0.7640 0.22769 0.280 0.000 0.468 0.252
#> SRR1177745 1 0.4898 0.15301 0.584 0.416 0.000 0.000
#> SRR1177746 2 0.4996 0.20744 0.484 0.516 0.000 0.000
#> SRR1177747 3 0.7520 0.25295 0.280 0.000 0.492 0.228
#> SRR1177748 4 0.0000 0.67944 0.000 0.000 0.000 1.000
#> SRR1177749 1 0.5268 0.23335 0.540 0.000 0.452 0.008
#> SRR1177750 1 0.2334 0.74100 0.908 0.004 0.088 0.000
#> SRR1177751 1 0.1398 0.76633 0.956 0.040 0.004 0.000
#> SRR1177752 1 0.3764 0.64558 0.784 0.000 0.216 0.000
#> SRR1177753 1 0.2334 0.74100 0.908 0.004 0.088 0.000
#> SRR1177754 3 0.7429 0.26299 0.316 0.000 0.492 0.192
#> SRR1177755 1 0.2214 0.76261 0.928 0.028 0.044 0.000
#> SRR1177756 1 0.2214 0.76261 0.928 0.028 0.044 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.1124 0.85182 0.004 0.960 0.000 0.036 0.000
#> SRR1026871 2 0.1124 0.85182 0.004 0.960 0.000 0.036 0.000
#> SRR1026872 2 0.1124 0.85182 0.004 0.960 0.000 0.036 0.000
#> SRR1026873 1 0.6155 0.67686 0.516 0.000 0.148 0.336 0.000
#> SRR1026874 5 0.1582 0.76275 0.028 0.000 0.028 0.000 0.944
#> SRR1026875 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1026876 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1026877 3 0.0290 0.89560 0.000 0.000 0.992 0.000 0.008
#> SRR1026878 3 0.0290 0.89560 0.000 0.000 0.992 0.000 0.008
#> SRR1026879 1 0.7791 0.68008 0.476 0.000 0.180 0.124 0.220
#> SRR1026880 1 0.7791 0.68008 0.476 0.000 0.180 0.124 0.220
#> SRR1026881 2 0.2813 0.79939 0.000 0.832 0.000 0.168 0.000
#> SRR1026882 2 0.2813 0.79939 0.000 0.832 0.000 0.168 0.000
#> SRR1026883 4 0.1908 0.72741 0.000 0.092 0.000 0.908 0.000
#> SRR1026884 4 0.1908 0.72741 0.000 0.092 0.000 0.908 0.000
#> SRR1026885 4 0.0955 0.74193 0.000 0.028 0.004 0.968 0.000
#> SRR1026886 4 0.0955 0.74193 0.000 0.028 0.004 0.968 0.000
#> SRR1026887 3 0.2900 0.87951 0.040 0.000 0.884 0.012 0.064
#> SRR1026888 3 0.2900 0.87951 0.040 0.000 0.884 0.012 0.064
#> SRR1026889 2 0.2561 0.81751 0.000 0.856 0.000 0.144 0.000
#> SRR1026890 4 0.1662 0.74004 0.004 0.056 0.004 0.936 0.000
#> SRR1026891 4 0.5139 0.31258 0.280 0.000 0.072 0.648 0.000
#> SRR1026892 4 0.5139 0.31258 0.280 0.000 0.072 0.648 0.000
#> SRR1026893 3 0.2900 0.87951 0.040 0.000 0.884 0.012 0.064
#> SRR1026894 3 0.2900 0.87951 0.040 0.000 0.884 0.012 0.064
#> SRR1026895 4 0.2516 0.70055 0.000 0.140 0.000 0.860 0.000
#> SRR1026896 4 0.2516 0.70055 0.000 0.140 0.000 0.860 0.000
#> SRR1026897 5 0.3075 0.70148 0.092 0.000 0.048 0.000 0.860
#> SRR1026898 4 0.4645 0.50136 0.204 0.000 0.072 0.724 0.000
#> SRR1026899 1 0.7806 0.65359 0.468 0.000 0.168 0.124 0.240
#> SRR1026900 4 0.4307 -0.03931 0.000 0.496 0.000 0.504 0.000
#> SRR1026901 4 0.4161 0.30645 0.000 0.392 0.000 0.608 0.000
#> SRR1026902 4 0.4269 0.62625 0.116 0.016 0.072 0.796 0.000
#> SRR1026903 4 0.4269 0.62625 0.116 0.016 0.072 0.796 0.000
#> SRR1026904 4 0.1357 0.74055 0.000 0.048 0.004 0.948 0.000
#> SRR1026905 4 0.1357 0.74055 0.000 0.048 0.004 0.948 0.000
#> SRR1026906 2 0.1851 0.85822 0.000 0.912 0.000 0.088 0.000
#> SRR1026907 2 0.1851 0.85822 0.000 0.912 0.000 0.088 0.000
#> SRR1026908 2 0.0963 0.85246 0.000 0.964 0.000 0.036 0.000
#> SRR1026909 2 0.0963 0.85246 0.000 0.964 0.000 0.036 0.000
#> SRR1026910 4 0.1544 0.73579 0.000 0.068 0.000 0.932 0.000
#> SRR1026911 4 0.1544 0.73579 0.000 0.068 0.000 0.932 0.000
#> SRR1026912 3 0.0693 0.89413 0.012 0.000 0.980 0.008 0.000
#> SRR1026913 3 0.0693 0.89413 0.012 0.000 0.980 0.008 0.000
#> SRR1026914 2 0.1851 0.85822 0.000 0.912 0.000 0.088 0.000
#> SRR1026915 2 0.1851 0.85822 0.000 0.912 0.000 0.088 0.000
#> SRR1026916 2 0.1851 0.85822 0.000 0.912 0.000 0.088 0.000
#> SRR1026917 2 0.1851 0.85822 0.000 0.912 0.000 0.088 0.000
#> SRR1026918 2 0.4171 0.39236 0.000 0.604 0.000 0.396 0.000
#> SRR1026919 2 0.4171 0.39236 0.000 0.604 0.000 0.396 0.000
#> SRR1026920 2 0.4138 0.42556 0.000 0.616 0.000 0.384 0.000
#> SRR1026921 2 0.4138 0.42556 0.000 0.616 0.000 0.384 0.000
#> SRR1026922 2 0.1851 0.85822 0.000 0.912 0.000 0.088 0.000
#> SRR1026923 2 0.1965 0.85433 0.000 0.904 0.000 0.096 0.000
#> SRR1026924 4 0.1908 0.72741 0.000 0.092 0.000 0.908 0.000
#> SRR1026925 3 0.2900 0.87951 0.040 0.000 0.884 0.012 0.064
#> SRR1026926 4 0.1908 0.72741 0.000 0.092 0.000 0.908 0.000
#> SRR1026927 4 0.5139 0.31258 0.280 0.000 0.072 0.648 0.000
#> SRR1026928 4 0.4256 0.19641 0.000 0.436 0.000 0.564 0.000
#> SRR1026929 3 0.0290 0.89560 0.000 0.000 0.992 0.000 0.008
#> SRR1026930 4 0.4302 0.03037 0.000 0.480 0.000 0.520 0.000
#> SRR1026931 2 0.1357 0.85536 0.004 0.948 0.000 0.048 0.000
#> SRR1026932 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1026933 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1026934 2 0.0963 0.85246 0.000 0.964 0.000 0.036 0.000
#> SRR1026935 2 0.0963 0.85246 0.000 0.964 0.000 0.036 0.000
#> SRR1026936 4 0.1908 0.72741 0.000 0.092 0.000 0.908 0.000
#> SRR1026937 4 0.1908 0.72741 0.000 0.092 0.000 0.908 0.000
#> SRR1026938 2 0.1851 0.85822 0.000 0.912 0.000 0.088 0.000
#> SRR1026939 2 0.1851 0.85822 0.000 0.912 0.000 0.088 0.000
#> SRR1026940 4 0.4011 0.62485 0.112 0.008 0.072 0.808 0.000
#> SRR1026941 5 0.0162 0.79912 0.000 0.000 0.004 0.000 0.996
#> SRR1026942 4 0.5470 0.27611 0.252 0.000 0.112 0.636 0.000
#> SRR1026943 4 0.1430 0.72490 0.052 0.004 0.000 0.944 0.000
#> SRR1026944 4 0.5470 0.27611 0.252 0.000 0.112 0.636 0.000
#> SRR1026945 1 0.7808 0.67153 0.472 0.000 0.192 0.120 0.216
#> SRR1026947 2 0.0963 0.85246 0.000 0.964 0.000 0.036 0.000
#> SRR1026946 2 0.1851 0.85822 0.000 0.912 0.000 0.088 0.000
#> SRR1026948 2 0.1809 0.81212 0.060 0.928 0.000 0.012 0.000
#> SRR1026949 4 0.1671 0.73429 0.000 0.076 0.000 0.924 0.000
#> SRR1026950 4 0.1502 0.72337 0.056 0.004 0.000 0.940 0.000
#> SRR1026951 4 0.3913 0.45934 0.000 0.324 0.000 0.676 0.000
#> SRR1026952 4 0.5470 0.27611 0.252 0.000 0.112 0.636 0.000
#> SRR1026953 5 0.1408 0.78789 0.044 0.000 0.000 0.008 0.948
#> SRR1026954 4 0.1082 0.74203 0.008 0.028 0.000 0.964 0.000
#> SRR1026955 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1026956 4 0.5159 0.30216 0.284 0.000 0.072 0.644 0.000
#> SRR1026957 2 0.3684 0.63105 0.000 0.720 0.000 0.280 0.000
#> SRR1026958 4 0.0671 0.73900 0.016 0.004 0.000 0.980 0.000
#> SRR1026959 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1026960 4 0.4249 0.20309 0.000 0.432 0.000 0.568 0.000
#> SRR1026961 4 0.4249 0.20309 0.000 0.432 0.000 0.568 0.000
#> SRR1026962 4 0.5756 0.06605 0.312 0.000 0.112 0.576 0.000
#> SRR1026963 1 0.6261 0.69867 0.524 0.000 0.180 0.296 0.000
#> SRR1026964 4 0.1908 0.72741 0.000 0.092 0.000 0.908 0.000
#> SRR1026965 4 0.1908 0.72741 0.000 0.092 0.000 0.908 0.000
#> SRR1026966 5 0.0162 0.79912 0.000 0.000 0.004 0.000 0.996
#> SRR1026967 5 0.0162 0.79912 0.000 0.000 0.004 0.000 0.996
#> SRR1026968 4 0.1732 0.73307 0.000 0.080 0.000 0.920 0.000
#> SRR1026969 4 0.1251 0.74143 0.008 0.036 0.000 0.956 0.000
#> SRR1026970 4 0.0854 0.74103 0.008 0.012 0.004 0.976 0.000
#> SRR1026971 4 0.0854 0.74103 0.008 0.012 0.004 0.976 0.000
#> SRR1026972 4 0.5111 0.59548 0.028 0.056 0.200 0.716 0.000
#> SRR1026973 4 0.5111 0.59548 0.028 0.056 0.200 0.716 0.000
#> SRR1026974 4 0.5359 0.19438 0.316 0.000 0.076 0.608 0.000
#> SRR1026975 4 0.5359 0.19438 0.316 0.000 0.076 0.608 0.000
#> SRR1026976 4 0.0865 0.74207 0.000 0.024 0.004 0.972 0.000
#> SRR1026977 4 0.0865 0.74207 0.000 0.024 0.004 0.972 0.000
#> SRR1026978 4 0.4242 0.20197 0.000 0.428 0.000 0.572 0.000
#> SRR1026979 5 0.0162 0.79912 0.000 0.000 0.004 0.000 0.996
#> SRR1026980 4 0.4577 0.62083 0.000 0.108 0.144 0.748 0.000
#> SRR1026981 4 0.5715 0.29839 0.032 0.032 0.396 0.540 0.000
#> SRR1026982 4 0.2690 0.68483 0.000 0.156 0.000 0.844 0.000
#> SRR1026983 4 0.2690 0.68483 0.000 0.156 0.000 0.844 0.000
#> SRR1026984 4 0.4249 0.20309 0.000 0.432 0.000 0.568 0.000
#> SRR1026985 4 0.4249 0.20309 0.000 0.432 0.000 0.568 0.000
#> SRR1026986 4 0.4249 0.20309 0.000 0.432 0.000 0.568 0.000
#> SRR1026987 4 0.0671 0.73900 0.016 0.004 0.000 0.980 0.000
#> SRR1026988 1 0.6099 0.65175 0.512 0.000 0.136 0.352 0.000
#> SRR1026989 3 0.3880 0.81747 0.044 0.000 0.800 0.004 0.152
#> SRR1026990 4 0.0854 0.74103 0.008 0.012 0.004 0.976 0.000
#> SRR1026991 5 0.5943 0.31848 0.288 0.000 0.040 0.060 0.612
#> SRR1026992 4 0.4441 0.46858 0.236 0.000 0.044 0.720 0.000
#> SRR1026993 4 0.1557 0.72676 0.052 0.008 0.000 0.940 0.000
#> SRR1026994 4 0.4675 0.61563 0.004 0.088 0.164 0.744 0.000
#> SRR1026995 4 0.5526 0.55453 0.028 0.072 0.224 0.676 0.000
#> SRR1026996 4 0.1116 0.74271 0.004 0.028 0.004 0.964 0.000
#> SRR1026997 4 0.1116 0.74271 0.004 0.028 0.004 0.964 0.000
#> SRR1026998 3 0.0162 0.89471 0.000 0.000 0.996 0.000 0.004
#> SRR1026999 3 0.0162 0.89471 0.000 0.000 0.996 0.000 0.004
#> SRR1027000 4 0.1041 0.73319 0.032 0.004 0.000 0.964 0.000
#> SRR1027001 5 0.6838 -0.21597 0.404 0.000 0.040 0.112 0.444
#> SRR1027002 4 0.4291 0.09211 0.000 0.464 0.000 0.536 0.000
#> SRR1027003 4 0.4227 0.22872 0.000 0.420 0.000 0.580 0.000
#> SRR1027004 4 0.3205 0.67939 0.056 0.008 0.072 0.864 0.000
#> SRR1027005 3 0.2516 0.84898 0.000 0.000 0.860 0.000 0.140
#> SRR1027006 1 0.6050 0.63486 0.512 0.000 0.128 0.360 0.000
#> SRR1027007 4 0.4210 0.25536 0.000 0.412 0.000 0.588 0.000
#> SRR1027008 4 0.0671 0.73900 0.016 0.004 0.000 0.980 0.000
#> SRR1027009 5 0.0162 0.79912 0.000 0.000 0.004 0.000 0.996
#> SRR1027010 1 0.7791 0.68008 0.476 0.000 0.180 0.124 0.220
#> SRR1027011 5 0.1205 0.79068 0.040 0.000 0.000 0.004 0.956
#> SRR1177668 5 0.6790 -0.14832 0.388 0.000 0.040 0.108 0.464
#> SRR1177667 4 0.5558 0.22771 0.268 0.000 0.112 0.620 0.000
#> SRR1177669 1 0.7761 0.70357 0.492 0.000 0.180 0.148 0.180
#> SRR1177670 1 0.7780 0.61728 0.460 0.000 0.176 0.108 0.256
#> SRR1177671 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1177672 1 0.6867 0.22995 0.432 0.000 0.044 0.108 0.416
#> SRR1177673 1 0.6816 0.67534 0.484 0.000 0.156 0.336 0.024
#> SRR1177674 5 0.5836 0.19219 0.328 0.000 0.004 0.100 0.568
#> SRR1177675 4 0.5578 0.21479 0.272 0.000 0.112 0.616 0.000
#> SRR1177676 1 0.7791 0.68008 0.476 0.000 0.180 0.124 0.220
#> SRR1177677 4 0.1041 0.73319 0.032 0.004 0.000 0.964 0.000
#> SRR1177678 1 0.6166 0.67238 0.512 0.000 0.148 0.340 0.000
#> SRR1177679 2 0.1671 0.85838 0.000 0.924 0.000 0.076 0.000
#> SRR1177680 4 0.4305 0.00474 0.000 0.488 0.000 0.512 0.000
#> SRR1177681 4 0.3009 0.69021 0.052 0.008 0.064 0.876 0.000
#> SRR1177682 4 0.1041 0.73319 0.032 0.004 0.000 0.964 0.000
#> SRR1177683 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1177684 2 0.1282 0.85470 0.004 0.952 0.000 0.044 0.000
#> SRR1177685 4 0.5535 0.22904 0.272 0.000 0.108 0.620 0.000
#> SRR1177686 3 0.2516 0.84898 0.000 0.000 0.860 0.000 0.140
#> SRR1177687 4 0.4305 0.00474 0.000 0.488 0.000 0.512 0.000
#> SRR1177688 4 0.2729 0.68668 0.060 0.000 0.056 0.884 0.000
#> SRR1177689 4 0.1106 0.74386 0.012 0.024 0.000 0.964 0.000
#> SRR1177690 4 0.1106 0.74386 0.012 0.024 0.000 0.964 0.000
#> SRR1177691 2 0.1671 0.85838 0.000 0.924 0.000 0.076 0.000
#> SRR1177692 4 0.4268 0.17394 0.000 0.444 0.000 0.556 0.000
#> SRR1177693 2 0.2423 0.81501 0.080 0.896 0.000 0.024 0.000
#> SRR1177694 2 0.1965 0.85433 0.000 0.904 0.000 0.096 0.000
#> SRR1177695 4 0.1106 0.74386 0.012 0.024 0.000 0.964 0.000
#> SRR1177697 4 0.1557 0.72676 0.052 0.008 0.000 0.940 0.000
#> SRR1177696 4 0.3073 0.68656 0.052 0.008 0.068 0.872 0.000
#> SRR1177698 5 0.1205 0.79068 0.040 0.000 0.000 0.004 0.956
#> SRR1177700 4 0.2730 0.70110 0.044 0.008 0.056 0.892 0.000
#> SRR1177701 4 0.0566 0.73941 0.012 0.004 0.000 0.984 0.000
#> SRR1177702 3 0.3366 0.68887 0.232 0.000 0.768 0.000 0.000
#> SRR1177703 4 0.0566 0.73941 0.012 0.004 0.000 0.984 0.000
#> SRR1177704 3 0.0000 0.89418 0.000 0.000 1.000 0.000 0.000
#> SRR1177705 4 0.0671 0.73900 0.016 0.004 0.000 0.980 0.000
#> SRR1177706 2 0.4060 0.48634 0.000 0.640 0.000 0.360 0.000
#> SRR1177707 4 0.0566 0.73941 0.012 0.004 0.000 0.984 0.000
#> SRR1177708 4 0.4059 0.61959 0.116 0.008 0.072 0.804 0.000
#> SRR1177709 4 0.4128 0.61688 0.112 0.008 0.080 0.800 0.000
#> SRR1177710 1 0.7761 0.70357 0.492 0.000 0.180 0.148 0.180
#> SRR1177711 1 0.5981 0.52851 0.484 0.000 0.112 0.404 0.000
#> SRR1177712 3 0.2104 0.83575 0.024 0.000 0.916 0.060 0.000
#> SRR1177714 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1177713 5 0.3075 0.70148 0.092 0.000 0.048 0.000 0.860
#> SRR1177715 2 0.3774 0.60838 0.000 0.704 0.000 0.296 0.000
#> SRR1177716 3 0.3299 0.83559 0.016 0.000 0.828 0.004 0.152
#> SRR1177717 4 0.2230 0.68223 0.116 0.000 0.000 0.884 0.000
#> SRR1177718 1 0.6166 0.67238 0.512 0.000 0.148 0.340 0.000
#> SRR1177719 4 0.3877 0.54586 0.212 0.000 0.024 0.764 0.000
#> SRR1177720 3 0.0000 0.89418 0.000 0.000 1.000 0.000 0.000
#> SRR1177721 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1177722 2 0.2280 0.77133 0.120 0.880 0.000 0.000 0.000
#> SRR1177723 4 0.1792 0.70713 0.084 0.000 0.000 0.916 0.000
#> SRR1177725 4 0.2230 0.68223 0.116 0.000 0.000 0.884 0.000
#> SRR1177724 4 0.1792 0.70713 0.084 0.000 0.000 0.916 0.000
#> SRR1177726 5 0.1408 0.78789 0.044 0.000 0.000 0.008 0.948
#> SRR1177727 1 0.6248 0.69854 0.524 0.000 0.176 0.300 0.000
#> SRR1177728 5 0.0162 0.79912 0.000 0.000 0.004 0.000 0.996
#> SRR1177729 4 0.2230 0.68223 0.116 0.000 0.000 0.884 0.000
#> SRR1177730 1 0.6899 0.25648 0.436 0.000 0.044 0.112 0.408
#> SRR1177731 1 0.7761 0.70357 0.492 0.000 0.180 0.148 0.180
#> SRR1177732 5 0.7007 -0.25289 0.404 0.000 0.052 0.112 0.432
#> SRR1177733 4 0.2104 0.72378 0.044 0.008 0.024 0.924 0.000
#> SRR1177734 4 0.2104 0.72378 0.044 0.008 0.024 0.924 0.000
#> SRR1177735 4 0.1671 0.73429 0.000 0.076 0.000 0.924 0.000
#> SRR1177736 4 0.4011 0.62485 0.112 0.008 0.072 0.808 0.000
#> SRR1177737 2 0.1965 0.85433 0.000 0.904 0.000 0.096 0.000
#> SRR1177738 3 0.4061 0.50387 0.016 0.004 0.740 0.240 0.000
#> SRR1177739 4 0.4011 0.62485 0.112 0.008 0.072 0.808 0.000
#> SRR1177740 4 0.0671 0.73900 0.016 0.004 0.000 0.980 0.000
#> SRR1177741 1 0.6166 0.67238 0.512 0.000 0.148 0.340 0.000
#> SRR1177742 5 0.0162 0.79912 0.000 0.000 0.004 0.000 0.996
#> SRR1177743 1 0.7806 0.65359 0.468 0.000 0.168 0.124 0.240
#> SRR1177744 1 0.7806 0.65359 0.468 0.000 0.168 0.124 0.240
#> SRR1177745 4 0.4171 0.30696 0.000 0.396 0.000 0.604 0.000
#> SRR1177746 4 0.4307 -0.02235 0.000 0.496 0.000 0.504 0.000
#> SRR1177747 1 0.7808 0.67153 0.472 0.000 0.192 0.120 0.216
#> SRR1177748 5 0.0162 0.79912 0.000 0.000 0.004 0.000 0.996
#> SRR1177749 1 0.6166 0.67238 0.512 0.000 0.148 0.340 0.000
#> SRR1177750 4 0.2729 0.68668 0.060 0.000 0.056 0.884 0.000
#> SRR1177751 4 0.1106 0.74386 0.012 0.024 0.000 0.964 0.000
#> SRR1177752 4 0.4575 0.45310 0.236 0.000 0.052 0.712 0.000
#> SRR1177753 4 0.2729 0.68668 0.060 0.000 0.056 0.884 0.000
#> SRR1177754 1 0.7761 0.70357 0.492 0.000 0.180 0.148 0.180
#> SRR1177755 4 0.1557 0.72676 0.052 0.008 0.000 0.940 0.000
#> SRR1177756 4 0.1557 0.72676 0.052 0.008 0.000 0.940 0.000
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.0935 0.80978 0.004 0.964 0.000 0.032 0.000 0.000
#> SRR1026871 2 0.0935 0.80978 0.004 0.964 0.000 0.032 0.000 0.000
#> SRR1026872 2 0.1049 0.81093 0.008 0.960 0.000 0.032 0.000 0.000
#> SRR1026873 1 0.3488 0.65404 0.744 0.000 0.008 0.244 0.004 0.000
#> SRR1026874 6 0.1461 0.76009 0.016 0.000 0.000 0.000 0.044 0.940
#> SRR1026875 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1026876 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1026877 3 0.0260 0.82668 0.000 0.000 0.992 0.000 0.000 0.008
#> SRR1026878 3 0.0260 0.82668 0.000 0.000 0.992 0.000 0.000 0.008
#> SRR1026879 1 0.5514 0.69563 0.656 0.000 0.028 0.080 0.020 0.216
#> SRR1026880 1 0.5514 0.69563 0.656 0.000 0.028 0.080 0.020 0.216
#> SRR1026881 2 0.2773 0.75241 0.004 0.828 0.000 0.164 0.004 0.000
#> SRR1026882 2 0.2773 0.75241 0.004 0.828 0.000 0.164 0.004 0.000
#> SRR1026883 4 0.1946 0.73028 0.012 0.072 0.000 0.912 0.004 0.000
#> SRR1026884 4 0.1946 0.73028 0.012 0.072 0.000 0.912 0.004 0.000
#> SRR1026885 4 0.0748 0.74391 0.004 0.016 0.004 0.976 0.000 0.000
#> SRR1026886 4 0.0748 0.74391 0.004 0.016 0.004 0.976 0.000 0.000
#> SRR1026887 3 0.2766 0.81219 0.060 0.000 0.872 0.000 0.008 0.060
#> SRR1026888 3 0.2766 0.81219 0.060 0.000 0.872 0.000 0.008 0.060
#> SRR1026889 2 0.2402 0.77405 0.004 0.856 0.000 0.140 0.000 0.000
#> SRR1026890 4 0.1442 0.74222 0.012 0.040 0.004 0.944 0.000 0.000
#> SRR1026891 4 0.4056 0.29631 0.416 0.000 0.004 0.576 0.004 0.000
#> SRR1026892 4 0.4056 0.29631 0.416 0.000 0.004 0.576 0.004 0.000
#> SRR1026893 3 0.2766 0.81219 0.060 0.000 0.872 0.000 0.008 0.060
#> SRR1026894 3 0.2766 0.81219 0.060 0.000 0.872 0.000 0.008 0.060
#> SRR1026895 4 0.2544 0.70663 0.012 0.120 0.000 0.864 0.004 0.000
#> SRR1026896 4 0.2544 0.70663 0.012 0.120 0.000 0.864 0.004 0.000
#> SRR1026897 6 0.3412 0.59233 0.064 0.000 0.000 0.000 0.128 0.808
#> SRR1026898 4 0.3607 0.46639 0.348 0.000 0.000 0.652 0.000 0.000
#> SRR1026899 1 0.5552 0.67990 0.640 0.000 0.028 0.080 0.016 0.236
#> SRR1026900 4 0.4323 -0.00645 0.008 0.476 0.000 0.508 0.008 0.000
#> SRR1026901 4 0.4058 0.32160 0.008 0.372 0.000 0.616 0.004 0.000
#> SRR1026902 4 0.3682 0.62993 0.224 0.016 0.004 0.752 0.004 0.000
#> SRR1026903 4 0.3682 0.62993 0.224 0.016 0.004 0.752 0.004 0.000
#> SRR1026904 4 0.1194 0.74247 0.008 0.032 0.004 0.956 0.000 0.000
#> SRR1026905 4 0.1194 0.74247 0.008 0.032 0.004 0.956 0.000 0.000
#> SRR1026906 2 0.1753 0.81942 0.000 0.912 0.000 0.084 0.004 0.000
#> SRR1026907 2 0.1753 0.81942 0.000 0.912 0.000 0.084 0.004 0.000
#> SRR1026908 2 0.0790 0.81081 0.000 0.968 0.000 0.032 0.000 0.000
#> SRR1026909 2 0.0790 0.81081 0.000 0.968 0.000 0.032 0.000 0.000
#> SRR1026910 4 0.1462 0.73791 0.008 0.056 0.000 0.936 0.000 0.000
#> SRR1026911 4 0.1462 0.73791 0.008 0.056 0.000 0.936 0.000 0.000
#> SRR1026912 3 0.0790 0.82576 0.032 0.000 0.968 0.000 0.000 0.000
#> SRR1026913 3 0.0790 0.82576 0.032 0.000 0.968 0.000 0.000 0.000
#> SRR1026914 2 0.1753 0.81909 0.004 0.912 0.000 0.084 0.000 0.000
#> SRR1026915 2 0.1753 0.81909 0.004 0.912 0.000 0.084 0.000 0.000
#> SRR1026916 2 0.1753 0.81909 0.004 0.912 0.000 0.084 0.000 0.000
#> SRR1026917 2 0.1753 0.81909 0.004 0.912 0.000 0.084 0.000 0.000
#> SRR1026918 2 0.4230 0.36450 0.008 0.584 0.000 0.400 0.008 0.000
#> SRR1026919 2 0.4230 0.36450 0.008 0.584 0.000 0.400 0.008 0.000
#> SRR1026920 2 0.4203 0.39636 0.008 0.596 0.000 0.388 0.008 0.000
#> SRR1026921 2 0.4203 0.39636 0.008 0.596 0.000 0.388 0.008 0.000
#> SRR1026922 2 0.1753 0.81942 0.000 0.912 0.000 0.084 0.004 0.000
#> SRR1026923 2 0.2001 0.81355 0.004 0.900 0.000 0.092 0.004 0.000
#> SRR1026924 4 0.1946 0.73028 0.012 0.072 0.000 0.912 0.004 0.000
#> SRR1026925 3 0.2766 0.81219 0.060 0.000 0.872 0.000 0.008 0.060
#> SRR1026926 4 0.1946 0.73028 0.012 0.072 0.000 0.912 0.004 0.000
#> SRR1026927 4 0.4056 0.29631 0.416 0.000 0.004 0.576 0.004 0.000
#> SRR1026928 4 0.4261 0.21841 0.008 0.416 0.000 0.568 0.008 0.000
#> SRR1026929 3 0.0260 0.82668 0.000 0.000 0.992 0.000 0.000 0.008
#> SRR1026930 4 0.4315 0.06215 0.008 0.460 0.000 0.524 0.008 0.000
#> SRR1026931 2 0.1265 0.81484 0.008 0.948 0.000 0.044 0.000 0.000
#> SRR1026932 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1026933 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1026934 2 0.0790 0.81081 0.000 0.968 0.000 0.032 0.000 0.000
#> SRR1026935 2 0.0790 0.81081 0.000 0.968 0.000 0.032 0.000 0.000
#> SRR1026936 4 0.1946 0.73028 0.012 0.072 0.000 0.912 0.004 0.000
#> SRR1026937 4 0.1946 0.73028 0.012 0.072 0.000 0.912 0.004 0.000
#> SRR1026938 2 0.1753 0.81942 0.000 0.912 0.000 0.084 0.004 0.000
#> SRR1026939 2 0.1753 0.81942 0.000 0.912 0.000 0.084 0.004 0.000
#> SRR1026940 4 0.3524 0.62218 0.228 0.008 0.004 0.756 0.004 0.000
#> SRR1026941 6 0.0000 0.81789 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026942 4 0.3944 0.26286 0.428 0.000 0.004 0.568 0.000 0.000
#> SRR1026943 4 0.1644 0.72639 0.076 0.000 0.000 0.920 0.004 0.000
#> SRR1026944 4 0.3944 0.26286 0.428 0.000 0.004 0.568 0.000 0.000
#> SRR1026945 1 0.5807 0.68360 0.640 0.000 0.048 0.080 0.020 0.212
#> SRR1026947 2 0.0790 0.81081 0.000 0.968 0.000 0.032 0.000 0.000
#> SRR1026946 2 0.1753 0.81942 0.000 0.912 0.000 0.084 0.004 0.000
#> SRR1026948 2 0.1858 0.76049 0.052 0.924 0.000 0.012 0.012 0.000
#> SRR1026949 4 0.1707 0.73707 0.012 0.056 0.000 0.928 0.004 0.000
#> SRR1026950 4 0.1700 0.72497 0.080 0.000 0.000 0.916 0.004 0.000
#> SRR1026951 4 0.3809 0.46171 0.008 0.304 0.000 0.684 0.004 0.000
#> SRR1026952 4 0.3944 0.26286 0.428 0.000 0.004 0.568 0.000 0.000
#> SRR1026953 6 0.1391 0.79715 0.040 0.000 0.000 0.000 0.016 0.944
#> SRR1026954 4 0.0951 0.74444 0.020 0.008 0.000 0.968 0.004 0.000
#> SRR1026955 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1026956 4 0.4063 0.28622 0.420 0.000 0.004 0.572 0.004 0.000
#> SRR1026957 2 0.3586 0.61105 0.004 0.712 0.000 0.280 0.004 0.000
#> SRR1026958 4 0.0858 0.74252 0.028 0.000 0.000 0.968 0.004 0.000
#> SRR1026959 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1026960 4 0.4253 0.22459 0.008 0.412 0.000 0.572 0.008 0.000
#> SRR1026961 4 0.4253 0.22459 0.008 0.412 0.000 0.572 0.008 0.000
#> SRR1026962 4 0.3998 0.05366 0.492 0.000 0.004 0.504 0.000 0.000
#> SRR1026963 1 0.3726 0.66556 0.752 0.000 0.028 0.216 0.004 0.000
#> SRR1026964 4 0.1946 0.73028 0.012 0.072 0.000 0.912 0.004 0.000
#> SRR1026965 4 0.1946 0.73028 0.012 0.072 0.000 0.912 0.004 0.000
#> SRR1026966 6 0.0000 0.81789 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026967 6 0.0000 0.81789 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026968 4 0.1668 0.73634 0.008 0.060 0.000 0.928 0.004 0.000
#> SRR1026969 4 0.1232 0.74389 0.024 0.016 0.000 0.956 0.004 0.000
#> SRR1026970 4 0.0603 0.74345 0.016 0.000 0.004 0.980 0.000 0.000
#> SRR1026971 4 0.0603 0.74345 0.016 0.000 0.004 0.980 0.000 0.000
#> SRR1026972 4 0.5289 0.62223 0.092 0.056 0.156 0.692 0.004 0.000
#> SRR1026973 4 0.5289 0.62223 0.092 0.056 0.156 0.692 0.004 0.000
#> SRR1026974 4 0.3989 0.15667 0.468 0.000 0.000 0.528 0.004 0.000
#> SRR1026975 4 0.3989 0.15667 0.468 0.000 0.000 0.528 0.004 0.000
#> SRR1026976 4 0.0508 0.74450 0.000 0.012 0.004 0.984 0.000 0.000
#> SRR1026977 4 0.0508 0.74450 0.000 0.012 0.004 0.984 0.000 0.000
#> SRR1026978 4 0.4144 0.22762 0.008 0.408 0.000 0.580 0.004 0.000
#> SRR1026979 6 0.0000 0.81789 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1026980 4 0.4275 0.63265 0.012 0.092 0.144 0.752 0.000 0.000
#> SRR1026981 4 0.5926 0.34988 0.112 0.032 0.336 0.520 0.000 0.000
#> SRR1026982 4 0.2655 0.68937 0.008 0.140 0.000 0.848 0.004 0.000
#> SRR1026983 4 0.2655 0.68937 0.008 0.140 0.000 0.848 0.004 0.000
#> SRR1026984 4 0.4253 0.22459 0.008 0.412 0.000 0.572 0.008 0.000
#> SRR1026985 4 0.4253 0.22459 0.008 0.412 0.000 0.572 0.008 0.000
#> SRR1026986 4 0.4253 0.22459 0.008 0.412 0.000 0.572 0.008 0.000
#> SRR1026987 4 0.0858 0.74252 0.028 0.000 0.000 0.968 0.004 0.000
#> SRR1026988 1 0.3314 0.64067 0.740 0.000 0.004 0.256 0.000 0.000
#> SRR1026989 3 0.4486 0.59470 0.124 0.000 0.720 0.000 0.004 0.152
#> SRR1026990 4 0.0603 0.74345 0.016 0.000 0.004 0.980 0.000 0.000
#> SRR1026991 6 0.4835 0.22740 0.340 0.000 0.008 0.036 0.008 0.608
#> SRR1026992 4 0.3742 0.44210 0.348 0.000 0.000 0.648 0.004 0.000
#> SRR1026993 4 0.1556 0.72616 0.080 0.000 0.000 0.920 0.000 0.000
#> SRR1026994 4 0.4377 0.62981 0.020 0.072 0.164 0.744 0.000 0.000
#> SRR1026995 4 0.5733 0.58867 0.108 0.072 0.164 0.652 0.004 0.000
#> SRR1026996 4 0.0862 0.74465 0.008 0.016 0.004 0.972 0.000 0.000
#> SRR1026997 4 0.0862 0.74465 0.008 0.016 0.004 0.972 0.000 0.000
#> SRR1026998 3 0.0146 0.82476 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1026999 3 0.0146 0.82476 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1027000 4 0.1152 0.74035 0.044 0.000 0.000 0.952 0.004 0.000
#> SRR1027001 1 0.5727 0.30681 0.456 0.000 0.008 0.080 0.016 0.440
#> SRR1027002 4 0.4300 0.12090 0.008 0.444 0.000 0.540 0.008 0.000
#> SRR1027003 4 0.4127 0.24882 0.008 0.400 0.000 0.588 0.004 0.000
#> SRR1027004 4 0.3062 0.68536 0.156 0.008 0.008 0.824 0.004 0.000
#> SRR1027005 3 0.2260 0.76283 0.000 0.000 0.860 0.000 0.000 0.140
#> SRR1027006 1 0.3383 0.62884 0.728 0.000 0.004 0.268 0.000 0.000
#> SRR1027007 4 0.4212 0.27493 0.008 0.392 0.000 0.592 0.008 0.000
#> SRR1027008 4 0.0858 0.74252 0.028 0.000 0.000 0.968 0.004 0.000
#> SRR1027009 6 0.0000 0.81789 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1027010 1 0.5514 0.69563 0.656 0.000 0.028 0.080 0.020 0.216
#> SRR1027011 6 0.1245 0.80172 0.032 0.000 0.000 0.000 0.016 0.952
#> SRR1177668 6 0.5726 -0.31341 0.436 0.000 0.008 0.080 0.016 0.460
#> SRR1177667 4 0.3966 0.21686 0.444 0.000 0.004 0.552 0.000 0.000
#> SRR1177669 1 0.5237 0.70278 0.696 0.000 0.028 0.080 0.020 0.176
#> SRR1177670 1 0.5716 0.66085 0.620 0.000 0.028 0.080 0.020 0.252
#> SRR1177671 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1177672 1 0.5712 0.38296 0.484 0.000 0.008 0.080 0.016 0.412
#> SRR1177673 1 0.4175 0.65446 0.716 0.000 0.012 0.244 0.004 0.024
#> SRR1177674 6 0.5401 0.06294 0.344 0.000 0.004 0.072 0.016 0.564
#> SRR1177675 4 0.3971 0.20464 0.448 0.000 0.004 0.548 0.000 0.000
#> SRR1177676 1 0.5514 0.69563 0.656 0.000 0.028 0.080 0.020 0.216
#> SRR1177677 4 0.1152 0.74035 0.044 0.000 0.000 0.952 0.004 0.000
#> SRR1177678 1 0.3373 0.65096 0.744 0.000 0.008 0.248 0.000 0.000
#> SRR1177679 2 0.1588 0.81965 0.000 0.924 0.000 0.072 0.004 0.000
#> SRR1177680 4 0.4220 0.04135 0.008 0.468 0.000 0.520 0.004 0.000
#> SRR1177681 4 0.2948 0.69510 0.144 0.008 0.008 0.836 0.004 0.000
#> SRR1177682 4 0.1152 0.74035 0.044 0.000 0.000 0.952 0.004 0.000
#> SRR1177683 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1177684 2 0.1082 0.81368 0.004 0.956 0.000 0.040 0.000 0.000
#> SRR1177685 4 0.3966 0.21762 0.444 0.000 0.004 0.552 0.000 0.000
#> SRR1177686 3 0.2260 0.76283 0.000 0.000 0.860 0.000 0.000 0.140
#> SRR1177687 4 0.4220 0.04135 0.008 0.468 0.000 0.520 0.004 0.000
#> SRR1177688 4 0.2362 0.69909 0.136 0.000 0.000 0.860 0.004 0.000
#> SRR1177689 4 0.1332 0.74657 0.028 0.012 0.000 0.952 0.008 0.000
#> SRR1177690 4 0.1332 0.74657 0.028 0.012 0.000 0.952 0.008 0.000
#> SRR1177691 2 0.1588 0.81965 0.000 0.924 0.000 0.072 0.004 0.000
#> SRR1177692 4 0.4172 0.19456 0.008 0.424 0.000 0.564 0.004 0.000
#> SRR1177693 2 0.3063 0.74546 0.064 0.860 0.000 0.024 0.052 0.000
#> SRR1177694 2 0.1858 0.81557 0.000 0.904 0.000 0.092 0.004 0.000
#> SRR1177695 4 0.1332 0.74657 0.028 0.012 0.000 0.952 0.008 0.000
#> SRR1177697 4 0.1556 0.72616 0.080 0.000 0.000 0.920 0.000 0.000
#> SRR1177696 4 0.2987 0.69190 0.148 0.008 0.008 0.832 0.004 0.000
#> SRR1177698 6 0.1245 0.80172 0.032 0.000 0.000 0.000 0.016 0.952
#> SRR1177700 4 0.2716 0.70404 0.132 0.008 0.004 0.852 0.004 0.000
#> SRR1177701 4 0.0865 0.74221 0.036 0.000 0.000 0.964 0.000 0.000
#> SRR1177702 5 0.2941 0.00000 0.000 0.000 0.220 0.000 0.780 0.000
#> SRR1177703 4 0.0865 0.74221 0.036 0.000 0.000 0.964 0.000 0.000
#> SRR1177704 3 0.0000 0.82386 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177705 4 0.0858 0.74252 0.028 0.000 0.000 0.968 0.004 0.000
#> SRR1177706 2 0.4138 0.44893 0.008 0.620 0.000 0.364 0.008 0.000
#> SRR1177707 4 0.0865 0.74221 0.036 0.000 0.000 0.964 0.000 0.000
#> SRR1177708 4 0.3550 0.61704 0.232 0.008 0.004 0.752 0.004 0.000
#> SRR1177709 4 0.3658 0.61678 0.232 0.008 0.008 0.748 0.004 0.000
#> SRR1177710 1 0.5237 0.70278 0.696 0.000 0.028 0.080 0.020 0.176
#> SRR1177711 1 0.3652 0.52287 0.672 0.000 0.004 0.324 0.000 0.000
#> SRR1177712 3 0.2340 0.68429 0.056 0.000 0.896 0.044 0.004 0.000
#> SRR1177714 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1177713 6 0.3412 0.59233 0.064 0.000 0.000 0.000 0.128 0.808
#> SRR1177715 2 0.3897 0.57348 0.008 0.684 0.000 0.300 0.008 0.000
#> SRR1177716 3 0.3278 0.73293 0.040 0.000 0.808 0.000 0.000 0.152
#> SRR1177717 4 0.2595 0.67941 0.160 0.000 0.000 0.836 0.004 0.000
#> SRR1177718 1 0.3373 0.65096 0.744 0.000 0.008 0.248 0.000 0.000
#> SRR1177719 4 0.3565 0.51767 0.304 0.000 0.000 0.692 0.004 0.000
#> SRR1177720 3 0.0000 0.82386 0.000 0.000 1.000 0.000 0.000 0.000
#> SRR1177721 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1177722 2 0.3221 0.67438 0.096 0.828 0.000 0.000 0.076 0.000
#> SRR1177723 4 0.2191 0.70756 0.120 0.000 0.000 0.876 0.004 0.000
#> SRR1177725 4 0.2595 0.67941 0.160 0.000 0.000 0.836 0.004 0.000
#> SRR1177724 4 0.2191 0.70756 0.120 0.000 0.000 0.876 0.004 0.000
#> SRR1177726 6 0.1391 0.79715 0.040 0.000 0.000 0.000 0.016 0.944
#> SRR1177727 1 0.3650 0.66472 0.756 0.000 0.024 0.216 0.004 0.000
#> SRR1177728 6 0.0000 0.81789 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1177729 4 0.2595 0.67941 0.160 0.000 0.000 0.836 0.004 0.000
#> SRR1177730 1 0.5704 0.39825 0.492 0.000 0.008 0.080 0.016 0.404
#> SRR1177731 1 0.5237 0.70278 0.696 0.000 0.028 0.080 0.020 0.176
#> SRR1177732 1 0.5723 0.33850 0.468 0.000 0.008 0.080 0.016 0.428
#> SRR1177733 4 0.2356 0.72463 0.100 0.008 0.004 0.884 0.004 0.000
#> SRR1177734 4 0.2356 0.72463 0.100 0.008 0.004 0.884 0.004 0.000
#> SRR1177735 4 0.1707 0.73707 0.012 0.056 0.000 0.928 0.004 0.000
#> SRR1177736 4 0.3524 0.62218 0.228 0.008 0.004 0.756 0.004 0.000
#> SRR1177737 2 0.1858 0.81557 0.000 0.904 0.000 0.092 0.004 0.000
#> SRR1177738 3 0.3946 0.27729 0.028 0.004 0.736 0.228 0.004 0.000
#> SRR1177739 4 0.3524 0.62218 0.228 0.008 0.004 0.756 0.004 0.000
#> SRR1177740 4 0.0858 0.74252 0.028 0.000 0.000 0.968 0.004 0.000
#> SRR1177741 1 0.3373 0.65096 0.744 0.000 0.008 0.248 0.000 0.000
#> SRR1177742 6 0.0000 0.81789 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1177743 1 0.5552 0.67990 0.640 0.000 0.028 0.080 0.016 0.236
#> SRR1177744 1 0.5552 0.67990 0.640 0.000 0.028 0.080 0.016 0.236
#> SRR1177745 4 0.3945 0.31687 0.008 0.380 0.000 0.612 0.000 0.000
#> SRR1177746 4 0.4224 0.01500 0.008 0.476 0.000 0.512 0.004 0.000
#> SRR1177747 1 0.5748 0.68750 0.644 0.000 0.044 0.080 0.020 0.212
#> SRR1177748 6 0.0000 0.81789 0.000 0.000 0.000 0.000 0.000 1.000
#> SRR1177749 1 0.3373 0.65096 0.744 0.000 0.008 0.248 0.000 0.000
#> SRR1177750 4 0.2362 0.69909 0.136 0.000 0.000 0.860 0.004 0.000
#> SRR1177751 4 0.1332 0.74657 0.028 0.012 0.000 0.952 0.008 0.000
#> SRR1177752 4 0.3769 0.42914 0.356 0.000 0.000 0.640 0.004 0.000
#> SRR1177753 4 0.2362 0.69909 0.136 0.000 0.000 0.860 0.004 0.000
#> SRR1177754 1 0.5237 0.70278 0.696 0.000 0.028 0.080 0.020 0.176
#> SRR1177755 4 0.1556 0.72616 0.080 0.000 0.000 0.920 0.000 0.000
#> SRR1177756 4 0.1556 0.72616 0.080 0.000 0.000 0.920 0.000 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["ATC", "kmeans"]
# you can also extract it by
# res = res_list["ATC:kmeans"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'ATC' method.
#> Subgroups are detected by 'kmeans' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.552 0.899 0.946 0.4827 0.504 0.504
#> 3 3 0.927 0.915 0.968 0.2991 0.624 0.401
#> 4 4 0.680 0.730 0.857 0.1577 0.804 0.529
#> 5 5 0.647 0.529 0.743 0.0622 0.935 0.768
#> 6 6 0.650 0.486 0.654 0.0463 0.900 0.637
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.000 0.9419 0.000 1.000
#> SRR1026871 2 0.000 0.9419 0.000 1.000
#> SRR1026872 2 0.000 0.9419 0.000 1.000
#> SRR1026873 1 0.000 0.9348 1.000 0.000
#> SRR1026874 1 0.000 0.9348 1.000 0.000
#> SRR1026875 2 0.000 0.9419 0.000 1.000
#> SRR1026876 2 0.000 0.9419 0.000 1.000
#> SRR1026877 1 0.000 0.9348 1.000 0.000
#> SRR1026878 1 0.000 0.9348 1.000 0.000
#> SRR1026879 1 0.000 0.9348 1.000 0.000
#> SRR1026880 1 0.000 0.9348 1.000 0.000
#> SRR1026881 2 0.000 0.9419 0.000 1.000
#> SRR1026882 2 0.000 0.9419 0.000 1.000
#> SRR1026883 2 0.000 0.9419 0.000 1.000
#> SRR1026884 2 0.000 0.9419 0.000 1.000
#> SRR1026885 2 0.662 0.8250 0.172 0.828
#> SRR1026886 2 0.662 0.8250 0.172 0.828
#> SRR1026887 1 0.000 0.9348 1.000 0.000
#> SRR1026888 1 0.000 0.9348 1.000 0.000
#> SRR1026889 2 0.000 0.9419 0.000 1.000
#> SRR1026890 2 0.662 0.8250 0.172 0.828
#> SRR1026891 1 0.689 0.8226 0.816 0.184
#> SRR1026892 1 0.689 0.8226 0.816 0.184
#> SRR1026893 1 0.000 0.9348 1.000 0.000
#> SRR1026894 1 0.000 0.9348 1.000 0.000
#> SRR1026895 2 0.000 0.9419 0.000 1.000
#> SRR1026896 2 0.000 0.9419 0.000 1.000
#> SRR1026897 1 0.000 0.9348 1.000 0.000
#> SRR1026898 1 0.000 0.9348 1.000 0.000
#> SRR1026899 1 0.000 0.9348 1.000 0.000
#> SRR1026900 2 0.000 0.9419 0.000 1.000
#> SRR1026901 2 0.000 0.9419 0.000 1.000
#> SRR1026902 1 0.634 0.8460 0.840 0.160
#> SRR1026903 1 0.644 0.8423 0.836 0.164
#> SRR1026904 2 0.574 0.8575 0.136 0.864
#> SRR1026905 2 0.574 0.8575 0.136 0.864
#> SRR1026906 2 0.000 0.9419 0.000 1.000
#> SRR1026907 2 0.000 0.9419 0.000 1.000
#> SRR1026908 2 0.000 0.9419 0.000 1.000
#> SRR1026909 2 0.000 0.9419 0.000 1.000
#> SRR1026910 2 0.000 0.9419 0.000 1.000
#> SRR1026911 2 0.000 0.9419 0.000 1.000
#> SRR1026912 1 0.000 0.9348 1.000 0.000
#> SRR1026913 1 0.000 0.9348 1.000 0.000
#> SRR1026914 2 0.000 0.9419 0.000 1.000
#> SRR1026915 2 0.000 0.9419 0.000 1.000
#> SRR1026916 2 0.000 0.9419 0.000 1.000
#> SRR1026917 2 0.000 0.9419 0.000 1.000
#> SRR1026918 2 0.000 0.9419 0.000 1.000
#> SRR1026919 2 0.000 0.9419 0.000 1.000
#> SRR1026920 2 0.000 0.9419 0.000 1.000
#> SRR1026921 2 0.000 0.9419 0.000 1.000
#> SRR1026922 2 0.000 0.9419 0.000 1.000
#> SRR1026923 2 0.000 0.9419 0.000 1.000
#> SRR1026924 2 0.000 0.9419 0.000 1.000
#> SRR1026925 1 0.000 0.9348 1.000 0.000
#> SRR1026926 2 0.000 0.9419 0.000 1.000
#> SRR1026927 1 0.000 0.9348 1.000 0.000
#> SRR1026928 2 0.000 0.9419 0.000 1.000
#> SRR1026929 1 0.000 0.9348 1.000 0.000
#> SRR1026930 2 0.000 0.9419 0.000 1.000
#> SRR1026931 2 0.000 0.9419 0.000 1.000
#> SRR1026932 2 0.000 0.9419 0.000 1.000
#> SRR1026933 2 0.000 0.9419 0.000 1.000
#> SRR1026934 2 0.000 0.9419 0.000 1.000
#> SRR1026935 2 0.000 0.9419 0.000 1.000
#> SRR1026936 2 0.000 0.9419 0.000 1.000
#> SRR1026937 2 0.000 0.9419 0.000 1.000
#> SRR1026938 2 0.000 0.9419 0.000 1.000
#> SRR1026939 2 0.000 0.9419 0.000 1.000
#> SRR1026940 1 0.689 0.8226 0.816 0.184
#> SRR1026941 1 0.000 0.9348 1.000 0.000
#> SRR1026942 1 0.634 0.8460 0.840 0.160
#> SRR1026943 2 0.662 0.8250 0.172 0.828
#> SRR1026944 1 0.552 0.8696 0.872 0.128
#> SRR1026945 1 0.000 0.9348 1.000 0.000
#> SRR1026947 2 0.000 0.9419 0.000 1.000
#> SRR1026946 2 0.000 0.9419 0.000 1.000
#> SRR1026948 2 0.000 0.9419 0.000 1.000
#> SRR1026949 2 0.000 0.9419 0.000 1.000
#> SRR1026950 2 0.662 0.8250 0.172 0.828
#> SRR1026951 2 0.000 0.9419 0.000 1.000
#> SRR1026952 1 0.634 0.8460 0.840 0.160
#> SRR1026953 1 0.000 0.9348 1.000 0.000
#> SRR1026954 2 0.494 0.8785 0.108 0.892
#> SRR1026955 2 0.000 0.9419 0.000 1.000
#> SRR1026956 1 0.697 0.8181 0.812 0.188
#> SRR1026957 2 0.000 0.9419 0.000 1.000
#> SRR1026958 2 0.653 0.8288 0.168 0.832
#> SRR1026959 2 0.000 0.9419 0.000 1.000
#> SRR1026960 2 0.000 0.9419 0.000 1.000
#> SRR1026961 2 0.000 0.9419 0.000 1.000
#> SRR1026962 1 0.634 0.8460 0.840 0.160
#> SRR1026963 1 0.000 0.9348 1.000 0.000
#> SRR1026964 2 0.000 0.9419 0.000 1.000
#> SRR1026965 2 0.000 0.9419 0.000 1.000
#> SRR1026966 1 0.000 0.9348 1.000 0.000
#> SRR1026967 1 0.000 0.9348 1.000 0.000
#> SRR1026968 2 0.000 0.9419 0.000 1.000
#> SRR1026969 2 0.327 0.9087 0.060 0.940
#> SRR1026970 2 0.662 0.8250 0.172 0.828
#> SRR1026971 2 0.662 0.8250 0.172 0.828
#> SRR1026972 2 1.000 0.0357 0.488 0.512
#> SRR1026973 2 0.998 0.0870 0.476 0.524
#> SRR1026974 1 0.689 0.8226 0.816 0.184
#> SRR1026975 1 0.689 0.8226 0.816 0.184
#> SRR1026976 2 0.662 0.8250 0.172 0.828
#> SRR1026977 2 0.662 0.8250 0.172 0.828
#> SRR1026978 2 0.000 0.9419 0.000 1.000
#> SRR1026979 1 0.000 0.9348 1.000 0.000
#> SRR1026980 2 0.000 0.9419 0.000 1.000
#> SRR1026981 1 0.000 0.9348 1.000 0.000
#> SRR1026982 2 0.000 0.9419 0.000 1.000
#> SRR1026983 2 0.000 0.9419 0.000 1.000
#> SRR1026984 2 0.000 0.9419 0.000 1.000
#> SRR1026985 2 0.000 0.9419 0.000 1.000
#> SRR1026986 2 0.000 0.9419 0.000 1.000
#> SRR1026987 2 0.541 0.8673 0.124 0.876
#> SRR1026988 1 0.000 0.9348 1.000 0.000
#> SRR1026989 1 0.000 0.9348 1.000 0.000
#> SRR1026990 2 0.541 0.8673 0.124 0.876
#> SRR1026991 1 0.000 0.9348 1.000 0.000
#> SRR1026992 1 0.697 0.8181 0.812 0.188
#> SRR1026993 2 0.662 0.8250 0.172 0.828
#> SRR1026994 2 0.141 0.9315 0.020 0.980
#> SRR1026995 1 0.634 0.8460 0.840 0.160
#> SRR1026996 2 0.662 0.8250 0.172 0.828
#> SRR1026997 2 0.662 0.8250 0.172 0.828
#> SRR1026998 1 0.000 0.9348 1.000 0.000
#> SRR1026999 1 0.000 0.9348 1.000 0.000
#> SRR1027000 2 0.662 0.8250 0.172 0.828
#> SRR1027001 1 0.000 0.9348 1.000 0.000
#> SRR1027002 2 0.000 0.9419 0.000 1.000
#> SRR1027003 2 0.000 0.9419 0.000 1.000
#> SRR1027004 1 0.697 0.8181 0.812 0.188
#> SRR1027005 1 0.000 0.9348 1.000 0.000
#> SRR1027006 1 0.000 0.9348 1.000 0.000
#> SRR1027007 2 0.000 0.9419 0.000 1.000
#> SRR1027008 2 0.662 0.8250 0.172 0.828
#> SRR1027009 1 0.000 0.9348 1.000 0.000
#> SRR1027010 1 0.000 0.9348 1.000 0.000
#> SRR1027011 1 0.000 0.9348 1.000 0.000
#> SRR1177668 1 0.000 0.9348 1.000 0.000
#> SRR1177667 1 0.625 0.8492 0.844 0.156
#> SRR1177669 1 0.000 0.9348 1.000 0.000
#> SRR1177670 1 0.000 0.9348 1.000 0.000
#> SRR1177671 2 0.000 0.9419 0.000 1.000
#> SRR1177672 1 0.000 0.9348 1.000 0.000
#> SRR1177673 1 0.000 0.9348 1.000 0.000
#> SRR1177674 1 0.000 0.9348 1.000 0.000
#> SRR1177675 1 0.634 0.8460 0.840 0.160
#> SRR1177676 1 0.000 0.9348 1.000 0.000
#> SRR1177677 2 0.662 0.8250 0.172 0.828
#> SRR1177678 1 0.000 0.9348 1.000 0.000
#> SRR1177679 2 0.000 0.9419 0.000 1.000
#> SRR1177680 2 0.000 0.9419 0.000 1.000
#> SRR1177681 1 0.697 0.8181 0.812 0.188
#> SRR1177682 2 0.662 0.8250 0.172 0.828
#> SRR1177683 2 0.000 0.9419 0.000 1.000
#> SRR1177684 2 0.000 0.9419 0.000 1.000
#> SRR1177685 1 0.552 0.8696 0.872 0.128
#> SRR1177686 1 0.000 0.9348 1.000 0.000
#> SRR1177687 2 0.000 0.9419 0.000 1.000
#> SRR1177688 1 0.697 0.8181 0.812 0.188
#> SRR1177689 2 0.000 0.9419 0.000 1.000
#> SRR1177690 2 0.541 0.8673 0.124 0.876
#> SRR1177691 2 0.000 0.9419 0.000 1.000
#> SRR1177692 2 0.000 0.9419 0.000 1.000
#> SRR1177693 2 0.000 0.9419 0.000 1.000
#> SRR1177694 2 0.000 0.9419 0.000 1.000
#> SRR1177695 2 0.000 0.9419 0.000 1.000
#> SRR1177697 2 0.518 0.8730 0.116 0.884
#> SRR1177696 1 0.697 0.8181 0.812 0.188
#> SRR1177698 1 0.000 0.9348 1.000 0.000
#> SRR1177700 2 0.689 0.8097 0.184 0.816
#> SRR1177701 2 0.541 0.8673 0.124 0.876
#> SRR1177702 1 0.000 0.9348 1.000 0.000
#> SRR1177703 2 0.662 0.8250 0.172 0.828
#> SRR1177704 1 0.000 0.9348 1.000 0.000
#> SRR1177705 2 0.662 0.8250 0.172 0.828
#> SRR1177706 2 0.000 0.9419 0.000 1.000
#> SRR1177707 2 0.541 0.8673 0.124 0.876
#> SRR1177708 1 0.634 0.8460 0.840 0.160
#> SRR1177709 1 0.552 0.8696 0.872 0.128
#> SRR1177710 1 0.000 0.9348 1.000 0.000
#> SRR1177711 1 0.552 0.8696 0.872 0.128
#> SRR1177712 1 0.000 0.9348 1.000 0.000
#> SRR1177714 2 0.000 0.9419 0.000 1.000
#> SRR1177713 1 0.000 0.9348 1.000 0.000
#> SRR1177715 2 0.000 0.9419 0.000 1.000
#> SRR1177716 1 0.000 0.9348 1.000 0.000
#> SRR1177717 1 0.697 0.8181 0.812 0.188
#> SRR1177718 1 0.388 0.8991 0.924 0.076
#> SRR1177719 1 0.697 0.8181 0.812 0.188
#> SRR1177720 1 0.000 0.9348 1.000 0.000
#> SRR1177721 2 0.000 0.9419 0.000 1.000
#> SRR1177722 2 0.000 0.9419 0.000 1.000
#> SRR1177723 2 0.680 0.8149 0.180 0.820
#> SRR1177725 1 0.697 0.8181 0.812 0.188
#> SRR1177724 2 0.689 0.8097 0.184 0.816
#> SRR1177726 1 0.000 0.9348 1.000 0.000
#> SRR1177727 1 0.000 0.9348 1.000 0.000
#> SRR1177728 1 0.000 0.9348 1.000 0.000
#> SRR1177729 2 0.662 0.8250 0.172 0.828
#> SRR1177730 1 0.000 0.9348 1.000 0.000
#> SRR1177731 1 0.000 0.9348 1.000 0.000
#> SRR1177732 1 0.000 0.9348 1.000 0.000
#> SRR1177733 2 0.662 0.8250 0.172 0.828
#> SRR1177734 1 0.697 0.8181 0.812 0.188
#> SRR1177735 2 0.000 0.9419 0.000 1.000
#> SRR1177736 1 0.327 0.9073 0.940 0.060
#> SRR1177737 2 0.000 0.9419 0.000 1.000
#> SRR1177738 1 0.595 0.8586 0.856 0.144
#> SRR1177739 1 0.552 0.8696 0.872 0.128
#> SRR1177740 2 0.541 0.8673 0.124 0.876
#> SRR1177741 1 0.000 0.9348 1.000 0.000
#> SRR1177742 1 0.000 0.9348 1.000 0.000
#> SRR1177743 1 0.000 0.9348 1.000 0.000
#> SRR1177744 1 0.000 0.9348 1.000 0.000
#> SRR1177745 2 0.000 0.9419 0.000 1.000
#> SRR1177746 2 0.000 0.9419 0.000 1.000
#> SRR1177747 1 0.000 0.9348 1.000 0.000
#> SRR1177748 1 0.000 0.9348 1.000 0.000
#> SRR1177749 1 0.000 0.9348 1.000 0.000
#> SRR1177750 1 0.961 0.4217 0.616 0.384
#> SRR1177751 2 0.000 0.9419 0.000 1.000
#> SRR1177752 1 0.697 0.8181 0.812 0.188
#> SRR1177753 1 0.697 0.8181 0.812 0.188
#> SRR1177754 1 0.000 0.9348 1.000 0.000
#> SRR1177755 2 0.529 0.8702 0.120 0.880
#> SRR1177756 2 0.000 0.9419 0.000 1.000
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026873 1 0.5859 0.471781 0.656 0.000 0.344
#> SRR1026874 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026875 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026879 3 0.2165 0.904663 0.064 0.000 0.936
#> SRR1026880 3 0.3116 0.850023 0.108 0.000 0.892
#> SRR1026881 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026883 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026884 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026885 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026886 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026887 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026889 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026890 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026891 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026892 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026893 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026895 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026896 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026897 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026898 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026899 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026900 2 0.2356 0.888035 0.072 0.928 0.000
#> SRR1026901 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026902 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026903 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026904 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026905 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026906 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026910 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026911 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026912 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026914 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026918 2 0.3551 0.827444 0.132 0.868 0.000
#> SRR1026919 2 0.3551 0.827444 0.132 0.868 0.000
#> SRR1026920 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026924 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026925 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026926 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026927 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026928 2 0.4291 0.772506 0.180 0.820 0.000
#> SRR1026929 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026930 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026931 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026936 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026937 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026938 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026940 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026941 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026942 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026945 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026947 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026949 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026950 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026951 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026952 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026954 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026955 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026957 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026958 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1026960 1 0.5760 0.489997 0.672 0.328 0.000
#> SRR1026961 2 0.6291 0.131266 0.468 0.532 0.000
#> SRR1026962 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026963 1 0.6062 0.377910 0.616 0.000 0.384
#> SRR1026964 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026965 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026966 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026968 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026969 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026970 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026971 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026972 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026973 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026974 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026976 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026977 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026978 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026979 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026980 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026981 1 0.4555 0.733422 0.800 0.000 0.200
#> SRR1026982 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026983 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026984 2 0.4291 0.772506 0.180 0.820 0.000
#> SRR1026985 2 0.4291 0.772506 0.180 0.820 0.000
#> SRR1026986 1 0.5706 0.507438 0.680 0.320 0.000
#> SRR1026987 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026988 1 0.0747 0.945754 0.984 0.000 0.016
#> SRR1026989 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026990 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026991 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026994 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026995 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026996 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026997 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1026998 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1027000 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1027001 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1027002 2 0.0424 0.946945 0.008 0.992 0.000
#> SRR1027003 1 0.6260 0.145348 0.552 0.448 0.000
#> SRR1027004 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1027006 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1027007 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1027008 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1027010 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1027011 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177668 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177667 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177669 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177670 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177671 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177672 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177673 1 0.6225 0.245182 0.568 0.000 0.432
#> SRR1177674 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177676 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177677 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177679 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177680 1 0.6307 0.000311 0.512 0.488 0.000
#> SRR1177681 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177682 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177683 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177687 2 0.5810 0.497958 0.336 0.664 0.000
#> SRR1177688 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177689 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177690 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177692 1 0.5948 0.411697 0.640 0.360 0.000
#> SRR1177693 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177695 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177697 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177696 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177698 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177700 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177701 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177702 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177703 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177704 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177705 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177706 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177707 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177708 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177709 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177710 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177711 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177712 3 0.6126 0.309704 0.400 0.000 0.600
#> SRR1177714 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177713 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177715 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177716 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177720 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177727 3 0.6126 0.311067 0.400 0.000 0.600
#> SRR1177728 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177730 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177731 1 0.6126 0.336657 0.600 0.000 0.400
#> SRR1177732 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177733 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177735 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177736 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177737 2 0.0000 0.953674 0.000 1.000 0.000
#> SRR1177738 1 0.4555 0.733422 0.800 0.000 0.200
#> SRR1177739 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177741 1 0.6126 0.336657 0.600 0.000 0.400
#> SRR1177742 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177743 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177744 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177745 2 0.6235 0.236936 0.436 0.564 0.000
#> SRR1177746 2 0.0424 0.946976 0.008 0.992 0.000
#> SRR1177747 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177748 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177754 3 0.0000 0.977867 0.000 0.000 1.000
#> SRR1177755 1 0.0000 0.960240 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.960240 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1026871 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1026872 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1026873 1 0.1520 0.76315 0.956 0.000 0.024 0.020
#> SRR1026874 3 0.0000 0.87400 0.000 0.000 1.000 0.000
#> SRR1026875 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1026876 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1026877 3 0.0921 0.86994 0.028 0.000 0.972 0.000
#> SRR1026878 3 0.0921 0.86994 0.028 0.000 0.972 0.000
#> SRR1026879 1 0.4122 0.40594 0.760 0.000 0.236 0.004
#> SRR1026880 1 0.5060 -0.09910 0.584 0.000 0.412 0.004
#> SRR1026881 2 0.4250 0.72124 0.000 0.724 0.000 0.276
#> SRR1026882 2 0.2530 0.88174 0.000 0.888 0.000 0.112
#> SRR1026883 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026884 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026885 4 0.4477 0.57366 0.312 0.000 0.000 0.688
#> SRR1026886 4 0.4477 0.57366 0.312 0.000 0.000 0.688
#> SRR1026887 3 0.2868 0.85415 0.136 0.000 0.864 0.000
#> SRR1026888 3 0.2868 0.85415 0.136 0.000 0.864 0.000
#> SRR1026889 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026890 4 0.2011 0.76424 0.080 0.000 0.000 0.920
#> SRR1026891 1 0.3219 0.76989 0.836 0.000 0.000 0.164
#> SRR1026892 1 0.3219 0.76989 0.836 0.000 0.000 0.164
#> SRR1026893 3 0.3486 0.81571 0.188 0.000 0.812 0.000
#> SRR1026894 3 0.3486 0.81571 0.188 0.000 0.812 0.000
#> SRR1026895 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026896 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026897 3 0.0921 0.87028 0.028 0.000 0.972 0.000
#> SRR1026898 1 0.1557 0.79318 0.944 0.000 0.000 0.056
#> SRR1026899 3 0.5000 0.35809 0.500 0.000 0.500 0.000
#> SRR1026900 4 0.1302 0.76383 0.000 0.044 0.000 0.956
#> SRR1026901 4 0.0188 0.78888 0.000 0.004 0.000 0.996
#> SRR1026902 1 0.4866 0.36078 0.596 0.000 0.000 0.404
#> SRR1026903 1 0.4866 0.36078 0.596 0.000 0.000 0.404
#> SRR1026904 4 0.0188 0.79025 0.004 0.000 0.000 0.996
#> SRR1026905 4 0.0188 0.79025 0.004 0.000 0.000 0.996
#> SRR1026906 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026907 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026908 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1026909 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1026910 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026911 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026912 3 0.4222 0.73117 0.272 0.000 0.728 0.000
#> SRR1026913 3 0.4222 0.73117 0.272 0.000 0.728 0.000
#> SRR1026914 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026915 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026916 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026917 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026918 4 0.1637 0.75131 0.000 0.060 0.000 0.940
#> SRR1026919 4 0.1637 0.75131 0.000 0.060 0.000 0.940
#> SRR1026920 2 0.4981 0.39417 0.000 0.536 0.000 0.464
#> SRR1026921 2 0.4981 0.39417 0.000 0.536 0.000 0.464
#> SRR1026922 2 0.1792 0.90929 0.000 0.932 0.000 0.068
#> SRR1026923 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026924 4 0.0188 0.78888 0.000 0.004 0.000 0.996
#> SRR1026925 3 0.4222 0.73117 0.272 0.000 0.728 0.000
#> SRR1026926 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026927 1 0.1557 0.79318 0.944 0.000 0.000 0.056
#> SRR1026928 4 0.2216 0.72291 0.000 0.092 0.000 0.908
#> SRR1026929 3 0.1211 0.87134 0.040 0.000 0.960 0.000
#> SRR1026930 2 0.4222 0.72622 0.000 0.728 0.000 0.272
#> SRR1026931 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1026932 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1026933 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1026934 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1026935 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1026936 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026937 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026938 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026939 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026940 1 0.4866 0.36078 0.596 0.000 0.000 0.404
#> SRR1026941 3 0.0000 0.87400 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.2216 0.79258 0.908 0.000 0.000 0.092
#> SRR1026943 4 0.4643 0.51836 0.344 0.000 0.000 0.656
#> SRR1026944 1 0.1557 0.79318 0.944 0.000 0.000 0.056
#> SRR1026945 3 0.4746 0.63483 0.368 0.000 0.632 0.000
#> SRR1026947 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1026946 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1026948 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1026949 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026950 4 0.4730 0.47238 0.364 0.000 0.000 0.636
#> SRR1026951 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026952 1 0.1867 0.79505 0.928 0.000 0.000 0.072
#> SRR1026953 3 0.0469 0.87363 0.012 0.000 0.988 0.000
#> SRR1026954 4 0.1867 0.76776 0.072 0.000 0.000 0.928
#> SRR1026955 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1026956 1 0.3219 0.76989 0.836 0.000 0.000 0.164
#> SRR1026957 2 0.4477 0.67568 0.000 0.688 0.000 0.312
#> SRR1026958 4 0.4543 0.55426 0.324 0.000 0.000 0.676
#> SRR1026959 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1026960 4 0.0921 0.77693 0.000 0.028 0.000 0.972
#> SRR1026961 4 0.1637 0.75225 0.000 0.060 0.000 0.940
#> SRR1026962 1 0.1867 0.79505 0.928 0.000 0.000 0.072
#> SRR1026963 1 0.1520 0.76315 0.956 0.000 0.024 0.020
#> SRR1026964 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026965 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026966 3 0.0000 0.87400 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.87400 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026969 4 0.1867 0.76776 0.072 0.000 0.000 0.928
#> SRR1026970 4 0.4382 0.59459 0.296 0.000 0.000 0.704
#> SRR1026971 4 0.4382 0.59459 0.296 0.000 0.000 0.704
#> SRR1026972 4 0.4855 0.39412 0.400 0.000 0.000 0.600
#> SRR1026973 4 0.4855 0.39412 0.400 0.000 0.000 0.600
#> SRR1026974 1 0.3172 0.77198 0.840 0.000 0.000 0.160
#> SRR1026975 1 0.3172 0.77198 0.840 0.000 0.000 0.160
#> SRR1026976 4 0.4522 0.56139 0.320 0.000 0.000 0.680
#> SRR1026977 4 0.4522 0.56139 0.320 0.000 0.000 0.680
#> SRR1026978 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026979 3 0.0000 0.87400 0.000 0.000 1.000 0.000
#> SRR1026980 4 0.0336 0.78738 0.008 0.000 0.000 0.992
#> SRR1026981 1 0.7258 0.28286 0.508 0.000 0.164 0.328
#> SRR1026982 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026983 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1026984 4 0.4164 0.48135 0.000 0.264 0.000 0.736
#> SRR1026985 4 0.4164 0.48135 0.000 0.264 0.000 0.736
#> SRR1026986 4 0.0817 0.77896 0.000 0.024 0.000 0.976
#> SRR1026987 4 0.3801 0.67473 0.220 0.000 0.000 0.780
#> SRR1026988 1 0.1302 0.78657 0.956 0.000 0.000 0.044
#> SRR1026989 3 0.1867 0.86438 0.072 0.000 0.928 0.000
#> SRR1026990 4 0.3764 0.67804 0.216 0.000 0.000 0.784
#> SRR1026991 3 0.0469 0.87363 0.012 0.000 0.988 0.000
#> SRR1026992 1 0.3219 0.76989 0.836 0.000 0.000 0.164
#> SRR1026993 4 0.4522 0.56064 0.320 0.000 0.000 0.680
#> SRR1026994 4 0.2011 0.76424 0.080 0.000 0.000 0.920
#> SRR1026995 1 0.4730 0.42558 0.636 0.000 0.000 0.364
#> SRR1026996 4 0.4454 0.57934 0.308 0.000 0.000 0.692
#> SRR1026997 4 0.4454 0.57934 0.308 0.000 0.000 0.692
#> SRR1026998 3 0.0921 0.86994 0.028 0.000 0.972 0.000
#> SRR1026999 3 0.0921 0.86994 0.028 0.000 0.972 0.000
#> SRR1027000 4 0.4643 0.51836 0.344 0.000 0.000 0.656
#> SRR1027001 3 0.3024 0.81493 0.148 0.000 0.852 0.000
#> SRR1027002 4 0.4134 0.48873 0.000 0.260 0.000 0.740
#> SRR1027003 4 0.0707 0.78068 0.000 0.020 0.000 0.980
#> SRR1027004 1 0.4866 0.36078 0.596 0.000 0.000 0.404
#> SRR1027005 3 0.1211 0.87134 0.040 0.000 0.960 0.000
#> SRR1027006 1 0.1557 0.79318 0.944 0.000 0.000 0.056
#> SRR1027007 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1027008 4 0.4643 0.51836 0.344 0.000 0.000 0.656
#> SRR1027009 3 0.0469 0.87363 0.012 0.000 0.988 0.000
#> SRR1027010 3 0.4431 0.71577 0.304 0.000 0.696 0.000
#> SRR1027011 3 0.0469 0.87363 0.012 0.000 0.988 0.000
#> SRR1177668 3 0.0921 0.87138 0.028 0.000 0.972 0.000
#> SRR1177667 1 0.1867 0.79505 0.928 0.000 0.000 0.072
#> SRR1177669 1 0.4679 0.02209 0.648 0.000 0.352 0.000
#> SRR1177670 3 0.3942 0.75297 0.236 0.000 0.764 0.000
#> SRR1177671 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1177672 3 0.3837 0.75531 0.224 0.000 0.776 0.000
#> SRR1177673 1 0.1510 0.75863 0.956 0.000 0.028 0.016
#> SRR1177674 3 0.0921 0.87138 0.028 0.000 0.972 0.000
#> SRR1177675 1 0.1867 0.79505 0.928 0.000 0.000 0.072
#> SRR1177676 3 0.4955 0.49645 0.444 0.000 0.556 0.000
#> SRR1177677 4 0.4994 0.08253 0.480 0.000 0.000 0.520
#> SRR1177678 1 0.1389 0.78895 0.952 0.000 0.000 0.048
#> SRR1177679 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1177680 4 0.0707 0.78068 0.000 0.020 0.000 0.980
#> SRR1177681 1 0.4866 0.36078 0.596 0.000 0.000 0.404
#> SRR1177682 4 0.4406 0.59017 0.300 0.000 0.000 0.700
#> SRR1177683 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1177684 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.1557 0.79318 0.944 0.000 0.000 0.056
#> SRR1177686 3 0.1211 0.87134 0.040 0.000 0.960 0.000
#> SRR1177687 4 0.1557 0.75629 0.000 0.056 0.000 0.944
#> SRR1177688 1 0.4866 0.36078 0.596 0.000 0.000 0.404
#> SRR1177689 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1177690 4 0.4072 0.64553 0.252 0.000 0.000 0.748
#> SRR1177691 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1177692 4 0.0895 0.77952 0.004 0.020 0.000 0.976
#> SRR1177693 2 0.0000 0.91943 0.000 1.000 0.000 0.000
#> SRR1177694 2 0.1867 0.90851 0.000 0.928 0.000 0.072
#> SRR1177695 4 0.1792 0.76978 0.068 0.000 0.000 0.932
#> SRR1177697 4 0.4072 0.64553 0.252 0.000 0.000 0.748
#> SRR1177696 1 0.4866 0.36078 0.596 0.000 0.000 0.404
#> SRR1177698 3 0.0469 0.87363 0.012 0.000 0.988 0.000
#> SRR1177700 4 0.4925 0.29498 0.428 0.000 0.000 0.572
#> SRR1177701 4 0.4040 0.64980 0.248 0.000 0.000 0.752
#> SRR1177702 3 0.2408 0.86011 0.104 0.000 0.896 0.000
#> SRR1177703 4 0.4643 0.51836 0.344 0.000 0.000 0.656
#> SRR1177704 3 0.3569 0.81296 0.196 0.000 0.804 0.000
#> SRR1177705 4 0.4643 0.51836 0.344 0.000 0.000 0.656
#> SRR1177706 2 0.4933 0.37863 0.000 0.568 0.000 0.432
#> SRR1177707 4 0.4040 0.64980 0.248 0.000 0.000 0.752
#> SRR1177708 1 0.4817 0.39929 0.612 0.000 0.000 0.388
#> SRR1177709 1 0.1940 0.79482 0.924 0.000 0.000 0.076
#> SRR1177710 3 0.4382 0.73857 0.296 0.000 0.704 0.000
#> SRR1177711 1 0.1557 0.79318 0.944 0.000 0.000 0.056
#> SRR1177712 3 0.4907 0.46270 0.420 0.000 0.580 0.000
#> SRR1177714 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1177713 3 0.0592 0.87257 0.016 0.000 0.984 0.000
#> SRR1177715 4 0.4277 0.43783 0.000 0.280 0.000 0.720
#> SRR1177716 3 0.1211 0.87134 0.040 0.000 0.960 0.000
#> SRR1177717 1 0.3219 0.76989 0.836 0.000 0.000 0.164
#> SRR1177718 1 0.1557 0.79318 0.944 0.000 0.000 0.056
#> SRR1177719 1 0.3219 0.76989 0.836 0.000 0.000 0.164
#> SRR1177720 3 0.3649 0.80672 0.204 0.000 0.796 0.000
#> SRR1177721 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1177722 2 0.0188 0.91860 0.004 0.996 0.000 0.000
#> SRR1177723 1 0.4008 0.68275 0.756 0.000 0.000 0.244
#> SRR1177725 1 0.3123 0.77344 0.844 0.000 0.000 0.156
#> SRR1177724 1 0.3356 0.75961 0.824 0.000 0.000 0.176
#> SRR1177726 3 0.0469 0.87363 0.012 0.000 0.988 0.000
#> SRR1177727 1 0.4137 0.49035 0.780 0.000 0.208 0.012
#> SRR1177728 3 0.0188 0.87399 0.004 0.000 0.996 0.000
#> SRR1177729 1 0.4008 0.68275 0.756 0.000 0.000 0.244
#> SRR1177730 3 0.4277 0.69651 0.280 0.000 0.720 0.000
#> SRR1177731 1 0.1510 0.75863 0.956 0.000 0.028 0.016
#> SRR1177732 3 0.4304 0.69123 0.284 0.000 0.716 0.000
#> SRR1177733 4 0.4624 0.52623 0.340 0.000 0.000 0.660
#> SRR1177734 1 0.4522 0.55241 0.680 0.000 0.000 0.320
#> SRR1177735 4 0.0000 0.79061 0.000 0.000 0.000 1.000
#> SRR1177736 1 0.1557 0.79318 0.944 0.000 0.000 0.056
#> SRR1177737 2 0.2921 0.85837 0.000 0.860 0.000 0.140
#> SRR1177738 4 0.5050 0.59302 0.268 0.000 0.028 0.704
#> SRR1177739 1 0.2216 0.79258 0.908 0.000 0.000 0.092
#> SRR1177740 4 0.4072 0.64618 0.252 0.000 0.000 0.748
#> SRR1177741 1 0.1510 0.75863 0.956 0.000 0.028 0.016
#> SRR1177742 3 0.0000 0.87400 0.000 0.000 1.000 0.000
#> SRR1177743 3 0.4746 0.63483 0.368 0.000 0.632 0.000
#> SRR1177744 3 0.4713 0.64402 0.360 0.000 0.640 0.000
#> SRR1177745 4 0.1576 0.76057 0.004 0.048 0.000 0.948
#> SRR1177746 4 0.2216 0.72223 0.000 0.092 0.000 0.908
#> SRR1177747 3 0.2281 0.85923 0.096 0.000 0.904 0.000
#> SRR1177748 3 0.0000 0.87400 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.1557 0.79318 0.944 0.000 0.000 0.056
#> SRR1177750 1 0.4804 0.41428 0.616 0.000 0.000 0.384
#> SRR1177751 4 0.1792 0.76978 0.068 0.000 0.000 0.932
#> SRR1177752 1 0.3172 0.77198 0.840 0.000 0.000 0.160
#> SRR1177753 1 0.3219 0.76989 0.836 0.000 0.000 0.164
#> SRR1177754 1 0.4713 -0.00833 0.640 0.000 0.360 0.000
#> SRR1177755 4 0.4072 0.64553 0.252 0.000 0.000 0.748
#> SRR1177756 4 0.1792 0.76978 0.068 0.000 0.000 0.932
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.0579 0.8573 0.000 0.984 0.000 0.008 0.008
#> SRR1026871 2 0.0579 0.8573 0.000 0.984 0.000 0.008 0.008
#> SRR1026872 2 0.0510 0.8571 0.000 0.984 0.000 0.000 0.016
#> SRR1026873 1 0.3774 0.2939 0.704 0.000 0.000 0.000 0.296
#> SRR1026874 3 0.0404 0.6063 0.000 0.000 0.988 0.000 0.012
#> SRR1026875 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1026876 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1026877 3 0.3274 0.5353 0.000 0.000 0.780 0.000 0.220
#> SRR1026878 3 0.3242 0.5384 0.000 0.000 0.784 0.000 0.216
#> SRR1026879 5 0.5096 0.4604 0.444 0.000 0.036 0.000 0.520
#> SRR1026880 5 0.6364 0.5252 0.312 0.000 0.188 0.000 0.500
#> SRR1026881 2 0.6349 0.2702 0.000 0.424 0.000 0.416 0.160
#> SRR1026882 2 0.5680 0.6394 0.000 0.624 0.000 0.228 0.148
#> SRR1026883 4 0.0807 0.6800 0.012 0.000 0.000 0.976 0.012
#> SRR1026884 4 0.0807 0.6800 0.012 0.000 0.000 0.976 0.012
#> SRR1026885 4 0.4848 0.2921 0.420 0.000 0.000 0.556 0.024
#> SRR1026886 4 0.4848 0.2921 0.420 0.000 0.000 0.556 0.024
#> SRR1026887 5 0.4455 0.1504 0.008 0.000 0.404 0.000 0.588
#> SRR1026888 5 0.4455 0.1504 0.008 0.000 0.404 0.000 0.588
#> SRR1026889 2 0.4158 0.8032 0.000 0.784 0.000 0.092 0.124
#> SRR1026890 4 0.3803 0.6206 0.140 0.000 0.000 0.804 0.056
#> SRR1026891 1 0.0898 0.7600 0.972 0.000 0.000 0.020 0.008
#> SRR1026892 1 0.0898 0.7600 0.972 0.000 0.000 0.020 0.008
#> SRR1026893 5 0.5459 -0.1257 0.060 0.000 0.468 0.000 0.472
#> SRR1026894 5 0.5459 -0.1257 0.060 0.000 0.468 0.000 0.472
#> SRR1026895 4 0.1809 0.6772 0.012 0.000 0.000 0.928 0.060
#> SRR1026896 4 0.1809 0.6772 0.012 0.000 0.000 0.928 0.060
#> SRR1026897 3 0.2077 0.5830 0.000 0.000 0.908 0.008 0.084
#> SRR1026898 1 0.1197 0.7286 0.952 0.000 0.000 0.000 0.048
#> SRR1026899 5 0.6489 0.5282 0.240 0.000 0.268 0.000 0.492
#> SRR1026900 4 0.3944 0.5862 0.000 0.032 0.000 0.768 0.200
#> SRR1026901 4 0.2193 0.6748 0.008 0.000 0.000 0.900 0.092
#> SRR1026902 1 0.4223 0.5423 0.724 0.000 0.000 0.248 0.028
#> SRR1026903 1 0.4223 0.5423 0.724 0.000 0.000 0.248 0.028
#> SRR1026904 4 0.3194 0.6276 0.148 0.000 0.000 0.832 0.020
#> SRR1026905 4 0.3194 0.6276 0.148 0.000 0.000 0.832 0.020
#> SRR1026906 2 0.3346 0.8310 0.000 0.844 0.000 0.092 0.064
#> SRR1026907 2 0.3346 0.8310 0.000 0.844 0.000 0.092 0.064
#> SRR1026908 2 0.0451 0.8576 0.000 0.988 0.000 0.008 0.004
#> SRR1026909 2 0.0451 0.8576 0.000 0.988 0.000 0.008 0.004
#> SRR1026910 4 0.1281 0.6785 0.032 0.000 0.000 0.956 0.012
#> SRR1026911 4 0.1281 0.6785 0.032 0.000 0.000 0.956 0.012
#> SRR1026912 3 0.5345 0.2093 0.056 0.000 0.540 0.000 0.404
#> SRR1026913 3 0.5345 0.2093 0.056 0.000 0.540 0.000 0.404
#> SRR1026914 2 0.3410 0.8296 0.000 0.840 0.000 0.092 0.068
#> SRR1026915 2 0.3410 0.8296 0.000 0.840 0.000 0.092 0.068
#> SRR1026916 2 0.4158 0.8032 0.000 0.784 0.000 0.092 0.124
#> SRR1026917 2 0.4158 0.8032 0.000 0.784 0.000 0.092 0.124
#> SRR1026918 4 0.3495 0.5960 0.000 0.028 0.000 0.812 0.160
#> SRR1026919 4 0.3495 0.5960 0.000 0.028 0.000 0.812 0.160
#> SRR1026920 4 0.6036 0.1332 0.000 0.276 0.000 0.564 0.160
#> SRR1026921 4 0.6036 0.1332 0.000 0.276 0.000 0.564 0.160
#> SRR1026922 2 0.3346 0.8310 0.000 0.844 0.000 0.092 0.064
#> SRR1026923 2 0.4300 0.7949 0.000 0.772 0.000 0.096 0.132
#> SRR1026924 4 0.1697 0.6766 0.008 0.000 0.000 0.932 0.060
#> SRR1026925 5 0.5452 -0.1027 0.060 0.000 0.448 0.000 0.492
#> SRR1026926 4 0.1106 0.6795 0.024 0.000 0.000 0.964 0.012
#> SRR1026927 1 0.1732 0.6929 0.920 0.000 0.000 0.000 0.080
#> SRR1026928 4 0.4199 0.5493 0.000 0.068 0.000 0.772 0.160
#> SRR1026929 3 0.3707 0.4721 0.000 0.000 0.716 0.000 0.284
#> SRR1026930 2 0.6356 0.3321 0.000 0.452 0.000 0.384 0.164
#> SRR1026931 2 0.1341 0.8561 0.000 0.944 0.000 0.000 0.056
#> SRR1026932 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1026933 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1026934 2 0.0693 0.8580 0.000 0.980 0.000 0.008 0.012
#> SRR1026935 2 0.0693 0.8580 0.000 0.980 0.000 0.008 0.012
#> SRR1026936 4 0.1195 0.6791 0.028 0.000 0.000 0.960 0.012
#> SRR1026937 4 0.1195 0.6791 0.028 0.000 0.000 0.960 0.012
#> SRR1026938 2 0.3579 0.8246 0.000 0.828 0.000 0.100 0.072
#> SRR1026939 2 0.3579 0.8246 0.000 0.828 0.000 0.100 0.072
#> SRR1026940 1 0.4441 0.5378 0.720 0.000 0.000 0.236 0.044
#> SRR1026941 3 0.0000 0.6075 0.000 0.000 1.000 0.000 0.000
#> SRR1026942 1 0.0451 0.7563 0.988 0.000 0.000 0.008 0.004
#> SRR1026943 4 0.4974 0.2109 0.464 0.000 0.000 0.508 0.028
#> SRR1026944 1 0.0510 0.7474 0.984 0.000 0.000 0.000 0.016
#> SRR1026945 5 0.6155 0.5471 0.228 0.000 0.212 0.000 0.560
#> SRR1026947 2 0.0290 0.8573 0.000 0.992 0.000 0.000 0.008
#> SRR1026946 2 0.3346 0.8310 0.000 0.844 0.000 0.092 0.064
#> SRR1026948 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1026949 4 0.1965 0.6741 0.052 0.000 0.000 0.924 0.024
#> SRR1026950 1 0.4736 0.1423 0.576 0.000 0.000 0.404 0.020
#> SRR1026951 4 0.2079 0.6793 0.020 0.000 0.000 0.916 0.064
#> SRR1026952 1 0.0162 0.7525 0.996 0.000 0.000 0.000 0.004
#> SRR1026953 3 0.2280 0.5766 0.000 0.000 0.880 0.000 0.120
#> SRR1026954 4 0.2648 0.6240 0.152 0.000 0.000 0.848 0.000
#> SRR1026955 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1026956 1 0.1124 0.7589 0.960 0.000 0.000 0.036 0.004
#> SRR1026957 2 0.6341 0.3214 0.000 0.444 0.000 0.396 0.160
#> SRR1026958 4 0.4902 0.2021 0.468 0.000 0.000 0.508 0.024
#> SRR1026959 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1026960 4 0.3183 0.6338 0.016 0.000 0.000 0.828 0.156
#> SRR1026961 4 0.3651 0.5982 0.004 0.028 0.000 0.808 0.160
#> SRR1026962 1 0.0510 0.7474 0.984 0.000 0.000 0.000 0.016
#> SRR1026963 1 0.3796 0.2855 0.700 0.000 0.000 0.000 0.300
#> SRR1026964 4 0.1195 0.6791 0.028 0.000 0.000 0.960 0.012
#> SRR1026965 4 0.1195 0.6791 0.028 0.000 0.000 0.960 0.012
#> SRR1026966 3 0.0000 0.6075 0.000 0.000 1.000 0.000 0.000
#> SRR1026967 3 0.0000 0.6075 0.000 0.000 1.000 0.000 0.000
#> SRR1026968 4 0.2012 0.6770 0.020 0.000 0.000 0.920 0.060
#> SRR1026969 4 0.2929 0.6027 0.180 0.000 0.000 0.820 0.000
#> SRR1026970 4 0.4291 0.2208 0.464 0.000 0.000 0.536 0.000
#> SRR1026971 4 0.4291 0.2208 0.464 0.000 0.000 0.536 0.000
#> SRR1026972 4 0.5498 0.1754 0.440 0.000 0.000 0.496 0.064
#> SRR1026973 4 0.5498 0.1754 0.440 0.000 0.000 0.496 0.064
#> SRR1026974 1 0.0771 0.7601 0.976 0.000 0.000 0.020 0.004
#> SRR1026975 1 0.0771 0.7601 0.976 0.000 0.000 0.020 0.004
#> SRR1026976 4 0.4731 0.2302 0.456 0.000 0.000 0.528 0.016
#> SRR1026977 4 0.4731 0.2302 0.456 0.000 0.000 0.528 0.016
#> SRR1026978 4 0.2233 0.6767 0.016 0.000 0.000 0.904 0.080
#> SRR1026979 3 0.0162 0.6076 0.000 0.000 0.996 0.000 0.004
#> SRR1026980 4 0.2208 0.6763 0.020 0.000 0.000 0.908 0.072
#> SRR1026981 1 0.7661 0.1977 0.444 0.000 0.072 0.272 0.212
#> SRR1026982 4 0.2331 0.6729 0.020 0.000 0.000 0.900 0.080
#> SRR1026983 4 0.2331 0.6729 0.020 0.000 0.000 0.900 0.080
#> SRR1026984 4 0.5476 0.3683 0.000 0.184 0.000 0.656 0.160
#> SRR1026985 4 0.5476 0.3683 0.000 0.184 0.000 0.656 0.160
#> SRR1026986 4 0.3355 0.6313 0.012 0.000 0.000 0.804 0.184
#> SRR1026987 4 0.4965 0.2406 0.452 0.000 0.000 0.520 0.028
#> SRR1026988 1 0.3774 0.3009 0.704 0.000 0.000 0.000 0.296
#> SRR1026989 3 0.4235 0.2786 0.000 0.000 0.576 0.000 0.424
#> SRR1026990 4 0.4262 0.2736 0.440 0.000 0.000 0.560 0.000
#> SRR1026991 3 0.2377 0.5729 0.000 0.000 0.872 0.000 0.128
#> SRR1026992 1 0.0771 0.7601 0.976 0.000 0.000 0.020 0.004
#> SRR1026993 1 0.4976 -0.1189 0.504 0.000 0.000 0.468 0.028
#> SRR1026994 4 0.4216 0.6283 0.120 0.000 0.000 0.780 0.100
#> SRR1026995 1 0.5336 0.4537 0.648 0.000 0.000 0.252 0.100
#> SRR1026996 4 0.4798 0.3333 0.396 0.000 0.000 0.580 0.024
#> SRR1026997 4 0.4798 0.3333 0.396 0.000 0.000 0.580 0.024
#> SRR1026998 3 0.3333 0.5421 0.000 0.000 0.788 0.004 0.208
#> SRR1026999 3 0.3333 0.5421 0.000 0.000 0.788 0.004 0.208
#> SRR1027000 4 0.5291 0.2076 0.456 0.000 0.000 0.496 0.048
#> SRR1027001 3 0.5224 0.1476 0.080 0.000 0.644 0.000 0.276
#> SRR1027002 4 0.5728 0.3735 0.000 0.176 0.000 0.624 0.200
#> SRR1027003 4 0.3527 0.6100 0.000 0.016 0.000 0.792 0.192
#> SRR1027004 1 0.4134 0.5932 0.760 0.000 0.000 0.196 0.044
#> SRR1027005 3 0.3707 0.4721 0.000 0.000 0.716 0.000 0.284
#> SRR1027006 1 0.1851 0.6887 0.912 0.000 0.000 0.000 0.088
#> SRR1027007 4 0.2921 0.6679 0.020 0.000 0.000 0.856 0.124
#> SRR1027008 4 0.4977 0.1889 0.472 0.000 0.000 0.500 0.028
#> SRR1027009 3 0.2127 0.5860 0.000 0.000 0.892 0.000 0.108
#> SRR1027010 5 0.5794 0.3637 0.096 0.000 0.384 0.000 0.520
#> SRR1027011 3 0.2127 0.5860 0.000 0.000 0.892 0.000 0.108
#> SRR1177668 3 0.3534 0.3822 0.000 0.000 0.744 0.000 0.256
#> SRR1177667 1 0.0404 0.7491 0.988 0.000 0.000 0.000 0.012
#> SRR1177669 5 0.5167 0.4889 0.404 0.000 0.044 0.000 0.552
#> SRR1177670 3 0.5778 -0.2810 0.088 0.000 0.460 0.000 0.452
#> SRR1177671 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1177672 3 0.5630 -0.0447 0.088 0.000 0.560 0.000 0.352
#> SRR1177673 1 0.4088 0.0814 0.632 0.000 0.000 0.000 0.368
#> SRR1177674 3 0.3424 0.4080 0.000 0.000 0.760 0.000 0.240
#> SRR1177675 1 0.0510 0.7474 0.984 0.000 0.000 0.000 0.016
#> SRR1177676 5 0.6350 0.5463 0.240 0.000 0.236 0.000 0.524
#> SRR1177677 1 0.4836 0.4008 0.652 0.000 0.000 0.304 0.044
#> SRR1177678 1 0.2329 0.6370 0.876 0.000 0.000 0.000 0.124
#> SRR1177679 2 0.1043 0.8533 0.000 0.960 0.000 0.000 0.040
#> SRR1177680 4 0.3527 0.6100 0.000 0.016 0.000 0.792 0.192
#> SRR1177681 1 0.4588 0.5503 0.720 0.000 0.000 0.220 0.060
#> SRR1177682 4 0.5322 0.3346 0.392 0.000 0.000 0.552 0.056
#> SRR1177683 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1177684 2 0.1043 0.8533 0.000 0.960 0.000 0.000 0.040
#> SRR1177685 1 0.0609 0.7444 0.980 0.000 0.000 0.000 0.020
#> SRR1177686 3 0.3707 0.4721 0.000 0.000 0.716 0.000 0.284
#> SRR1177687 4 0.3863 0.5987 0.000 0.028 0.000 0.772 0.200
#> SRR1177688 1 0.4707 0.5326 0.708 0.000 0.000 0.228 0.064
#> SRR1177689 4 0.2362 0.6779 0.024 0.000 0.000 0.900 0.076
#> SRR1177690 4 0.5046 0.1897 0.468 0.000 0.000 0.500 0.032
#> SRR1177691 2 0.1121 0.8542 0.000 0.956 0.000 0.000 0.044
#> SRR1177692 4 0.2629 0.6729 0.004 0.012 0.000 0.880 0.104
#> SRR1177693 2 0.0404 0.8565 0.000 0.988 0.000 0.000 0.012
#> SRR1177694 2 0.4210 0.8004 0.000 0.780 0.000 0.096 0.124
#> SRR1177695 4 0.3339 0.6394 0.124 0.000 0.000 0.836 0.040
#> SRR1177697 4 0.4957 0.2381 0.444 0.000 0.000 0.528 0.028
#> SRR1177696 1 0.4678 0.5315 0.712 0.000 0.000 0.224 0.064
#> SRR1177698 3 0.2127 0.5860 0.000 0.000 0.892 0.000 0.108
#> SRR1177700 1 0.4803 0.0233 0.536 0.000 0.000 0.444 0.020
#> SRR1177701 4 0.4297 0.2021 0.472 0.000 0.000 0.528 0.000
#> SRR1177702 3 0.4464 0.3327 0.000 0.000 0.584 0.008 0.408
#> SRR1177703 4 0.4307 0.1296 0.496 0.000 0.000 0.504 0.000
#> SRR1177704 3 0.5623 0.2265 0.056 0.000 0.520 0.008 0.416
#> SRR1177705 4 0.4971 0.2209 0.460 0.000 0.000 0.512 0.028
#> SRR1177706 4 0.6434 -0.0894 0.000 0.392 0.000 0.432 0.176
#> SRR1177707 4 0.4297 0.2021 0.472 0.000 0.000 0.528 0.000
#> SRR1177708 1 0.3724 0.6247 0.788 0.000 0.000 0.184 0.028
#> SRR1177709 1 0.0566 0.7544 0.984 0.000 0.000 0.004 0.012
#> SRR1177710 5 0.5620 0.4018 0.116 0.000 0.272 0.000 0.612
#> SRR1177711 1 0.0703 0.7411 0.976 0.000 0.000 0.000 0.024
#> SRR1177712 3 0.7159 0.0193 0.180 0.000 0.408 0.032 0.380
#> SRR1177714 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1177713 3 0.1830 0.5859 0.000 0.000 0.924 0.008 0.068
#> SRR1177715 4 0.5414 0.4354 0.000 0.140 0.000 0.660 0.200
#> SRR1177716 3 0.4015 0.4316 0.000 0.000 0.652 0.000 0.348
#> SRR1177717 1 0.0963 0.7589 0.964 0.000 0.000 0.036 0.000
#> SRR1177718 1 0.2230 0.6481 0.884 0.000 0.000 0.000 0.116
#> SRR1177719 1 0.1043 0.7584 0.960 0.000 0.000 0.040 0.000
#> SRR1177720 3 0.5517 0.2261 0.056 0.000 0.520 0.004 0.420
#> SRR1177721 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1177722 2 0.1608 0.8458 0.000 0.928 0.000 0.000 0.072
#> SRR1177723 1 0.2193 0.7312 0.900 0.000 0.000 0.092 0.008
#> SRR1177725 1 0.0671 0.7592 0.980 0.000 0.000 0.016 0.004
#> SRR1177724 1 0.2361 0.7263 0.892 0.000 0.000 0.096 0.012
#> SRR1177726 3 0.2280 0.5766 0.000 0.000 0.880 0.000 0.120
#> SRR1177727 1 0.5213 -0.2136 0.556 0.000 0.048 0.000 0.396
#> SRR1177728 3 0.2127 0.5860 0.000 0.000 0.892 0.000 0.108
#> SRR1177729 1 0.2068 0.7331 0.904 0.000 0.000 0.092 0.004
#> SRR1177730 3 0.6254 -0.2188 0.160 0.000 0.500 0.000 0.340
#> SRR1177731 1 0.4088 0.1112 0.632 0.000 0.000 0.000 0.368
#> SRR1177732 3 0.6200 -0.1822 0.160 0.000 0.520 0.000 0.320
#> SRR1177733 4 0.5042 0.2203 0.460 0.000 0.000 0.508 0.032
#> SRR1177734 1 0.3061 0.6772 0.844 0.000 0.000 0.136 0.020
#> SRR1177735 4 0.2054 0.6738 0.052 0.000 0.000 0.920 0.028
#> SRR1177736 1 0.0510 0.7510 0.984 0.000 0.000 0.000 0.016
#> SRR1177737 2 0.5268 0.6878 0.000 0.668 0.000 0.220 0.112
#> SRR1177738 4 0.7115 0.2778 0.256 0.000 0.036 0.496 0.212
#> SRR1177739 1 0.0693 0.7563 0.980 0.000 0.000 0.008 0.012
#> SRR1177740 4 0.4968 0.2310 0.456 0.000 0.000 0.516 0.028
#> SRR1177741 1 0.3796 0.2855 0.700 0.000 0.000 0.000 0.300
#> SRR1177742 3 0.1478 0.6025 0.000 0.000 0.936 0.000 0.064
#> SRR1177743 5 0.6452 0.5230 0.220 0.000 0.284 0.000 0.496
#> SRR1177744 5 0.6383 0.4824 0.184 0.000 0.328 0.000 0.488
#> SRR1177745 4 0.2873 0.6667 0.000 0.020 0.000 0.860 0.120
#> SRR1177746 4 0.3863 0.5900 0.000 0.028 0.000 0.772 0.200
#> SRR1177747 5 0.4528 0.1337 0.008 0.000 0.444 0.000 0.548
#> SRR1177748 3 0.1478 0.6025 0.000 0.000 0.936 0.000 0.064
#> SRR1177749 1 0.2230 0.6481 0.884 0.000 0.000 0.000 0.116
#> SRR1177750 1 0.4113 0.5652 0.740 0.000 0.000 0.232 0.028
#> SRR1177751 4 0.4430 0.6144 0.172 0.000 0.000 0.752 0.076
#> SRR1177752 1 0.0865 0.7604 0.972 0.000 0.000 0.024 0.004
#> SRR1177753 1 0.0898 0.7602 0.972 0.000 0.000 0.020 0.008
#> SRR1177754 5 0.5271 0.4748 0.432 0.000 0.048 0.000 0.520
#> SRR1177755 1 0.4980 -0.1600 0.488 0.000 0.000 0.484 0.028
#> SRR1177756 4 0.4313 0.6152 0.172 0.000 0.000 0.760 0.068
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.2300 0.785706 0.000 0.856 0.000 0.000 0.144 0.000
#> SRR1026871 2 0.2300 0.785706 0.000 0.856 0.000 0.000 0.144 0.000
#> SRR1026872 2 0.2730 0.785314 0.000 0.808 0.000 0.000 0.192 0.000
#> SRR1026873 1 0.3868 -0.318871 0.504 0.000 0.000 0.000 0.000 0.496
#> SRR1026874 3 0.1285 0.549820 0.000 0.000 0.944 0.000 0.052 0.004
#> SRR1026875 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1026876 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1026877 3 0.5284 -0.485530 0.000 0.000 0.508 0.000 0.388 0.104
#> SRR1026878 3 0.5284 -0.485530 0.000 0.000 0.508 0.000 0.388 0.104
#> SRR1026879 6 0.4852 0.611208 0.220 0.000 0.032 0.000 0.060 0.688
#> SRR1026880 6 0.5588 0.642270 0.192 0.000 0.072 0.000 0.088 0.648
#> SRR1026881 2 0.4978 -0.055070 0.000 0.500 0.000 0.432 0.068 0.000
#> SRR1026882 2 0.4067 0.493386 0.000 0.728 0.000 0.212 0.060 0.000
#> SRR1026883 4 0.3277 0.645121 0.016 0.008 0.000 0.832 0.016 0.128
#> SRR1026884 4 0.3277 0.645121 0.016 0.008 0.000 0.832 0.016 0.128
#> SRR1026885 4 0.6050 -0.153866 0.384 0.000 0.000 0.444 0.016 0.156
#> SRR1026886 4 0.6050 -0.153866 0.384 0.000 0.000 0.444 0.016 0.156
#> SRR1026887 6 0.5879 -0.195717 0.000 0.000 0.216 0.000 0.324 0.460
#> SRR1026888 6 0.5879 -0.195717 0.000 0.000 0.216 0.000 0.324 0.460
#> SRR1026889 2 0.1644 0.737365 0.000 0.932 0.000 0.028 0.040 0.000
#> SRR1026890 4 0.5896 0.443450 0.152 0.000 0.000 0.616 0.060 0.172
#> SRR1026891 1 0.0603 0.651428 0.980 0.000 0.000 0.016 0.004 0.000
#> SRR1026892 1 0.0603 0.651428 0.980 0.000 0.000 0.016 0.004 0.000
#> SRR1026893 5 0.6063 0.676953 0.000 0.000 0.328 0.000 0.400 0.272
#> SRR1026894 5 0.6063 0.676953 0.000 0.000 0.328 0.000 0.400 0.272
#> SRR1026895 4 0.1936 0.671717 0.012 0.008 0.000 0.928 0.016 0.036
#> SRR1026896 4 0.1936 0.671717 0.012 0.008 0.000 0.928 0.016 0.036
#> SRR1026897 3 0.3066 0.455275 0.000 0.000 0.832 0.000 0.124 0.044
#> SRR1026898 1 0.2913 0.534113 0.812 0.000 0.000 0.004 0.004 0.180
#> SRR1026899 6 0.5729 0.664725 0.112 0.000 0.152 0.000 0.088 0.648
#> SRR1026900 4 0.5576 0.533771 0.000 0.200 0.000 0.644 0.096 0.060
#> SRR1026901 4 0.3445 0.667506 0.004 0.044 0.000 0.844 0.048 0.060
#> SRR1026902 1 0.5594 0.485373 0.588 0.000 0.000 0.268 0.020 0.124
#> SRR1026903 1 0.5594 0.485373 0.588 0.000 0.000 0.268 0.020 0.124
#> SRR1026904 4 0.4971 0.488688 0.136 0.000 0.000 0.692 0.020 0.152
#> SRR1026905 4 0.4971 0.488688 0.136 0.000 0.000 0.692 0.020 0.152
#> SRR1026906 2 0.1245 0.759301 0.000 0.952 0.000 0.032 0.016 0.000
#> SRR1026907 2 0.1245 0.759301 0.000 0.952 0.000 0.032 0.016 0.000
#> SRR1026908 2 0.2597 0.786758 0.000 0.824 0.000 0.000 0.176 0.000
#> SRR1026909 2 0.2597 0.786758 0.000 0.824 0.000 0.000 0.176 0.000
#> SRR1026910 4 0.3353 0.637624 0.020 0.008 0.000 0.824 0.012 0.136
#> SRR1026911 4 0.3353 0.637624 0.020 0.008 0.000 0.824 0.012 0.136
#> SRR1026912 5 0.6099 0.769087 0.004 0.000 0.344 0.004 0.448 0.200
#> SRR1026913 5 0.6099 0.769087 0.004 0.000 0.344 0.004 0.448 0.200
#> SRR1026914 2 0.0713 0.755757 0.000 0.972 0.000 0.028 0.000 0.000
#> SRR1026915 2 0.0713 0.755757 0.000 0.972 0.000 0.028 0.000 0.000
#> SRR1026916 2 0.1572 0.739544 0.000 0.936 0.000 0.028 0.036 0.000
#> SRR1026917 2 0.1572 0.739544 0.000 0.936 0.000 0.028 0.036 0.000
#> SRR1026918 4 0.4421 0.540876 0.000 0.220 0.000 0.708 0.064 0.008
#> SRR1026919 4 0.4421 0.540876 0.000 0.220 0.000 0.708 0.064 0.008
#> SRR1026920 4 0.4863 0.252035 0.000 0.412 0.000 0.528 0.060 0.000
#> SRR1026921 4 0.4863 0.252035 0.000 0.412 0.000 0.528 0.060 0.000
#> SRR1026922 2 0.1088 0.760658 0.000 0.960 0.000 0.024 0.016 0.000
#> SRR1026923 2 0.2714 0.692639 0.000 0.872 0.000 0.064 0.060 0.004
#> SRR1026924 4 0.2024 0.672087 0.012 0.008 0.000 0.924 0.020 0.036
#> SRR1026925 5 0.6170 0.702419 0.004 0.000 0.308 0.000 0.412 0.276
#> SRR1026926 4 0.3107 0.640022 0.016 0.000 0.000 0.832 0.016 0.136
#> SRR1026927 1 0.2020 0.571679 0.896 0.000 0.000 0.000 0.008 0.096
#> SRR1026928 4 0.4663 0.516838 0.000 0.244 0.000 0.680 0.064 0.012
#> SRR1026929 3 0.5513 -0.558398 0.000 0.000 0.476 0.000 0.392 0.132
#> SRR1026930 2 0.5425 -0.000455 0.000 0.508 0.000 0.396 0.084 0.012
#> SRR1026931 2 0.3265 0.779910 0.000 0.748 0.000 0.000 0.248 0.004
#> SRR1026932 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1026933 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1026934 2 0.2697 0.786868 0.000 0.812 0.000 0.000 0.188 0.000
#> SRR1026935 2 0.2697 0.786868 0.000 0.812 0.000 0.000 0.188 0.000
#> SRR1026936 4 0.3312 0.639866 0.020 0.008 0.000 0.828 0.012 0.132
#> SRR1026937 4 0.3312 0.639866 0.020 0.008 0.000 0.828 0.012 0.132
#> SRR1026938 2 0.0865 0.753860 0.000 0.964 0.000 0.036 0.000 0.000
#> SRR1026939 2 0.0865 0.753860 0.000 0.964 0.000 0.036 0.000 0.000
#> SRR1026940 1 0.5191 0.517310 0.624 0.000 0.000 0.252 0.008 0.116
#> SRR1026941 3 0.0790 0.557841 0.000 0.000 0.968 0.000 0.032 0.000
#> SRR1026942 1 0.1219 0.622755 0.948 0.000 0.000 0.004 0.000 0.048
#> SRR1026943 1 0.6034 0.445752 0.536 0.000 0.000 0.264 0.024 0.176
#> SRR1026944 1 0.1444 0.599158 0.928 0.000 0.000 0.000 0.000 0.072
#> SRR1026945 6 0.5636 0.650553 0.096 0.000 0.140 0.000 0.104 0.660
#> SRR1026947 2 0.2730 0.786657 0.000 0.808 0.000 0.000 0.192 0.000
#> SRR1026946 2 0.0713 0.755757 0.000 0.972 0.000 0.028 0.000 0.000
#> SRR1026948 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1026949 4 0.3630 0.634234 0.024 0.000 0.000 0.796 0.024 0.156
#> SRR1026950 1 0.5401 0.526507 0.628 0.000 0.000 0.208 0.016 0.148
#> SRR1026951 4 0.3251 0.663696 0.008 0.000 0.000 0.828 0.040 0.124
#> SRR1026952 1 0.1075 0.619150 0.952 0.000 0.000 0.000 0.000 0.048
#> SRR1026953 3 0.1501 0.582422 0.000 0.000 0.924 0.000 0.000 0.076
#> SRR1026954 4 0.5140 0.481102 0.164 0.000 0.000 0.672 0.020 0.144
#> SRR1026955 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1026956 1 0.0717 0.650487 0.976 0.000 0.000 0.016 0.000 0.008
#> SRR1026957 2 0.5020 -0.063204 0.000 0.500 0.000 0.436 0.060 0.004
#> SRR1026958 1 0.6032 0.428753 0.528 0.000 0.000 0.284 0.024 0.164
#> SRR1026959 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1026960 4 0.5234 0.587650 0.056 0.156 0.000 0.708 0.064 0.016
#> SRR1026961 4 0.4516 0.543848 0.000 0.220 0.000 0.704 0.064 0.012
#> SRR1026962 1 0.1387 0.602675 0.932 0.000 0.000 0.000 0.000 0.068
#> SRR1026963 1 0.3868 -0.318871 0.504 0.000 0.000 0.000 0.000 0.496
#> SRR1026964 4 0.3271 0.641891 0.020 0.008 0.000 0.832 0.012 0.128
#> SRR1026965 4 0.3271 0.641891 0.020 0.008 0.000 0.832 0.012 0.128
#> SRR1026966 3 0.0790 0.557841 0.000 0.000 0.968 0.000 0.032 0.000
#> SRR1026967 3 0.0790 0.557841 0.000 0.000 0.968 0.000 0.032 0.000
#> SRR1026968 4 0.1956 0.676160 0.016 0.008 0.000 0.928 0.032 0.016
#> SRR1026969 4 0.5509 0.405249 0.224 0.000 0.000 0.616 0.020 0.140
#> SRR1026970 1 0.6004 0.410809 0.524 0.000 0.000 0.300 0.024 0.152
#> SRR1026971 1 0.6004 0.410809 0.524 0.000 0.000 0.300 0.024 0.152
#> SRR1026972 4 0.6799 -0.154268 0.364 0.000 0.000 0.388 0.060 0.188
#> SRR1026973 4 0.6799 -0.154268 0.364 0.000 0.000 0.388 0.060 0.188
#> SRR1026974 1 0.0520 0.646378 0.984 0.000 0.000 0.008 0.000 0.008
#> SRR1026975 1 0.0520 0.646378 0.984 0.000 0.000 0.008 0.000 0.008
#> SRR1026976 1 0.6050 0.267029 0.444 0.000 0.000 0.384 0.016 0.156
#> SRR1026977 1 0.6050 0.267029 0.444 0.000 0.000 0.384 0.016 0.156
#> SRR1026978 4 0.3463 0.666485 0.004 0.028 0.000 0.840 0.064 0.064
#> SRR1026979 3 0.0790 0.557841 0.000 0.000 0.968 0.000 0.032 0.000
#> SRR1026980 4 0.3834 0.650852 0.008 0.000 0.000 0.772 0.048 0.172
#> SRR1026981 1 0.7806 0.143143 0.340 0.000 0.008 0.236 0.220 0.196
#> SRR1026982 4 0.2672 0.674022 0.012 0.040 0.000 0.892 0.040 0.016
#> SRR1026983 4 0.2672 0.674022 0.012 0.040 0.000 0.892 0.040 0.016
#> SRR1026984 4 0.5040 0.407154 0.000 0.328 0.000 0.596 0.064 0.012
#> SRR1026985 4 0.5040 0.407154 0.000 0.328 0.000 0.596 0.064 0.012
#> SRR1026986 4 0.5825 0.592936 0.056 0.128 0.000 0.680 0.092 0.044
#> SRR1026987 1 0.6120 0.394087 0.504 0.000 0.000 0.304 0.024 0.168
#> SRR1026988 1 0.3867 -0.303306 0.512 0.000 0.000 0.000 0.000 0.488
#> SRR1026989 3 0.6049 -0.585354 0.000 0.000 0.404 0.000 0.332 0.264
#> SRR1026990 1 0.6114 0.356768 0.488 0.000 0.000 0.332 0.024 0.156
#> SRR1026991 3 0.1765 0.568195 0.000 0.000 0.904 0.000 0.000 0.096
#> SRR1026992 1 0.0291 0.644930 0.992 0.000 0.000 0.004 0.000 0.004
#> SRR1026993 1 0.5717 0.496885 0.596 0.000 0.000 0.220 0.024 0.160
#> SRR1026994 4 0.6521 0.454363 0.128 0.000 0.000 0.540 0.104 0.228
#> SRR1026995 1 0.6458 0.418709 0.532 0.000 0.000 0.232 0.068 0.168
#> SRR1026996 4 0.6086 -0.120514 0.372 0.000 0.000 0.456 0.020 0.152
#> SRR1026997 4 0.6086 -0.120514 0.372 0.000 0.000 0.456 0.020 0.152
#> SRR1026998 3 0.5290 -0.491452 0.000 0.000 0.504 0.000 0.392 0.104
#> SRR1026999 3 0.5290 -0.491452 0.000 0.000 0.504 0.000 0.392 0.104
#> SRR1027000 1 0.6711 0.277367 0.424 0.000 0.000 0.316 0.048 0.212
#> SRR1027001 3 0.4275 -0.040072 0.016 0.000 0.592 0.000 0.004 0.388
#> SRR1027002 4 0.5746 0.404149 0.000 0.316 0.000 0.556 0.092 0.036
#> SRR1027003 4 0.4629 0.627893 0.004 0.080 0.000 0.760 0.088 0.068
#> SRR1027004 1 0.3888 0.626059 0.780 0.000 0.000 0.108 0.004 0.108
#> SRR1027005 3 0.5513 -0.558398 0.000 0.000 0.476 0.000 0.392 0.132
#> SRR1027006 1 0.2668 0.512043 0.828 0.000 0.000 0.000 0.004 0.168
#> SRR1027007 4 0.5125 0.639756 0.064 0.068 0.000 0.744 0.080 0.044
#> SRR1027008 1 0.6029 0.438412 0.532 0.000 0.000 0.276 0.024 0.168
#> SRR1027009 3 0.1501 0.582422 0.000 0.000 0.924 0.000 0.000 0.076
#> SRR1027010 6 0.5224 0.582318 0.020 0.000 0.232 0.000 0.104 0.644
#> SRR1027011 3 0.1501 0.582422 0.000 0.000 0.924 0.000 0.000 0.076
#> SRR1177668 3 0.3371 0.293980 0.000 0.000 0.708 0.000 0.000 0.292
#> SRR1177667 1 0.1387 0.602675 0.932 0.000 0.000 0.000 0.000 0.068
#> SRR1177669 6 0.5248 0.631126 0.188 0.000 0.040 0.000 0.100 0.672
#> SRR1177670 6 0.5303 0.555733 0.016 0.000 0.280 0.000 0.096 0.608
#> SRR1177671 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1177672 6 0.4563 0.363350 0.016 0.000 0.448 0.000 0.012 0.524
#> SRR1177673 6 0.3789 0.438312 0.416 0.000 0.000 0.000 0.000 0.584
#> SRR1177674 3 0.3101 0.390443 0.000 0.000 0.756 0.000 0.000 0.244
#> SRR1177675 1 0.1387 0.602675 0.932 0.000 0.000 0.000 0.000 0.068
#> SRR1177676 6 0.5761 0.661034 0.108 0.000 0.140 0.000 0.104 0.648
#> SRR1177677 1 0.5580 0.544660 0.620 0.000 0.000 0.168 0.024 0.188
#> SRR1177678 1 0.3390 0.228014 0.704 0.000 0.000 0.000 0.000 0.296
#> SRR1177679 2 0.3528 0.768042 0.000 0.700 0.000 0.000 0.296 0.004
#> SRR1177680 4 0.4474 0.632845 0.004 0.076 0.000 0.772 0.084 0.064
#> SRR1177681 1 0.5023 0.562903 0.664 0.000 0.000 0.188 0.008 0.140
#> SRR1177682 4 0.6780 -0.104783 0.348 0.000 0.000 0.392 0.052 0.208
#> SRR1177683 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1177684 2 0.3489 0.769470 0.000 0.708 0.000 0.000 0.288 0.004
#> SRR1177685 1 0.1444 0.599158 0.928 0.000 0.000 0.000 0.000 0.072
#> SRR1177686 3 0.5513 -0.558398 0.000 0.000 0.476 0.000 0.392 0.132
#> SRR1177687 4 0.4477 0.637490 0.004 0.072 0.000 0.772 0.084 0.068
#> SRR1177688 1 0.5016 0.561335 0.664 0.000 0.000 0.192 0.008 0.136
#> SRR1177689 4 0.2731 0.667869 0.012 0.000 0.000 0.876 0.044 0.068
#> SRR1177690 1 0.5937 0.460585 0.564 0.000 0.000 0.244 0.028 0.164
#> SRR1177691 2 0.3575 0.772394 0.000 0.708 0.000 0.000 0.284 0.008
#> SRR1177692 4 0.2885 0.666438 0.004 0.008 0.000 0.868 0.044 0.076
#> SRR1177693 2 0.2941 0.782031 0.000 0.780 0.000 0.000 0.220 0.000
#> SRR1177694 2 0.1720 0.734727 0.000 0.928 0.000 0.032 0.040 0.000
#> SRR1177695 4 0.5296 0.579635 0.088 0.000 0.000 0.672 0.052 0.188
#> SRR1177697 1 0.6059 0.404219 0.528 0.000 0.000 0.288 0.028 0.156
#> SRR1177696 1 0.5539 0.508735 0.604 0.000 0.000 0.232 0.016 0.148
#> SRR1177698 3 0.1501 0.582422 0.000 0.000 0.924 0.000 0.000 0.076
#> SRR1177700 1 0.5802 0.338714 0.476 0.000 0.000 0.356 0.004 0.164
#> SRR1177701 1 0.5758 0.447483 0.552 0.000 0.000 0.288 0.016 0.144
#> SRR1177702 5 0.5784 0.743287 0.000 0.000 0.332 0.000 0.476 0.192
#> SRR1177703 1 0.5613 0.485081 0.584 0.000 0.000 0.260 0.016 0.140
#> SRR1177704 5 0.5784 0.745297 0.000 0.000 0.332 0.000 0.476 0.192
#> SRR1177705 1 0.6079 0.429842 0.524 0.000 0.000 0.276 0.024 0.176
#> SRR1177706 4 0.6559 0.248491 0.000 0.176 0.000 0.496 0.268 0.060
#> SRR1177707 1 0.5758 0.447483 0.552 0.000 0.000 0.288 0.016 0.144
#> SRR1177708 1 0.4543 0.568909 0.692 0.000 0.000 0.224 0.004 0.080
#> SRR1177709 1 0.2173 0.638380 0.904 0.000 0.000 0.028 0.004 0.064
#> SRR1177710 6 0.5150 0.528213 0.024 0.000 0.160 0.000 0.140 0.676
#> SRR1177711 1 0.1444 0.599158 0.928 0.000 0.000 0.000 0.000 0.072
#> SRR1177712 5 0.7564 0.447605 0.128 0.000 0.256 0.008 0.380 0.228
#> SRR1177714 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1177713 3 0.2979 0.465333 0.000 0.000 0.840 0.000 0.116 0.044
#> SRR1177715 4 0.6110 0.453859 0.004 0.256 0.000 0.576 0.100 0.064
#> SRR1177716 3 0.5772 -0.499181 0.000 0.000 0.468 0.000 0.348 0.184
#> SRR1177717 1 0.0767 0.648324 0.976 0.000 0.000 0.012 0.004 0.008
#> SRR1177718 1 0.3371 0.235986 0.708 0.000 0.000 0.000 0.000 0.292
#> SRR1177719 1 0.0891 0.655598 0.968 0.000 0.000 0.024 0.000 0.008
#> SRR1177720 5 0.5778 0.752920 0.000 0.000 0.352 0.000 0.464 0.184
#> SRR1177721 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1177722 2 0.3684 0.749496 0.000 0.628 0.000 0.000 0.372 0.000
#> SRR1177723 1 0.2039 0.655953 0.916 0.000 0.000 0.020 0.012 0.052
#> SRR1177725 1 0.0508 0.641338 0.984 0.000 0.000 0.004 0.000 0.012
#> SRR1177724 1 0.1262 0.654688 0.956 0.000 0.000 0.016 0.008 0.020
#> SRR1177726 3 0.1501 0.582422 0.000 0.000 0.924 0.000 0.000 0.076
#> SRR1177727 6 0.4524 0.493652 0.376 0.000 0.000 0.000 0.040 0.584
#> SRR1177728 3 0.1501 0.582422 0.000 0.000 0.924 0.000 0.000 0.076
#> SRR1177729 1 0.1503 0.654739 0.944 0.000 0.000 0.016 0.008 0.032
#> SRR1177730 6 0.5055 0.423874 0.056 0.000 0.420 0.000 0.008 0.516
#> SRR1177731 6 0.4039 0.432530 0.424 0.000 0.000 0.000 0.008 0.568
#> SRR1177732 6 0.5027 0.371808 0.060 0.000 0.448 0.000 0.004 0.488
#> SRR1177733 1 0.6145 0.287226 0.440 0.000 0.000 0.368 0.016 0.176
#> SRR1177734 1 0.2571 0.659603 0.876 0.000 0.000 0.064 0.000 0.060
#> SRR1177735 4 0.3850 0.630153 0.024 0.000 0.000 0.784 0.036 0.156
#> SRR1177736 1 0.1949 0.619921 0.904 0.000 0.000 0.004 0.004 0.088
#> SRR1177737 2 0.3652 0.553576 0.000 0.768 0.000 0.188 0.044 0.000
#> SRR1177738 4 0.7570 0.200241 0.140 0.000 0.008 0.368 0.296 0.188
#> SRR1177739 1 0.1760 0.648395 0.928 0.000 0.000 0.020 0.004 0.048
#> SRR1177740 1 0.6057 0.422709 0.524 0.000 0.000 0.284 0.024 0.168
#> SRR1177741 1 0.3869 -0.328842 0.500 0.000 0.000 0.000 0.000 0.500
#> SRR1177742 3 0.0790 0.580061 0.000 0.000 0.968 0.000 0.000 0.032
#> SRR1177743 6 0.5750 0.656387 0.088 0.000 0.176 0.000 0.096 0.640
#> SRR1177744 6 0.5653 0.642461 0.068 0.000 0.196 0.000 0.096 0.640
#> SRR1177745 4 0.2817 0.667159 0.004 0.008 0.000 0.872 0.040 0.076
#> SRR1177746 4 0.4949 0.605793 0.004 0.104 0.000 0.732 0.096 0.064
#> SRR1177747 6 0.5135 0.441046 0.000 0.000 0.260 0.000 0.132 0.608
#> SRR1177748 3 0.0790 0.580061 0.000 0.000 0.968 0.000 0.000 0.032
#> SRR1177749 1 0.3390 0.228014 0.704 0.000 0.000 0.000 0.000 0.296
#> SRR1177750 1 0.3048 0.655380 0.848 0.000 0.000 0.044 0.008 0.100
#> SRR1177751 4 0.5267 0.516933 0.196 0.000 0.000 0.672 0.056 0.076
#> SRR1177752 1 0.0665 0.646127 0.980 0.000 0.000 0.008 0.004 0.008
#> SRR1177753 1 0.0777 0.651254 0.972 0.000 0.000 0.004 0.000 0.024
#> SRR1177754 6 0.5278 0.626944 0.212 0.000 0.040 0.000 0.088 0.660
#> SRR1177755 1 0.5792 0.479214 0.580 0.000 0.000 0.240 0.024 0.156
#> SRR1177756 4 0.5220 0.492118 0.220 0.000 0.000 0.664 0.056 0.060
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["ATC", "skmeans"]
# you can also extract it by
# res = res_list["ATC:skmeans"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'ATC' method.
#> Subgroups are detected by 'skmeans' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 3.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 1.000 0.987 0.995 0.5015 0.499 0.499
#> 3 3 0.901 0.912 0.961 0.3086 0.762 0.557
#> 4 4 0.813 0.703 0.873 0.1087 0.893 0.704
#> 5 5 0.771 0.714 0.863 0.0620 0.867 0.576
#> 6 6 0.743 0.584 0.748 0.0434 0.879 0.542
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 3
#> attr(,"optional")
#> [1] 2
There is also optional best \(k\) = 2 that is worth to check.
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.998 0.000 1.000
#> SRR1026871 2 0.0000 0.998 0.000 1.000
#> SRR1026872 2 0.0000 0.998 0.000 1.000
#> SRR1026873 1 0.0000 0.991 1.000 0.000
#> SRR1026874 1 0.0000 0.991 1.000 0.000
#> SRR1026875 2 0.0000 0.998 0.000 1.000
#> SRR1026876 2 0.0000 0.998 0.000 1.000
#> SRR1026877 1 0.0000 0.991 1.000 0.000
#> SRR1026878 1 0.0000 0.991 1.000 0.000
#> SRR1026879 1 0.0000 0.991 1.000 0.000
#> SRR1026880 1 0.0000 0.991 1.000 0.000
#> SRR1026881 2 0.0000 0.998 0.000 1.000
#> SRR1026882 2 0.0000 0.998 0.000 1.000
#> SRR1026883 2 0.0000 0.998 0.000 1.000
#> SRR1026884 2 0.0000 0.998 0.000 1.000
#> SRR1026885 2 0.0000 0.998 0.000 1.000
#> SRR1026886 2 0.0000 0.998 0.000 1.000
#> SRR1026887 1 0.0000 0.991 1.000 0.000
#> SRR1026888 1 0.0000 0.991 1.000 0.000
#> SRR1026889 2 0.0000 0.998 0.000 1.000
#> SRR1026890 2 0.0000 0.998 0.000 1.000
#> SRR1026891 1 0.0000 0.991 1.000 0.000
#> SRR1026892 1 0.0000 0.991 1.000 0.000
#> SRR1026893 1 0.0000 0.991 1.000 0.000
#> SRR1026894 1 0.0000 0.991 1.000 0.000
#> SRR1026895 2 0.0000 0.998 0.000 1.000
#> SRR1026896 2 0.0000 0.998 0.000 1.000
#> SRR1026897 1 0.0000 0.991 1.000 0.000
#> SRR1026898 1 0.0000 0.991 1.000 0.000
#> SRR1026899 1 0.0000 0.991 1.000 0.000
#> SRR1026900 2 0.0000 0.998 0.000 1.000
#> SRR1026901 2 0.0000 0.998 0.000 1.000
#> SRR1026902 1 0.0000 0.991 1.000 0.000
#> SRR1026903 1 0.0000 0.991 1.000 0.000
#> SRR1026904 2 0.0000 0.998 0.000 1.000
#> SRR1026905 2 0.0000 0.998 0.000 1.000
#> SRR1026906 2 0.0000 0.998 0.000 1.000
#> SRR1026907 2 0.0000 0.998 0.000 1.000
#> SRR1026908 2 0.0000 0.998 0.000 1.000
#> SRR1026909 2 0.0000 0.998 0.000 1.000
#> SRR1026910 2 0.0000 0.998 0.000 1.000
#> SRR1026911 2 0.0000 0.998 0.000 1.000
#> SRR1026912 1 0.0000 0.991 1.000 0.000
#> SRR1026913 1 0.0000 0.991 1.000 0.000
#> SRR1026914 2 0.0000 0.998 0.000 1.000
#> SRR1026915 2 0.0000 0.998 0.000 1.000
#> SRR1026916 2 0.0000 0.998 0.000 1.000
#> SRR1026917 2 0.0000 0.998 0.000 1.000
#> SRR1026918 2 0.0000 0.998 0.000 1.000
#> SRR1026919 2 0.0000 0.998 0.000 1.000
#> SRR1026920 2 0.0000 0.998 0.000 1.000
#> SRR1026921 2 0.0000 0.998 0.000 1.000
#> SRR1026922 2 0.0000 0.998 0.000 1.000
#> SRR1026923 2 0.0000 0.998 0.000 1.000
#> SRR1026924 2 0.0000 0.998 0.000 1.000
#> SRR1026925 1 0.0000 0.991 1.000 0.000
#> SRR1026926 2 0.0000 0.998 0.000 1.000
#> SRR1026927 1 0.0000 0.991 1.000 0.000
#> SRR1026928 2 0.0000 0.998 0.000 1.000
#> SRR1026929 1 0.0000 0.991 1.000 0.000
#> SRR1026930 2 0.0000 0.998 0.000 1.000
#> SRR1026931 2 0.0000 0.998 0.000 1.000
#> SRR1026932 2 0.0000 0.998 0.000 1.000
#> SRR1026933 2 0.0000 0.998 0.000 1.000
#> SRR1026934 2 0.0000 0.998 0.000 1.000
#> SRR1026935 2 0.0000 0.998 0.000 1.000
#> SRR1026936 2 0.0000 0.998 0.000 1.000
#> SRR1026937 2 0.0000 0.998 0.000 1.000
#> SRR1026938 2 0.0000 0.998 0.000 1.000
#> SRR1026939 2 0.0000 0.998 0.000 1.000
#> SRR1026940 1 0.0000 0.991 1.000 0.000
#> SRR1026941 1 0.0000 0.991 1.000 0.000
#> SRR1026942 1 0.0000 0.991 1.000 0.000
#> SRR1026943 2 0.0000 0.998 0.000 1.000
#> SRR1026944 1 0.0000 0.991 1.000 0.000
#> SRR1026945 1 0.0000 0.991 1.000 0.000
#> SRR1026947 2 0.0000 0.998 0.000 1.000
#> SRR1026946 2 0.0000 0.998 0.000 1.000
#> SRR1026948 2 0.0000 0.998 0.000 1.000
#> SRR1026949 2 0.0000 0.998 0.000 1.000
#> SRR1026950 2 0.0376 0.994 0.004 0.996
#> SRR1026951 2 0.0000 0.998 0.000 1.000
#> SRR1026952 1 0.0000 0.991 1.000 0.000
#> SRR1026953 1 0.0000 0.991 1.000 0.000
#> SRR1026954 2 0.0000 0.998 0.000 1.000
#> SRR1026955 2 0.0000 0.998 0.000 1.000
#> SRR1026956 1 0.0000 0.991 1.000 0.000
#> SRR1026957 2 0.0000 0.998 0.000 1.000
#> SRR1026958 2 0.0000 0.998 0.000 1.000
#> SRR1026959 2 0.0000 0.998 0.000 1.000
#> SRR1026960 2 0.0000 0.998 0.000 1.000
#> SRR1026961 2 0.0000 0.998 0.000 1.000
#> SRR1026962 1 0.0000 0.991 1.000 0.000
#> SRR1026963 1 0.0000 0.991 1.000 0.000
#> SRR1026964 2 0.0000 0.998 0.000 1.000
#> SRR1026965 2 0.0000 0.998 0.000 1.000
#> SRR1026966 1 0.0000 0.991 1.000 0.000
#> SRR1026967 1 0.0000 0.991 1.000 0.000
#> SRR1026968 2 0.0000 0.998 0.000 1.000
#> SRR1026969 2 0.0000 0.998 0.000 1.000
#> SRR1026970 2 0.0000 0.998 0.000 1.000
#> SRR1026971 2 0.0000 0.998 0.000 1.000
#> SRR1026972 1 0.0000 0.991 1.000 0.000
#> SRR1026973 1 0.0000 0.991 1.000 0.000
#> SRR1026974 1 0.0000 0.991 1.000 0.000
#> SRR1026975 1 0.0000 0.991 1.000 0.000
#> SRR1026976 2 0.0000 0.998 0.000 1.000
#> SRR1026977 2 0.0000 0.998 0.000 1.000
#> SRR1026978 2 0.0000 0.998 0.000 1.000
#> SRR1026979 1 0.0000 0.991 1.000 0.000
#> SRR1026980 2 0.0000 0.998 0.000 1.000
#> SRR1026981 1 0.0000 0.991 1.000 0.000
#> SRR1026982 2 0.0000 0.998 0.000 1.000
#> SRR1026983 2 0.0000 0.998 0.000 1.000
#> SRR1026984 2 0.0000 0.998 0.000 1.000
#> SRR1026985 2 0.0000 0.998 0.000 1.000
#> SRR1026986 2 0.0000 0.998 0.000 1.000
#> SRR1026987 2 0.0000 0.998 0.000 1.000
#> SRR1026988 1 0.0000 0.991 1.000 0.000
#> SRR1026989 1 0.0000 0.991 1.000 0.000
#> SRR1026990 2 0.0000 0.998 0.000 1.000
#> SRR1026991 1 0.0000 0.991 1.000 0.000
#> SRR1026992 1 0.0000 0.991 1.000 0.000
#> SRR1026993 2 0.0000 0.998 0.000 1.000
#> SRR1026994 2 0.0000 0.998 0.000 1.000
#> SRR1026995 1 0.0000 0.991 1.000 0.000
#> SRR1026996 2 0.5294 0.863 0.120 0.880
#> SRR1026997 2 0.5519 0.852 0.128 0.872
#> SRR1026998 1 0.0000 0.991 1.000 0.000
#> SRR1026999 1 0.0000 0.991 1.000 0.000
#> SRR1027000 1 0.9896 0.224 0.560 0.440
#> SRR1027001 1 0.0000 0.991 1.000 0.000
#> SRR1027002 2 0.0000 0.998 0.000 1.000
#> SRR1027003 2 0.0000 0.998 0.000 1.000
#> SRR1027004 1 0.0000 0.991 1.000 0.000
#> SRR1027005 1 0.0000 0.991 1.000 0.000
#> SRR1027006 1 0.0000 0.991 1.000 0.000
#> SRR1027007 2 0.0000 0.998 0.000 1.000
#> SRR1027008 2 0.0000 0.998 0.000 1.000
#> SRR1027009 1 0.0000 0.991 1.000 0.000
#> SRR1027010 1 0.0000 0.991 1.000 0.000
#> SRR1027011 1 0.0000 0.991 1.000 0.000
#> SRR1177668 1 0.0000 0.991 1.000 0.000
#> SRR1177667 1 0.0000 0.991 1.000 0.000
#> SRR1177669 1 0.0000 0.991 1.000 0.000
#> SRR1177670 1 0.0000 0.991 1.000 0.000
#> SRR1177671 2 0.0000 0.998 0.000 1.000
#> SRR1177672 1 0.0000 0.991 1.000 0.000
#> SRR1177673 1 0.0000 0.991 1.000 0.000
#> SRR1177674 1 0.0000 0.991 1.000 0.000
#> SRR1177675 1 0.0000 0.991 1.000 0.000
#> SRR1177676 1 0.0000 0.991 1.000 0.000
#> SRR1177677 1 0.4815 0.880 0.896 0.104
#> SRR1177678 1 0.0000 0.991 1.000 0.000
#> SRR1177679 2 0.0000 0.998 0.000 1.000
#> SRR1177680 2 0.0000 0.998 0.000 1.000
#> SRR1177681 1 0.0000 0.991 1.000 0.000
#> SRR1177682 2 0.0000 0.998 0.000 1.000
#> SRR1177683 2 0.0000 0.998 0.000 1.000
#> SRR1177684 2 0.0000 0.998 0.000 1.000
#> SRR1177685 1 0.0000 0.991 1.000 0.000
#> SRR1177686 1 0.0000 0.991 1.000 0.000
#> SRR1177687 2 0.0000 0.998 0.000 1.000
#> SRR1177688 1 0.0000 0.991 1.000 0.000
#> SRR1177689 2 0.0000 0.998 0.000 1.000
#> SRR1177690 2 0.0000 0.998 0.000 1.000
#> SRR1177691 2 0.0000 0.998 0.000 1.000
#> SRR1177692 2 0.0000 0.998 0.000 1.000
#> SRR1177693 2 0.0000 0.998 0.000 1.000
#> SRR1177694 2 0.0000 0.998 0.000 1.000
#> SRR1177695 2 0.0000 0.998 0.000 1.000
#> SRR1177697 2 0.0000 0.998 0.000 1.000
#> SRR1177696 1 0.0000 0.991 1.000 0.000
#> SRR1177698 1 0.0000 0.991 1.000 0.000
#> SRR1177700 1 0.0000 0.991 1.000 0.000
#> SRR1177701 2 0.0000 0.998 0.000 1.000
#> SRR1177702 1 0.0000 0.991 1.000 0.000
#> SRR1177703 2 0.0000 0.998 0.000 1.000
#> SRR1177704 1 0.0000 0.991 1.000 0.000
#> SRR1177705 2 0.0000 0.998 0.000 1.000
#> SRR1177706 2 0.0000 0.998 0.000 1.000
#> SRR1177707 2 0.0000 0.998 0.000 1.000
#> SRR1177708 1 0.0000 0.991 1.000 0.000
#> SRR1177709 1 0.0000 0.991 1.000 0.000
#> SRR1177710 1 0.0000 0.991 1.000 0.000
#> SRR1177711 1 0.0000 0.991 1.000 0.000
#> SRR1177712 1 0.0000 0.991 1.000 0.000
#> SRR1177714 2 0.0000 0.998 0.000 1.000
#> SRR1177713 1 0.0000 0.991 1.000 0.000
#> SRR1177715 2 0.0000 0.998 0.000 1.000
#> SRR1177716 1 0.0000 0.991 1.000 0.000
#> SRR1177717 1 0.0000 0.991 1.000 0.000
#> SRR1177718 1 0.0000 0.991 1.000 0.000
#> SRR1177719 1 0.0000 0.991 1.000 0.000
#> SRR1177720 1 0.0000 0.991 1.000 0.000
#> SRR1177721 2 0.0000 0.998 0.000 1.000
#> SRR1177722 2 0.0000 0.998 0.000 1.000
#> SRR1177723 1 0.6973 0.769 0.812 0.188
#> SRR1177725 1 0.0000 0.991 1.000 0.000
#> SRR1177724 1 0.0000 0.991 1.000 0.000
#> SRR1177726 1 0.0000 0.991 1.000 0.000
#> SRR1177727 1 0.0000 0.991 1.000 0.000
#> SRR1177728 1 0.0000 0.991 1.000 0.000
#> SRR1177729 1 0.8081 0.673 0.752 0.248
#> SRR1177730 1 0.0000 0.991 1.000 0.000
#> SRR1177731 1 0.0000 0.991 1.000 0.000
#> SRR1177732 1 0.0000 0.991 1.000 0.000
#> SRR1177733 2 0.0000 0.998 0.000 1.000
#> SRR1177734 1 0.0000 0.991 1.000 0.000
#> SRR1177735 2 0.0000 0.998 0.000 1.000
#> SRR1177736 1 0.0000 0.991 1.000 0.000
#> SRR1177737 2 0.0000 0.998 0.000 1.000
#> SRR1177738 1 0.0000 0.991 1.000 0.000
#> SRR1177739 1 0.0000 0.991 1.000 0.000
#> SRR1177740 2 0.0000 0.998 0.000 1.000
#> SRR1177741 1 0.0000 0.991 1.000 0.000
#> SRR1177742 1 0.0000 0.991 1.000 0.000
#> SRR1177743 1 0.0000 0.991 1.000 0.000
#> SRR1177744 1 0.0000 0.991 1.000 0.000
#> SRR1177745 2 0.0000 0.998 0.000 1.000
#> SRR1177746 2 0.0000 0.998 0.000 1.000
#> SRR1177747 1 0.0000 0.991 1.000 0.000
#> SRR1177748 1 0.0000 0.991 1.000 0.000
#> SRR1177749 1 0.0000 0.991 1.000 0.000
#> SRR1177750 1 0.0000 0.991 1.000 0.000
#> SRR1177751 2 0.0000 0.998 0.000 1.000
#> SRR1177752 1 0.0000 0.991 1.000 0.000
#> SRR1177753 1 0.0000 0.991 1.000 0.000
#> SRR1177754 1 0.0000 0.991 1.000 0.000
#> SRR1177755 2 0.0000 0.998 0.000 1.000
#> SRR1177756 2 0.0000 0.998 0.000 1.000
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026873 1 0.5431 0.644 0.716 0.000 0.284
#> SRR1026874 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026875 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026879 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026880 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026881 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026883 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026884 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026885 1 0.1289 0.881 0.968 0.032 0.000
#> SRR1026886 1 0.1289 0.881 0.968 0.032 0.000
#> SRR1026887 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026889 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026890 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026891 1 0.4399 0.780 0.812 0.000 0.188
#> SRR1026892 1 0.4399 0.780 0.812 0.000 0.188
#> SRR1026893 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026895 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026896 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026897 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026898 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026899 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026900 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026901 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026902 3 0.1860 0.912 0.052 0.000 0.948
#> SRR1026903 3 0.1860 0.912 0.052 0.000 0.948
#> SRR1026904 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026905 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026906 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026910 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026911 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026912 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026914 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026918 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026919 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026920 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026924 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026925 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026926 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026927 3 0.6126 0.280 0.400 0.000 0.600
#> SRR1026928 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026929 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026930 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026931 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026936 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026937 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026938 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026940 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026941 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026942 1 0.4452 0.775 0.808 0.000 0.192
#> SRR1026943 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1026944 1 0.4555 0.767 0.800 0.000 0.200
#> SRR1026945 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026947 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026949 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026950 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1026951 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026952 1 0.4399 0.779 0.812 0.000 0.188
#> SRR1026953 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026954 1 0.6126 0.420 0.600 0.400 0.000
#> SRR1026955 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1026957 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026958 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026960 2 0.4555 0.718 0.200 0.800 0.000
#> SRR1026961 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026962 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1026963 1 0.5178 0.690 0.744 0.000 0.256
#> SRR1026964 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026965 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026966 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026968 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026969 1 0.6126 0.420 0.600 0.400 0.000
#> SRR1026970 1 0.0424 0.890 0.992 0.008 0.000
#> SRR1026971 1 0.0424 0.890 0.992 0.008 0.000
#> SRR1026972 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026973 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026974 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1026976 1 0.1643 0.874 0.956 0.044 0.000
#> SRR1026977 1 0.1643 0.874 0.956 0.044 0.000
#> SRR1026978 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026979 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026980 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026981 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026982 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026983 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026984 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026985 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026986 2 0.1964 0.930 0.056 0.944 0.000
#> SRR1026987 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1026988 3 0.6126 0.280 0.400 0.000 0.600
#> SRR1026989 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026990 1 0.3879 0.800 0.848 0.152 0.000
#> SRR1026991 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1026994 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1026995 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026996 1 0.5948 0.507 0.640 0.360 0.000
#> SRR1026997 1 0.5948 0.507 0.640 0.360 0.000
#> SRR1026998 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1027000 1 0.0237 0.892 0.996 0.004 0.000
#> SRR1027001 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1027002 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1027003 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1027004 1 0.4452 0.775 0.808 0.000 0.192
#> SRR1027005 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1027006 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1027007 2 0.1031 0.967 0.024 0.976 0.000
#> SRR1027008 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1027010 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1027011 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177668 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177667 1 0.2537 0.856 0.920 0.000 0.080
#> SRR1177669 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177670 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177671 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177672 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177673 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177674 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177676 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177677 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177678 1 0.4605 0.762 0.796 0.000 0.204
#> SRR1177679 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177680 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177681 1 0.4504 0.771 0.804 0.000 0.196
#> SRR1177682 1 0.6235 0.221 0.564 0.436 0.000
#> SRR1177683 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177685 1 0.4452 0.775 0.808 0.000 0.192
#> SRR1177686 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177687 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177688 1 0.3686 0.817 0.860 0.000 0.140
#> SRR1177689 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177690 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177692 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177693 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177695 2 0.5591 0.505 0.304 0.696 0.000
#> SRR1177697 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177696 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177698 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177700 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177701 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177702 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177703 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177704 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177705 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177706 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177707 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177708 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177709 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177710 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177711 1 0.4291 0.786 0.820 0.000 0.180
#> SRR1177712 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177714 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177713 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177715 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177716 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177718 1 0.4452 0.775 0.808 0.000 0.192
#> SRR1177719 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177720 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177721 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177727 3 0.6126 0.280 0.400 0.000 0.600
#> SRR1177728 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177730 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177731 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177732 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177733 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177734 1 0.0424 0.890 0.992 0.000 0.008
#> SRR1177735 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177736 3 0.5431 0.564 0.284 0.000 0.716
#> SRR1177737 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177738 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177739 3 0.5948 0.390 0.360 0.000 0.640
#> SRR1177740 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177741 3 0.6126 0.280 0.400 0.000 0.600
#> SRR1177742 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177743 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177744 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177745 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177746 2 0.0000 0.993 0.000 1.000 0.000
#> SRR1177747 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177748 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177749 1 0.4555 0.767 0.800 0.000 0.200
#> SRR1177750 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177751 1 0.6126 0.420 0.600 0.400 0.000
#> SRR1177752 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177753 1 0.1964 0.869 0.944 0.000 0.056
#> SRR1177754 3 0.0000 0.965 0.000 0.000 1.000
#> SRR1177755 1 0.0000 0.893 1.000 0.000 0.000
#> SRR1177756 1 0.5948 0.500 0.640 0.360 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026871 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026872 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026873 1 0.0592 0.775 0.984 0.000 0.016 0.000
#> SRR1026874 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026875 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026876 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026877 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026878 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026879 3 0.1022 0.946 0.032 0.000 0.968 0.000
#> SRR1026880 3 0.4382 0.585 0.296 0.000 0.704 0.000
#> SRR1026881 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026882 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026883 2 0.5000 -0.223 0.000 0.504 0.000 0.496
#> SRR1026884 2 0.5000 -0.223 0.000 0.504 0.000 0.496
#> SRR1026885 4 0.0336 0.529 0.000 0.008 0.000 0.992
#> SRR1026886 4 0.0336 0.529 0.000 0.008 0.000 0.992
#> SRR1026887 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026888 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026889 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026890 2 0.3447 0.683 0.000 0.852 0.020 0.128
#> SRR1026891 1 0.1211 0.771 0.960 0.000 0.000 0.040
#> SRR1026892 1 0.1211 0.771 0.960 0.000 0.000 0.040
#> SRR1026893 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026894 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026895 2 0.5000 -0.236 0.000 0.500 0.000 0.500
#> SRR1026896 2 0.5000 -0.236 0.000 0.500 0.000 0.500
#> SRR1026897 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026898 3 0.4933 0.279 0.432 0.000 0.568 0.000
#> SRR1026899 3 0.2408 0.882 0.104 0.000 0.896 0.000
#> SRR1026900 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026901 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026902 3 0.2483 0.914 0.032 0.000 0.916 0.052
#> SRR1026903 3 0.2483 0.914 0.032 0.000 0.916 0.052
#> SRR1026904 4 0.5000 0.205 0.000 0.496 0.000 0.504
#> SRR1026905 4 0.5000 0.205 0.000 0.496 0.000 0.504
#> SRR1026906 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026907 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026908 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026909 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026910 2 0.5000 -0.236 0.000 0.500 0.000 0.500
#> SRR1026911 2 0.5000 -0.236 0.000 0.500 0.000 0.500
#> SRR1026912 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026913 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026914 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026915 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026916 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026917 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026918 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026919 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026920 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026921 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026922 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026923 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026924 2 0.5000 -0.223 0.000 0.504 0.000 0.496
#> SRR1026925 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026926 2 0.5000 -0.223 0.000 0.504 0.000 0.496
#> SRR1026927 1 0.5253 0.384 0.624 0.000 0.360 0.016
#> SRR1026928 2 0.4761 0.171 0.000 0.628 0.000 0.372
#> SRR1026929 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026930 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026931 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026932 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026933 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026934 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026935 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026936 4 0.5000 0.194 0.000 0.500 0.000 0.500
#> SRR1026937 4 0.5000 0.194 0.000 0.500 0.000 0.500
#> SRR1026938 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026939 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026940 3 0.3873 0.729 0.228 0.000 0.772 0.000
#> SRR1026941 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.0336 0.779 0.992 0.000 0.008 0.000
#> SRR1026943 1 0.4985 0.549 0.532 0.000 0.000 0.468
#> SRR1026944 1 0.0336 0.779 0.992 0.000 0.008 0.000
#> SRR1026945 3 0.0707 0.953 0.020 0.000 0.980 0.000
#> SRR1026947 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026946 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026948 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026949 2 0.5000 -0.243 0.000 0.504 0.000 0.496
#> SRR1026950 1 0.4985 0.549 0.532 0.000 0.000 0.468
#> SRR1026951 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026952 1 0.0336 0.779 0.992 0.000 0.008 0.000
#> SRR1026953 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.3837 0.610 0.000 0.224 0.000 0.776
#> SRR1026955 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026956 1 0.1557 0.771 0.944 0.000 0.000 0.056
#> SRR1026957 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026958 1 0.4985 0.549 0.532 0.000 0.000 0.468
#> SRR1026959 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.4746 0.479 0.000 0.368 0.000 0.632
#> SRR1026961 2 0.5000 -0.226 0.000 0.504 0.000 0.496
#> SRR1026962 1 0.0707 0.778 0.980 0.000 0.000 0.020
#> SRR1026963 1 0.0707 0.774 0.980 0.000 0.020 0.000
#> SRR1026964 4 0.5000 0.194 0.000 0.500 0.000 0.500
#> SRR1026965 2 0.5000 -0.236 0.000 0.500 0.000 0.500
#> SRR1026966 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.4898 0.403 0.000 0.416 0.000 0.584
#> SRR1026969 4 0.3764 0.612 0.000 0.216 0.000 0.784
#> SRR1026970 4 0.0000 0.518 0.000 0.000 0.000 1.000
#> SRR1026971 4 0.0000 0.518 0.000 0.000 0.000 1.000
#> SRR1026972 3 0.1118 0.936 0.000 0.000 0.964 0.036
#> SRR1026973 3 0.1118 0.936 0.000 0.000 0.964 0.036
#> SRR1026974 1 0.1557 0.771 0.944 0.000 0.000 0.056
#> SRR1026975 1 0.1557 0.771 0.944 0.000 0.000 0.056
#> SRR1026976 4 0.0592 0.537 0.000 0.016 0.000 0.984
#> SRR1026977 4 0.0592 0.537 0.000 0.016 0.000 0.984
#> SRR1026978 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026979 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026980 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1026981 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026982 4 0.4855 0.434 0.000 0.400 0.000 0.600
#> SRR1026983 4 0.4855 0.434 0.000 0.400 0.000 0.600
#> SRR1026984 2 0.4761 0.171 0.000 0.628 0.000 0.372
#> SRR1026985 2 0.4761 0.171 0.000 0.628 0.000 0.372
#> SRR1026986 4 0.4907 0.400 0.000 0.420 0.000 0.580
#> SRR1026987 1 0.4985 0.549 0.532 0.000 0.000 0.468
#> SRR1026988 1 0.3172 0.662 0.840 0.000 0.160 0.000
#> SRR1026989 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026990 4 0.0336 0.529 0.000 0.008 0.000 0.992
#> SRR1026991 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026992 1 0.0707 0.778 0.980 0.000 0.000 0.020
#> SRR1026993 1 0.4981 0.553 0.536 0.000 0.000 0.464
#> SRR1026994 2 0.0707 0.835 0.000 0.980 0.020 0.000
#> SRR1026995 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026996 4 0.3837 0.608 0.000 0.224 0.000 0.776
#> SRR1026997 4 0.3837 0.608 0.000 0.224 0.000 0.776
#> SRR1026998 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1027000 1 0.4431 0.658 0.696 0.000 0.000 0.304
#> SRR1027001 3 0.0707 0.953 0.020 0.000 0.980 0.000
#> SRR1027002 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1027003 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1027004 1 0.0336 0.779 0.992 0.000 0.008 0.000
#> SRR1027005 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1027006 1 0.4624 0.360 0.660 0.000 0.340 0.000
#> SRR1027007 2 0.5000 -0.243 0.000 0.504 0.000 0.496
#> SRR1027008 1 0.4981 0.553 0.536 0.000 0.000 0.464
#> SRR1027009 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1027010 3 0.0707 0.953 0.020 0.000 0.980 0.000
#> SRR1027011 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177668 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177667 1 0.0000 0.779 1.000 0.000 0.000 0.000
#> SRR1177669 3 0.0707 0.953 0.020 0.000 0.980 0.000
#> SRR1177670 3 0.0707 0.953 0.020 0.000 0.980 0.000
#> SRR1177671 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.0707 0.953 0.020 0.000 0.980 0.000
#> SRR1177673 3 0.2408 0.882 0.104 0.000 0.896 0.000
#> SRR1177674 3 0.0707 0.953 0.020 0.000 0.980 0.000
#> SRR1177675 1 0.0592 0.779 0.984 0.000 0.000 0.016
#> SRR1177676 3 0.1022 0.946 0.032 0.000 0.968 0.000
#> SRR1177677 1 0.4522 0.653 0.680 0.000 0.000 0.320
#> SRR1177678 1 0.0336 0.779 0.992 0.000 0.008 0.000
#> SRR1177679 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177680 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177681 1 0.0000 0.779 1.000 0.000 0.000 0.000
#> SRR1177682 2 0.7892 -0.236 0.292 0.368 0.000 0.340
#> SRR1177683 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.0336 0.779 0.992 0.000 0.008 0.000
#> SRR1177686 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177687 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177688 1 0.0000 0.779 1.000 0.000 0.000 0.000
#> SRR1177689 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177690 1 0.4985 0.549 0.532 0.000 0.000 0.468
#> SRR1177691 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177692 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177693 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177694 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177695 4 0.7362 -0.312 0.372 0.164 0.000 0.464
#> SRR1177697 1 0.4985 0.549 0.532 0.000 0.000 0.468
#> SRR1177696 3 0.2530 0.874 0.112 0.000 0.888 0.000
#> SRR1177698 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177700 1 0.3649 0.688 0.796 0.000 0.000 0.204
#> SRR1177701 4 0.4661 -0.207 0.348 0.000 0.000 0.652
#> SRR1177702 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177703 1 0.4992 0.543 0.524 0.000 0.000 0.476
#> SRR1177704 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177705 1 0.4985 0.549 0.532 0.000 0.000 0.468
#> SRR1177706 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177707 4 0.4999 -0.520 0.492 0.000 0.000 0.508
#> SRR1177708 3 0.4985 0.241 0.468 0.000 0.532 0.000
#> SRR1177709 1 0.4605 0.370 0.664 0.000 0.336 0.000
#> SRR1177710 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177711 1 0.0336 0.779 0.992 0.000 0.008 0.000
#> SRR1177712 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177714 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177713 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177715 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177716 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.0707 0.778 0.980 0.000 0.000 0.020
#> SRR1177718 1 0.0336 0.779 0.992 0.000 0.008 0.000
#> SRR1177719 1 0.0921 0.776 0.972 0.000 0.000 0.028
#> SRR1177720 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177721 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.4746 0.625 0.632 0.000 0.000 0.368
#> SRR1177725 1 0.0707 0.778 0.980 0.000 0.000 0.020
#> SRR1177724 1 0.4713 0.630 0.640 0.000 0.000 0.360
#> SRR1177726 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.3123 0.666 0.844 0.000 0.156 0.000
#> SRR1177728 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.4981 0.553 0.536 0.000 0.000 0.464
#> SRR1177730 3 0.1022 0.946 0.032 0.000 0.968 0.000
#> SRR1177731 3 0.4406 0.578 0.300 0.000 0.700 0.000
#> SRR1177732 3 0.1022 0.946 0.032 0.000 0.968 0.000
#> SRR1177733 1 0.4985 0.549 0.532 0.000 0.000 0.468
#> SRR1177734 1 0.0000 0.779 1.000 0.000 0.000 0.000
#> SRR1177735 4 0.4776 0.465 0.000 0.376 0.000 0.624
#> SRR1177736 1 0.3172 0.662 0.840 0.000 0.160 0.000
#> SRR1177737 2 0.0188 0.856 0.000 0.996 0.000 0.004
#> SRR1177738 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177739 1 0.3172 0.662 0.840 0.000 0.160 0.000
#> SRR1177740 1 0.4985 0.549 0.532 0.000 0.000 0.468
#> SRR1177741 1 0.1118 0.765 0.964 0.000 0.036 0.000
#> SRR1177742 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177743 3 0.1022 0.946 0.032 0.000 0.968 0.000
#> SRR1177744 3 0.1022 0.946 0.032 0.000 0.968 0.000
#> SRR1177745 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177746 2 0.0000 0.860 0.000 1.000 0.000 0.000
#> SRR1177747 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177748 3 0.0000 0.960 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0336 0.779 0.992 0.000 0.008 0.000
#> SRR1177750 1 0.0592 0.778 0.984 0.000 0.000 0.016
#> SRR1177751 1 0.6009 0.498 0.492 0.040 0.000 0.468
#> SRR1177752 1 0.0707 0.778 0.980 0.000 0.000 0.020
#> SRR1177753 1 0.0000 0.779 1.000 0.000 0.000 0.000
#> SRR1177754 3 0.0707 0.953 0.020 0.000 0.980 0.000
#> SRR1177755 1 0.4985 0.549 0.532 0.000 0.000 0.468
#> SRR1177756 1 0.5935 0.504 0.496 0.036 0.000 0.468
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026871 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026872 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026873 1 0.2648 0.6151 0.848 0.000 0.000 0.000 0.152
#> SRR1026874 3 0.0162 0.8554 0.004 0.000 0.996 0.000 0.000
#> SRR1026875 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026876 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026877 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026878 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026879 1 0.4307 -0.2575 0.500 0.000 0.500 0.000 0.000
#> SRR1026880 1 0.4150 0.0832 0.612 0.000 0.388 0.000 0.000
#> SRR1026881 2 0.0162 0.9545 0.000 0.996 0.000 0.004 0.000
#> SRR1026882 2 0.0162 0.9545 0.000 0.996 0.000 0.004 0.000
#> SRR1026883 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026884 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026885 4 0.0162 0.6927 0.004 0.000 0.000 0.996 0.000
#> SRR1026886 4 0.0162 0.6927 0.004 0.000 0.000 0.996 0.000
#> SRR1026887 3 0.2561 0.8064 0.144 0.000 0.856 0.000 0.000
#> SRR1026888 3 0.2561 0.8064 0.144 0.000 0.856 0.000 0.000
#> SRR1026889 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026890 3 0.6674 -0.3130 0.000 0.248 0.428 0.324 0.000
#> SRR1026891 1 0.6049 0.5062 0.576 0.000 0.000 0.232 0.192
#> SRR1026892 1 0.6049 0.5062 0.576 0.000 0.000 0.232 0.192
#> SRR1026893 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026894 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026895 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026896 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026897 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026898 1 0.2813 0.5035 0.832 0.000 0.168 0.000 0.000
#> SRR1026899 1 0.4138 0.0943 0.616 0.000 0.384 0.000 0.000
#> SRR1026900 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026901 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026902 1 0.5296 -0.2226 0.484 0.000 0.468 0.048 0.000
#> SRR1026903 1 0.5296 -0.2226 0.484 0.000 0.468 0.048 0.000
#> SRR1026904 4 0.3274 0.8483 0.000 0.220 0.000 0.780 0.000
#> SRR1026905 4 0.3274 0.8483 0.000 0.220 0.000 0.780 0.000
#> SRR1026906 2 0.0162 0.9545 0.000 0.996 0.000 0.004 0.000
#> SRR1026907 2 0.0162 0.9545 0.000 0.996 0.000 0.004 0.000
#> SRR1026908 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026909 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026910 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026911 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026912 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026913 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026914 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026915 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026916 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026917 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026918 2 0.0162 0.9545 0.000 0.996 0.000 0.004 0.000
#> SRR1026919 2 0.0162 0.9545 0.000 0.996 0.000 0.004 0.000
#> SRR1026920 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026921 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026922 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026923 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026924 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026925 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026926 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026927 1 0.4096 0.4511 0.760 0.000 0.200 0.040 0.000
#> SRR1026928 2 0.4297 -0.2602 0.000 0.528 0.000 0.472 0.000
#> SRR1026929 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026930 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026931 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026932 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026933 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026934 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026935 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026936 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026937 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026938 2 0.0162 0.9545 0.000 0.996 0.000 0.004 0.000
#> SRR1026939 2 0.0162 0.9545 0.000 0.996 0.000 0.004 0.000
#> SRR1026940 1 0.2020 0.5818 0.900 0.000 0.100 0.000 0.000
#> SRR1026941 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026942 1 0.3424 0.5832 0.760 0.000 0.000 0.000 0.240
#> SRR1026943 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1026944 1 0.3242 0.5953 0.784 0.000 0.000 0.000 0.216
#> SRR1026945 3 0.4101 0.5403 0.372 0.000 0.628 0.000 0.000
#> SRR1026947 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026946 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026948 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026949 2 0.6674 -0.2099 0.000 0.436 0.000 0.260 0.304
#> SRR1026950 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1026951 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026952 1 0.3424 0.5832 0.760 0.000 0.000 0.000 0.240
#> SRR1026953 3 0.2648 0.8031 0.152 0.000 0.848 0.000 0.000
#> SRR1026954 4 0.3305 0.8492 0.000 0.224 0.000 0.776 0.000
#> SRR1026955 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026956 1 0.6309 0.4735 0.532 0.000 0.000 0.232 0.236
#> SRR1026957 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026958 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1026959 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026960 4 0.3863 0.8506 0.000 0.248 0.000 0.740 0.012
#> SRR1026961 4 0.4227 0.5552 0.000 0.420 0.000 0.580 0.000
#> SRR1026962 1 0.4074 0.4362 0.636 0.000 0.000 0.000 0.364
#> SRR1026963 1 0.2516 0.6182 0.860 0.000 0.000 0.000 0.140
#> SRR1026964 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026965 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026966 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026967 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026968 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026969 4 0.3582 0.8491 0.000 0.224 0.000 0.768 0.008
#> SRR1026970 4 0.3266 0.4260 0.004 0.000 0.000 0.796 0.200
#> SRR1026971 4 0.3266 0.4260 0.004 0.000 0.000 0.796 0.200
#> SRR1026972 3 0.3635 0.6009 0.004 0.000 0.748 0.248 0.000
#> SRR1026973 3 0.3635 0.6009 0.004 0.000 0.748 0.248 0.000
#> SRR1026974 1 0.6309 0.4735 0.532 0.000 0.000 0.232 0.236
#> SRR1026975 1 0.6309 0.4735 0.532 0.000 0.000 0.232 0.236
#> SRR1026976 4 0.0162 0.6927 0.004 0.000 0.000 0.996 0.000
#> SRR1026977 4 0.0162 0.6927 0.004 0.000 0.000 0.996 0.000
#> SRR1026978 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026979 3 0.0162 0.8554 0.004 0.000 0.996 0.000 0.000
#> SRR1026980 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1026981 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026982 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026983 4 0.3561 0.8526 0.000 0.260 0.000 0.740 0.000
#> SRR1026984 2 0.4307 -0.3403 0.000 0.504 0.000 0.496 0.000
#> SRR1026985 2 0.4307 -0.3403 0.000 0.504 0.000 0.496 0.000
#> SRR1026986 5 0.5095 0.2559 0.000 0.400 0.000 0.040 0.560
#> SRR1026987 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1026988 1 0.0162 0.6253 0.996 0.000 0.004 0.000 0.000
#> SRR1026989 3 0.0162 0.8554 0.004 0.000 0.996 0.000 0.000
#> SRR1026990 4 0.0162 0.6927 0.004 0.000 0.000 0.996 0.000
#> SRR1026991 3 0.2648 0.8031 0.152 0.000 0.848 0.000 0.000
#> SRR1026992 1 0.4101 0.4234 0.628 0.000 0.000 0.000 0.372
#> SRR1026993 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1026994 2 0.2605 0.7589 0.000 0.852 0.148 0.000 0.000
#> SRR1026995 3 0.0162 0.8554 0.004 0.000 0.996 0.000 0.000
#> SRR1026996 4 0.0162 0.6927 0.004 0.000 0.000 0.996 0.000
#> SRR1026997 4 0.0162 0.6927 0.004 0.000 0.000 0.996 0.000
#> SRR1026998 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1026999 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1027000 5 0.0000 0.8974 0.000 0.000 0.000 0.000 1.000
#> SRR1027001 3 0.4101 0.5403 0.372 0.000 0.628 0.000 0.000
#> SRR1027002 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1027003 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1027004 1 0.3586 0.5639 0.736 0.000 0.000 0.000 0.264
#> SRR1027005 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1027006 1 0.0162 0.6253 0.996 0.000 0.004 0.000 0.000
#> SRR1027007 5 0.5420 0.1863 0.000 0.416 0.000 0.060 0.524
#> SRR1027008 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1027009 3 0.2648 0.8031 0.152 0.000 0.848 0.000 0.000
#> SRR1027010 3 0.4015 0.5803 0.348 0.000 0.652 0.000 0.000
#> SRR1027011 3 0.2648 0.8031 0.152 0.000 0.848 0.000 0.000
#> SRR1177668 3 0.3395 0.7296 0.236 0.000 0.764 0.000 0.000
#> SRR1177667 1 0.3508 0.5743 0.748 0.000 0.000 0.000 0.252
#> SRR1177669 3 0.4101 0.5403 0.372 0.000 0.628 0.000 0.000
#> SRR1177670 3 0.4101 0.5403 0.372 0.000 0.628 0.000 0.000
#> SRR1177671 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177672 3 0.4235 0.4305 0.424 0.000 0.576 0.000 0.000
#> SRR1177673 1 0.3612 0.3452 0.732 0.000 0.268 0.000 0.000
#> SRR1177674 3 0.3480 0.7167 0.248 0.000 0.752 0.000 0.000
#> SRR1177675 1 0.4101 0.4234 0.628 0.000 0.000 0.000 0.372
#> SRR1177676 1 0.4307 -0.2575 0.500 0.000 0.500 0.000 0.000
#> SRR1177677 5 0.0000 0.8974 0.000 0.000 0.000 0.000 1.000
#> SRR1177678 1 0.2648 0.6151 0.848 0.000 0.000 0.000 0.152
#> SRR1177679 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177680 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177681 1 0.2280 0.6212 0.880 0.000 0.000 0.000 0.120
#> SRR1177682 5 0.2966 0.6598 0.000 0.184 0.000 0.000 0.816
#> SRR1177683 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177684 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177685 1 0.3395 0.5855 0.764 0.000 0.000 0.000 0.236
#> SRR1177686 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1177687 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177688 1 0.4210 0.3536 0.588 0.000 0.000 0.000 0.412
#> SRR1177689 2 0.0162 0.9532 0.000 0.996 0.000 0.000 0.004
#> SRR1177690 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1177691 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177692 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177693 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177694 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177695 5 0.0162 0.8962 0.000 0.004 0.000 0.000 0.996
#> SRR1177697 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1177696 1 0.4171 0.0516 0.604 0.000 0.396 0.000 0.000
#> SRR1177698 3 0.2648 0.8031 0.152 0.000 0.848 0.000 0.000
#> SRR1177700 1 0.4855 0.2937 0.552 0.000 0.000 0.024 0.424
#> SRR1177701 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1177702 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1177703 5 0.0290 0.8967 0.000 0.000 0.000 0.008 0.992
#> SRR1177704 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1177705 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1177706 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177707 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1177708 1 0.0162 0.6253 0.996 0.000 0.004 0.000 0.000
#> SRR1177709 1 0.0162 0.6253 0.996 0.000 0.004 0.000 0.000
#> SRR1177710 3 0.2648 0.8031 0.152 0.000 0.848 0.000 0.000
#> SRR1177711 1 0.3452 0.5803 0.756 0.000 0.000 0.000 0.244
#> SRR1177712 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1177714 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177713 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1177715 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177716 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1177717 1 0.4304 0.1814 0.516 0.000 0.000 0.000 0.484
#> SRR1177718 1 0.3424 0.5832 0.760 0.000 0.000 0.000 0.240
#> SRR1177719 1 0.4505 0.3955 0.604 0.000 0.000 0.012 0.384
#> SRR1177720 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1177721 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177722 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177723 5 0.0000 0.8974 0.000 0.000 0.000 0.000 1.000
#> SRR1177725 1 0.4300 0.2018 0.524 0.000 0.000 0.000 0.476
#> SRR1177724 5 0.0000 0.8974 0.000 0.000 0.000 0.000 1.000
#> SRR1177726 3 0.2648 0.8031 0.152 0.000 0.848 0.000 0.000
#> SRR1177727 1 0.0162 0.6253 0.996 0.000 0.004 0.000 0.000
#> SRR1177728 3 0.2648 0.8031 0.152 0.000 0.848 0.000 0.000
#> SRR1177729 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1177730 3 0.4307 0.2287 0.500 0.000 0.500 0.000 0.000
#> SRR1177731 1 0.4138 0.0943 0.616 0.000 0.384 0.000 0.000
#> SRR1177732 1 0.4307 -0.2575 0.500 0.000 0.500 0.000 0.000
#> SRR1177733 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1177734 1 0.3534 0.5710 0.744 0.000 0.000 0.000 0.256
#> SRR1177735 5 0.6443 0.0389 0.000 0.276 0.000 0.224 0.500
#> SRR1177736 1 0.0162 0.6253 0.996 0.000 0.004 0.000 0.000
#> SRR1177737 2 0.0162 0.9545 0.000 0.996 0.000 0.004 0.000
#> SRR1177738 3 0.0000 0.8558 0.000 0.000 1.000 0.000 0.000
#> SRR1177739 1 0.0162 0.6253 0.996 0.000 0.004 0.000 0.000
#> SRR1177740 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1177741 1 0.0162 0.6248 0.996 0.000 0.000 0.000 0.004
#> SRR1177742 3 0.1043 0.8453 0.040 0.000 0.960 0.000 0.000
#> SRR1177743 1 0.4307 -0.2575 0.500 0.000 0.500 0.000 0.000
#> SRR1177744 1 0.4307 -0.2575 0.500 0.000 0.500 0.000 0.000
#> SRR1177745 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177746 2 0.0000 0.9577 0.000 1.000 0.000 0.000 0.000
#> SRR1177747 3 0.2648 0.8031 0.152 0.000 0.848 0.000 0.000
#> SRR1177748 3 0.0162 0.8554 0.004 0.000 0.996 0.000 0.000
#> SRR1177749 1 0.3210 0.5969 0.788 0.000 0.000 0.000 0.212
#> SRR1177750 5 0.3143 0.6186 0.204 0.000 0.000 0.000 0.796
#> SRR1177751 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1177752 1 0.4302 0.1908 0.520 0.000 0.000 0.000 0.480
#> SRR1177753 1 0.3586 0.5640 0.736 0.000 0.000 0.000 0.264
#> SRR1177754 3 0.4302 0.2887 0.480 0.000 0.520 0.000 0.000
#> SRR1177755 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
#> SRR1177756 5 0.0162 0.9001 0.000 0.000 0.000 0.004 0.996
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.1141 0.84910 0.000 0.948 0.000 0.052 0.000 0.000
#> SRR1026871 2 0.1141 0.84910 0.000 0.948 0.000 0.052 0.000 0.000
#> SRR1026872 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1026873 5 0.6651 -0.19093 0.340 0.000 0.000 0.028 0.348 0.284
#> SRR1026874 3 0.3854 0.65276 0.000 0.000 0.536 0.000 0.464 0.000
#> SRR1026875 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1026876 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1026877 3 0.3409 0.86891 0.000 0.000 0.700 0.000 0.300 0.000
#> SRR1026878 3 0.3409 0.86891 0.000 0.000 0.700 0.000 0.300 0.000
#> SRR1026879 5 0.0891 0.57225 0.000 0.000 0.024 0.000 0.968 0.008
#> SRR1026880 5 0.0458 0.57276 0.000 0.000 0.000 0.000 0.984 0.016
#> SRR1026881 2 0.3547 0.44840 0.000 0.668 0.000 0.332 0.000 0.000
#> SRR1026882 2 0.3547 0.44840 0.000 0.668 0.000 0.332 0.000 0.000
#> SRR1026883 4 0.2778 0.85918 0.000 0.168 0.000 0.824 0.000 0.008
#> SRR1026884 4 0.2778 0.85918 0.000 0.168 0.000 0.824 0.000 0.008
#> SRR1026885 6 0.3756 0.57349 0.000 0.000 0.004 0.352 0.000 0.644
#> SRR1026886 6 0.3756 0.57349 0.000 0.000 0.004 0.352 0.000 0.644
#> SRR1026887 5 0.3547 0.06787 0.000 0.000 0.332 0.000 0.668 0.000
#> SRR1026888 5 0.3547 0.06787 0.000 0.000 0.332 0.000 0.668 0.000
#> SRR1026889 2 0.1327 0.84441 0.000 0.936 0.000 0.064 0.000 0.000
#> SRR1026890 3 0.4975 0.24462 0.000 0.064 0.592 0.336 0.000 0.008
#> SRR1026891 6 0.0603 0.61436 0.016 0.000 0.000 0.000 0.004 0.980
#> SRR1026892 6 0.0603 0.61436 0.016 0.000 0.000 0.000 0.004 0.980
#> SRR1026893 3 0.3464 0.86637 0.000 0.000 0.688 0.000 0.312 0.000
#> SRR1026894 3 0.3464 0.86637 0.000 0.000 0.688 0.000 0.312 0.000
#> SRR1026895 4 0.2778 0.85918 0.000 0.168 0.000 0.824 0.000 0.008
#> SRR1026896 4 0.2778 0.85918 0.000 0.168 0.000 0.824 0.000 0.008
#> SRR1026897 3 0.3446 0.86710 0.000 0.000 0.692 0.000 0.308 0.000
#> SRR1026898 5 0.3452 0.48704 0.184 0.000 0.016 0.000 0.788 0.012
#> SRR1026899 5 0.0458 0.57276 0.000 0.000 0.000 0.000 0.984 0.016
#> SRR1026900 2 0.1444 0.84197 0.000 0.928 0.000 0.072 0.000 0.000
#> SRR1026901 2 0.1327 0.84607 0.000 0.936 0.000 0.064 0.000 0.000
#> SRR1026902 6 0.5025 0.23340 0.000 0.000 0.012 0.048 0.408 0.532
#> SRR1026903 6 0.5025 0.23340 0.000 0.000 0.012 0.048 0.408 0.532
#> SRR1026904 4 0.3462 0.68301 0.000 0.100 0.004 0.816 0.000 0.080
#> SRR1026905 4 0.3462 0.68301 0.000 0.100 0.004 0.816 0.000 0.080
#> SRR1026906 2 0.3409 0.52035 0.000 0.700 0.000 0.300 0.000 0.000
#> SRR1026907 2 0.3409 0.52035 0.000 0.700 0.000 0.300 0.000 0.000
#> SRR1026908 2 0.1267 0.84605 0.000 0.940 0.000 0.060 0.000 0.000
#> SRR1026909 2 0.1267 0.84605 0.000 0.940 0.000 0.060 0.000 0.000
#> SRR1026910 4 0.2692 0.83769 0.000 0.148 0.000 0.840 0.000 0.012
#> SRR1026911 4 0.2692 0.83769 0.000 0.148 0.000 0.840 0.000 0.012
#> SRR1026912 3 0.3409 0.86891 0.000 0.000 0.700 0.000 0.300 0.000
#> SRR1026913 3 0.3409 0.86891 0.000 0.000 0.700 0.000 0.300 0.000
#> SRR1026914 2 0.1501 0.83796 0.000 0.924 0.000 0.076 0.000 0.000
#> SRR1026915 2 0.1501 0.83796 0.000 0.924 0.000 0.076 0.000 0.000
#> SRR1026916 2 0.1444 0.84052 0.000 0.928 0.000 0.072 0.000 0.000
#> SRR1026917 2 0.1444 0.84052 0.000 0.928 0.000 0.072 0.000 0.000
#> SRR1026918 2 0.3672 0.34644 0.000 0.632 0.000 0.368 0.000 0.000
#> SRR1026919 2 0.3672 0.34644 0.000 0.632 0.000 0.368 0.000 0.000
#> SRR1026920 2 0.1765 0.82322 0.000 0.904 0.000 0.096 0.000 0.000
#> SRR1026921 2 0.1765 0.82322 0.000 0.904 0.000 0.096 0.000 0.000
#> SRR1026922 2 0.1387 0.84398 0.000 0.932 0.000 0.068 0.000 0.000
#> SRR1026923 2 0.0146 0.85633 0.000 0.996 0.000 0.004 0.000 0.000
#> SRR1026924 4 0.2778 0.85918 0.000 0.168 0.000 0.824 0.000 0.008
#> SRR1026925 3 0.3409 0.86891 0.000 0.000 0.700 0.000 0.300 0.000
#> SRR1026926 4 0.2778 0.85918 0.000 0.168 0.000 0.824 0.000 0.008
#> SRR1026927 6 0.3547 0.36649 0.004 0.000 0.000 0.000 0.300 0.696
#> SRR1026928 4 0.3843 0.36746 0.000 0.452 0.000 0.548 0.000 0.000
#> SRR1026929 3 0.3409 0.86891 0.000 0.000 0.700 0.000 0.300 0.000
#> SRR1026930 2 0.1444 0.84197 0.000 0.928 0.000 0.072 0.000 0.000
#> SRR1026931 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1026932 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1026933 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1026934 2 0.1267 0.84605 0.000 0.940 0.000 0.060 0.000 0.000
#> SRR1026935 2 0.1267 0.84605 0.000 0.940 0.000 0.060 0.000 0.000
#> SRR1026936 4 0.2877 0.85799 0.000 0.168 0.000 0.820 0.000 0.012
#> SRR1026937 4 0.2877 0.85799 0.000 0.168 0.000 0.820 0.000 0.012
#> SRR1026938 2 0.3531 0.45758 0.000 0.672 0.000 0.328 0.000 0.000
#> SRR1026939 2 0.3531 0.45758 0.000 0.672 0.000 0.328 0.000 0.000
#> SRR1026940 5 0.4053 0.44599 0.200 0.000 0.000 0.008 0.744 0.048
#> SRR1026941 3 0.3647 0.82615 0.000 0.000 0.640 0.000 0.360 0.000
#> SRR1026942 1 0.6138 0.35523 0.512 0.000 0.000 0.028 0.164 0.296
#> SRR1026943 1 0.3787 0.55004 0.720 0.000 0.260 0.008 0.000 0.012
#> SRR1026944 1 0.6368 0.31398 0.468 0.000 0.000 0.028 0.204 0.300
#> SRR1026945 5 0.1910 0.51973 0.000 0.000 0.108 0.000 0.892 0.000
#> SRR1026947 2 0.0865 0.85242 0.000 0.964 0.000 0.036 0.000 0.000
#> SRR1026946 2 0.1556 0.83521 0.000 0.920 0.000 0.080 0.000 0.000
#> SRR1026948 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1026949 2 0.6024 -0.28022 0.244 0.388 0.000 0.368 0.000 0.000
#> SRR1026950 1 0.4497 0.54088 0.676 0.000 0.260 0.004 0.000 0.060
#> SRR1026951 2 0.0622 0.85376 0.000 0.980 0.000 0.012 0.000 0.008
#> SRR1026952 1 0.6138 0.35523 0.512 0.000 0.000 0.028 0.164 0.296
#> SRR1026953 5 0.3409 0.17316 0.000 0.000 0.300 0.000 0.700 0.000
#> SRR1026954 4 0.5541 0.37253 0.004 0.144 0.000 0.548 0.000 0.304
#> SRR1026955 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1026956 6 0.0603 0.61436 0.016 0.000 0.000 0.000 0.004 0.980
#> SRR1026957 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1026958 1 0.3787 0.55004 0.720 0.000 0.260 0.008 0.000 0.012
#> SRR1026959 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1026960 4 0.3533 0.82162 0.012 0.236 0.000 0.748 0.000 0.004
#> SRR1026961 4 0.3565 0.73334 0.004 0.304 0.000 0.692 0.000 0.000
#> SRR1026962 1 0.5733 0.36861 0.560 0.000 0.000 0.028 0.108 0.304
#> SRR1026963 5 0.6648 -0.15384 0.320 0.000 0.000 0.028 0.364 0.288
#> SRR1026964 4 0.2877 0.85799 0.000 0.168 0.000 0.820 0.000 0.012
#> SRR1026965 4 0.2877 0.85799 0.000 0.168 0.000 0.820 0.000 0.012
#> SRR1026966 3 0.3607 0.83876 0.000 0.000 0.652 0.000 0.348 0.000
#> SRR1026967 3 0.3607 0.83876 0.000 0.000 0.652 0.000 0.348 0.000
#> SRR1026968 4 0.3011 0.84756 0.004 0.192 0.000 0.800 0.000 0.004
#> SRR1026969 4 0.5586 0.38622 0.008 0.144 0.000 0.560 0.000 0.288
#> SRR1026970 6 0.3509 0.63579 0.016 0.000 0.000 0.240 0.000 0.744
#> SRR1026971 6 0.3509 0.63579 0.016 0.000 0.000 0.240 0.000 0.744
#> SRR1026972 3 0.4192 0.16214 0.000 0.000 0.572 0.000 0.016 0.412
#> SRR1026973 3 0.4192 0.16214 0.000 0.000 0.572 0.000 0.016 0.412
#> SRR1026974 6 0.0603 0.61436 0.016 0.000 0.000 0.000 0.004 0.980
#> SRR1026975 6 0.0603 0.61436 0.016 0.000 0.000 0.000 0.004 0.980
#> SRR1026976 6 0.3409 0.59951 0.000 0.000 0.000 0.300 0.000 0.700
#> SRR1026977 6 0.3409 0.59951 0.000 0.000 0.000 0.300 0.000 0.700
#> SRR1026978 2 0.2263 0.81095 0.048 0.896 0.000 0.056 0.000 0.000
#> SRR1026979 3 0.3854 0.65276 0.000 0.000 0.536 0.000 0.464 0.000
#> SRR1026980 2 0.1367 0.83790 0.000 0.944 0.000 0.044 0.000 0.012
#> SRR1026981 3 0.3390 0.86695 0.000 0.000 0.704 0.000 0.296 0.000
#> SRR1026982 4 0.3329 0.82188 0.004 0.236 0.000 0.756 0.000 0.004
#> SRR1026983 4 0.3329 0.82188 0.004 0.236 0.000 0.756 0.000 0.004
#> SRR1026984 4 0.3819 0.60265 0.004 0.372 0.000 0.624 0.000 0.000
#> SRR1026985 4 0.3819 0.60265 0.004 0.372 0.000 0.624 0.000 0.000
#> SRR1026986 1 0.6441 -0.27077 0.380 0.332 0.016 0.272 0.000 0.000
#> SRR1026987 1 0.3518 0.54803 0.732 0.000 0.256 0.012 0.000 0.000
#> SRR1026988 5 0.6146 0.11514 0.260 0.000 0.000 0.016 0.496 0.228
#> SRR1026989 3 0.3854 0.65276 0.000 0.000 0.536 0.000 0.464 0.000
#> SRR1026990 6 0.3965 0.51070 0.008 0.000 0.000 0.388 0.000 0.604
#> SRR1026991 5 0.3446 0.14528 0.000 0.000 0.308 0.000 0.692 0.000
#> SRR1026992 1 0.5705 0.37478 0.568 0.000 0.000 0.028 0.108 0.296
#> SRR1026993 1 0.3787 0.55004 0.720 0.000 0.260 0.008 0.000 0.012
#> SRR1026994 2 0.4947 0.38756 0.000 0.612 0.316 0.060 0.000 0.012
#> SRR1026995 3 0.3620 0.82103 0.000 0.000 0.648 0.000 0.352 0.000
#> SRR1026996 6 0.3636 0.58640 0.000 0.000 0.004 0.320 0.000 0.676
#> SRR1026997 6 0.3636 0.58640 0.000 0.000 0.004 0.320 0.000 0.676
#> SRR1026998 3 0.3409 0.86891 0.000 0.000 0.700 0.000 0.300 0.000
#> SRR1026999 3 0.3409 0.86891 0.000 0.000 0.700 0.000 0.300 0.000
#> SRR1027000 1 0.4499 0.53272 0.704 0.000 0.216 0.072 0.000 0.008
#> SRR1027001 5 0.2048 0.50572 0.000 0.000 0.120 0.000 0.880 0.000
#> SRR1027002 2 0.2999 0.81053 0.048 0.840 0.000 0.112 0.000 0.000
#> SRR1027003 2 0.1082 0.84302 0.000 0.956 0.000 0.040 0.000 0.004
#> SRR1027004 1 0.6138 0.35523 0.512 0.000 0.000 0.028 0.164 0.296
#> SRR1027005 3 0.3464 0.86637 0.000 0.000 0.688 0.000 0.312 0.000
#> SRR1027006 5 0.4528 0.37290 0.260 0.000 0.000 0.012 0.680 0.048
#> SRR1027007 2 0.6291 -0.17683 0.316 0.392 0.008 0.284 0.000 0.000
#> SRR1027008 1 0.3688 0.54698 0.724 0.000 0.256 0.020 0.000 0.000
#> SRR1027009 5 0.3409 0.17316 0.000 0.000 0.300 0.000 0.700 0.000
#> SRR1027010 5 0.1910 0.51973 0.000 0.000 0.108 0.000 0.892 0.000
#> SRR1027011 5 0.3409 0.17316 0.000 0.000 0.300 0.000 0.700 0.000
#> SRR1177668 5 0.2454 0.44688 0.000 0.000 0.160 0.000 0.840 0.000
#> SRR1177667 1 0.6085 0.35917 0.520 0.000 0.000 0.028 0.156 0.296
#> SRR1177669 5 0.1910 0.51973 0.000 0.000 0.108 0.000 0.892 0.000
#> SRR1177670 5 0.1910 0.51973 0.000 0.000 0.108 0.000 0.892 0.000
#> SRR1177671 2 0.0820 0.85108 0.000 0.972 0.000 0.016 0.000 0.012
#> SRR1177672 5 0.1714 0.53265 0.000 0.000 0.092 0.000 0.908 0.000
#> SRR1177673 5 0.2446 0.53990 0.124 0.000 0.000 0.000 0.864 0.012
#> SRR1177674 5 0.2135 0.49531 0.000 0.000 0.128 0.000 0.872 0.000
#> SRR1177675 1 0.5705 0.37478 0.568 0.000 0.000 0.028 0.108 0.296
#> SRR1177676 5 0.1010 0.56978 0.000 0.000 0.036 0.000 0.960 0.004
#> SRR1177677 1 0.3905 0.54630 0.716 0.000 0.256 0.024 0.000 0.004
#> SRR1177678 1 0.6567 0.25122 0.416 0.000 0.000 0.028 0.272 0.284
#> SRR1177679 2 0.1367 0.83790 0.000 0.944 0.000 0.044 0.000 0.012
#> SRR1177680 2 0.1367 0.83790 0.000 0.944 0.000 0.044 0.000 0.012
#> SRR1177681 1 0.6857 0.22375 0.420 0.000 0.016 0.032 0.332 0.200
#> SRR1177682 1 0.6072 0.45578 0.612 0.088 0.216 0.072 0.000 0.012
#> SRR1177683 2 0.1367 0.83790 0.000 0.944 0.000 0.044 0.000 0.012
#> SRR1177684 2 0.1297 0.84006 0.000 0.948 0.000 0.040 0.000 0.012
#> SRR1177685 1 0.6163 0.35173 0.508 0.000 0.000 0.028 0.168 0.296
#> SRR1177686 3 0.3464 0.86637 0.000 0.000 0.688 0.000 0.312 0.000
#> SRR1177687 2 0.1367 0.83790 0.000 0.944 0.000 0.044 0.000 0.012
#> SRR1177688 1 0.5358 0.40600 0.692 0.000 0.016 0.032 0.144 0.116
#> SRR1177689 2 0.2673 0.78946 0.044 0.880 0.000 0.064 0.000 0.012
#> SRR1177690 1 0.3695 0.54720 0.732 0.000 0.244 0.024 0.000 0.000
#> SRR1177691 2 0.1367 0.83790 0.000 0.944 0.000 0.044 0.000 0.012
#> SRR1177692 2 0.1367 0.83790 0.000 0.944 0.000 0.044 0.000 0.012
#> SRR1177693 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1177694 2 0.1663 0.82913 0.000 0.912 0.000 0.088 0.000 0.000
#> SRR1177695 1 0.4328 0.53099 0.708 0.000 0.212 0.080 0.000 0.000
#> SRR1177697 1 0.3787 0.55004 0.720 0.000 0.260 0.008 0.000 0.012
#> SRR1177696 5 0.1390 0.56538 0.032 0.000 0.016 0.000 0.948 0.004
#> SRR1177698 5 0.3409 0.17316 0.000 0.000 0.300 0.000 0.700 0.000
#> SRR1177700 6 0.5386 0.17137 0.308 0.000 0.024 0.028 0.032 0.608
#> SRR1177701 1 0.5903 0.38252 0.520 0.000 0.260 0.008 0.000 0.212
#> SRR1177702 3 0.3330 0.85973 0.000 0.000 0.716 0.000 0.284 0.000
#> SRR1177703 1 0.6029 0.35945 0.492 0.000 0.260 0.008 0.000 0.240
#> SRR1177704 3 0.3309 0.85720 0.000 0.000 0.720 0.000 0.280 0.000
#> SRR1177705 1 0.3787 0.55004 0.720 0.000 0.260 0.008 0.000 0.012
#> SRR1177706 2 0.1367 0.83790 0.000 0.944 0.000 0.044 0.000 0.012
#> SRR1177707 1 0.5942 0.37612 0.512 0.000 0.260 0.008 0.000 0.220
#> SRR1177708 5 0.5630 0.27161 0.260 0.000 0.000 0.028 0.596 0.116
#> SRR1177709 5 0.4574 0.37280 0.260 0.000 0.000 0.020 0.680 0.040
#> SRR1177710 5 0.3390 0.18285 0.000 0.000 0.296 0.000 0.704 0.000
#> SRR1177711 1 0.6138 0.35523 0.512 0.000 0.000 0.028 0.164 0.296
#> SRR1177712 3 0.3330 0.85918 0.000 0.000 0.716 0.000 0.284 0.000
#> SRR1177714 2 0.0622 0.85379 0.000 0.980 0.000 0.008 0.000 0.012
#> SRR1177713 3 0.3446 0.86642 0.000 0.000 0.692 0.000 0.308 0.000
#> SRR1177715 2 0.1624 0.83519 0.008 0.936 0.000 0.044 0.000 0.012
#> SRR1177716 3 0.3659 0.82105 0.000 0.000 0.636 0.000 0.364 0.000
#> SRR1177717 1 0.4814 0.39026 0.644 0.000 0.000 0.028 0.036 0.292
#> SRR1177718 1 0.6138 0.35523 0.512 0.000 0.000 0.028 0.164 0.296
#> SRR1177719 6 0.5257 -0.00133 0.376 0.000 0.008 0.024 0.036 0.556
#> SRR1177720 3 0.3330 0.86008 0.000 0.000 0.716 0.000 0.284 0.000
#> SRR1177721 2 0.0405 0.85569 0.000 0.988 0.000 0.004 0.000 0.008
#> SRR1177722 2 0.0260 0.85649 0.000 0.992 0.000 0.000 0.000 0.008
#> SRR1177723 1 0.3789 0.55058 0.716 0.000 0.260 0.000 0.000 0.024
#> SRR1177725 1 0.4814 0.39026 0.644 0.000 0.000 0.028 0.036 0.292
#> SRR1177724 1 0.4067 0.54779 0.700 0.000 0.260 0.000 0.000 0.040
#> SRR1177726 5 0.3409 0.17316 0.000 0.000 0.300 0.000 0.700 0.000
#> SRR1177727 5 0.6464 0.00612 0.260 0.000 0.000 0.024 0.436 0.280
#> SRR1177728 5 0.3409 0.17316 0.000 0.000 0.300 0.000 0.700 0.000
#> SRR1177729 1 0.4327 0.54564 0.688 0.000 0.260 0.004 0.000 0.048
#> SRR1177730 5 0.1082 0.56814 0.000 0.000 0.040 0.000 0.956 0.004
#> SRR1177731 5 0.0717 0.57159 0.008 0.000 0.000 0.000 0.976 0.016
#> SRR1177732 5 0.1124 0.57081 0.000 0.000 0.036 0.000 0.956 0.008
#> SRR1177733 1 0.3445 0.54804 0.732 0.000 0.260 0.008 0.000 0.000
#> SRR1177734 1 0.6058 0.36087 0.524 0.000 0.000 0.028 0.152 0.296
#> SRR1177735 1 0.7136 -0.19626 0.396 0.240 0.088 0.276 0.000 0.000
#> SRR1177736 5 0.5596 0.27228 0.260 0.000 0.000 0.024 0.596 0.120
#> SRR1177737 2 0.3547 0.44776 0.000 0.668 0.000 0.332 0.000 0.000
#> SRR1177738 3 0.4014 0.81212 0.000 0.000 0.716 0.044 0.240 0.000
#> SRR1177739 5 0.5701 0.26076 0.260 0.000 0.000 0.028 0.588 0.124
#> SRR1177740 1 0.3445 0.54804 0.732 0.000 0.260 0.008 0.000 0.000
#> SRR1177741 5 0.6473 -0.00156 0.260 0.000 0.000 0.024 0.432 0.284
#> SRR1177742 5 0.3620 -0.04253 0.000 0.000 0.352 0.000 0.648 0.000
#> SRR1177743 5 0.1124 0.57081 0.000 0.000 0.036 0.000 0.956 0.008
#> SRR1177744 5 0.1010 0.56978 0.000 0.000 0.036 0.000 0.960 0.004
#> SRR1177745 2 0.1367 0.83790 0.000 0.944 0.000 0.044 0.000 0.012
#> SRR1177746 2 0.1367 0.83790 0.000 0.944 0.000 0.044 0.000 0.012
#> SRR1177747 5 0.3390 0.18285 0.000 0.000 0.296 0.000 0.704 0.000
#> SRR1177748 3 0.3862 0.62529 0.000 0.000 0.524 0.000 0.476 0.000
#> SRR1177749 1 0.6376 0.31432 0.468 0.000 0.000 0.028 0.208 0.296
#> SRR1177750 1 0.2745 0.48900 0.884 0.000 0.052 0.040 0.020 0.004
#> SRR1177751 1 0.4148 0.53649 0.724 0.000 0.208 0.068 0.000 0.000
#> SRR1177752 1 0.4860 0.39178 0.644 0.000 0.000 0.028 0.040 0.288
#> SRR1177753 1 0.6058 0.36086 0.524 0.000 0.000 0.028 0.152 0.296
#> SRR1177754 5 0.0865 0.56827 0.000 0.000 0.036 0.000 0.964 0.000
#> SRR1177755 1 0.3787 0.55004 0.720 0.000 0.260 0.008 0.000 0.012
#> SRR1177756 1 0.3629 0.54515 0.724 0.000 0.260 0.016 0.000 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["ATC", "pam"]
# you can also extract it by
# res = res_list["ATC:pam"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'ATC' method.
#> Subgroups are detected by 'pam' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 2.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 1.000 0.954 0.980 0.4444 0.551 0.551
#> 3 3 0.791 0.891 0.953 0.3857 0.635 0.439
#> 4 4 0.696 0.775 0.887 0.1808 0.779 0.490
#> 5 5 0.819 0.719 0.881 0.0605 0.930 0.750
#> 6 6 0.795 0.735 0.842 0.0300 0.967 0.863
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 2
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.9619 0.000 1.000
#> SRR1026871 2 0.0000 0.9619 0.000 1.000
#> SRR1026872 2 0.0000 0.9619 0.000 1.000
#> SRR1026873 1 0.0000 0.9881 1.000 0.000
#> SRR1026874 1 0.0000 0.9881 1.000 0.000
#> SRR1026875 2 0.0000 0.9619 0.000 1.000
#> SRR1026876 2 0.0000 0.9619 0.000 1.000
#> SRR1026877 1 0.0000 0.9881 1.000 0.000
#> SRR1026878 1 0.0000 0.9881 1.000 0.000
#> SRR1026879 1 0.0000 0.9881 1.000 0.000
#> SRR1026880 1 0.0000 0.9881 1.000 0.000
#> SRR1026881 2 0.0000 0.9619 0.000 1.000
#> SRR1026882 2 0.0000 0.9619 0.000 1.000
#> SRR1026883 2 0.3733 0.8967 0.072 0.928
#> SRR1026884 2 0.0672 0.9555 0.008 0.992
#> SRR1026885 1 0.0938 0.9849 0.988 0.012
#> SRR1026886 1 0.0938 0.9849 0.988 0.012
#> SRR1026887 1 0.0000 0.9881 1.000 0.000
#> SRR1026888 1 0.0000 0.9881 1.000 0.000
#> SRR1026889 2 0.0000 0.9619 0.000 1.000
#> SRR1026890 1 0.0938 0.9849 0.988 0.012
#> SRR1026891 1 0.0672 0.9863 0.992 0.008
#> SRR1026892 1 0.0672 0.9863 0.992 0.008
#> SRR1026893 1 0.0000 0.9881 1.000 0.000
#> SRR1026894 1 0.0000 0.9881 1.000 0.000
#> SRR1026895 2 0.0000 0.9619 0.000 1.000
#> SRR1026896 2 0.0000 0.9619 0.000 1.000
#> SRR1026897 1 0.0000 0.9881 1.000 0.000
#> SRR1026898 1 0.0000 0.9881 1.000 0.000
#> SRR1026899 1 0.0000 0.9881 1.000 0.000
#> SRR1026900 2 0.0000 0.9619 0.000 1.000
#> SRR1026901 2 0.0000 0.9619 0.000 1.000
#> SRR1026902 1 0.0000 0.9881 1.000 0.000
#> SRR1026903 1 0.0376 0.9873 0.996 0.004
#> SRR1026904 1 0.0938 0.9849 0.988 0.012
#> SRR1026905 1 0.0938 0.9849 0.988 0.012
#> SRR1026906 2 0.0000 0.9619 0.000 1.000
#> SRR1026907 2 0.0000 0.9619 0.000 1.000
#> SRR1026908 2 0.0000 0.9619 0.000 1.000
#> SRR1026909 2 0.0000 0.9619 0.000 1.000
#> SRR1026910 1 0.2423 0.9594 0.960 0.040
#> SRR1026911 1 0.1184 0.9821 0.984 0.016
#> SRR1026912 1 0.0000 0.9881 1.000 0.000
#> SRR1026913 1 0.0000 0.9881 1.000 0.000
#> SRR1026914 2 0.0000 0.9619 0.000 1.000
#> SRR1026915 2 0.0000 0.9619 0.000 1.000
#> SRR1026916 2 0.0000 0.9619 0.000 1.000
#> SRR1026917 2 0.0000 0.9619 0.000 1.000
#> SRR1026918 2 0.0000 0.9619 0.000 1.000
#> SRR1026919 2 0.0000 0.9619 0.000 1.000
#> SRR1026920 2 0.0000 0.9619 0.000 1.000
#> SRR1026921 2 0.0000 0.9619 0.000 1.000
#> SRR1026922 2 0.0000 0.9619 0.000 1.000
#> SRR1026923 2 0.0000 0.9619 0.000 1.000
#> SRR1026924 2 0.0000 0.9619 0.000 1.000
#> SRR1026925 1 0.0000 0.9881 1.000 0.000
#> SRR1026926 1 0.1633 0.9753 0.976 0.024
#> SRR1026927 1 0.0000 0.9881 1.000 0.000
#> SRR1026928 2 0.0000 0.9619 0.000 1.000
#> SRR1026929 1 0.0000 0.9881 1.000 0.000
#> SRR1026930 2 0.0000 0.9619 0.000 1.000
#> SRR1026931 2 0.0000 0.9619 0.000 1.000
#> SRR1026932 2 0.0000 0.9619 0.000 1.000
#> SRR1026933 2 0.0000 0.9619 0.000 1.000
#> SRR1026934 2 0.0000 0.9619 0.000 1.000
#> SRR1026935 2 0.0000 0.9619 0.000 1.000
#> SRR1026936 2 0.9775 0.3260 0.412 0.588
#> SRR1026937 2 0.9815 0.3041 0.420 0.580
#> SRR1026938 2 0.0000 0.9619 0.000 1.000
#> SRR1026939 2 0.0000 0.9619 0.000 1.000
#> SRR1026940 1 0.0000 0.9881 1.000 0.000
#> SRR1026941 1 0.0000 0.9881 1.000 0.000
#> SRR1026942 1 0.0000 0.9881 1.000 0.000
#> SRR1026943 1 0.0938 0.9849 0.988 0.012
#> SRR1026944 1 0.0000 0.9881 1.000 0.000
#> SRR1026945 1 0.0000 0.9881 1.000 0.000
#> SRR1026947 2 0.0000 0.9619 0.000 1.000
#> SRR1026946 2 0.0000 0.9619 0.000 1.000
#> SRR1026948 2 0.0000 0.9619 0.000 1.000
#> SRR1026949 1 0.1414 0.9788 0.980 0.020
#> SRR1026950 1 0.0938 0.9849 0.988 0.012
#> SRR1026951 1 0.2603 0.9552 0.956 0.044
#> SRR1026952 1 0.0000 0.9881 1.000 0.000
#> SRR1026953 1 0.0000 0.9881 1.000 0.000
#> SRR1026954 1 0.0938 0.9849 0.988 0.012
#> SRR1026955 2 0.0000 0.9619 0.000 1.000
#> SRR1026956 1 0.0672 0.9863 0.992 0.008
#> SRR1026957 2 0.0000 0.9619 0.000 1.000
#> SRR1026958 1 0.0938 0.9849 0.988 0.012
#> SRR1026959 2 0.0000 0.9619 0.000 1.000
#> SRR1026960 2 0.0000 0.9619 0.000 1.000
#> SRR1026961 2 0.0000 0.9619 0.000 1.000
#> SRR1026962 1 0.0000 0.9881 1.000 0.000
#> SRR1026963 1 0.0000 0.9881 1.000 0.000
#> SRR1026964 2 0.9993 0.0949 0.484 0.516
#> SRR1026965 2 0.9933 0.2065 0.452 0.548
#> SRR1026966 1 0.0000 0.9881 1.000 0.000
#> SRR1026967 1 0.0000 0.9881 1.000 0.000
#> SRR1026968 2 0.7528 0.7232 0.216 0.784
#> SRR1026969 1 0.9608 0.3548 0.616 0.384
#> SRR1026970 1 0.0938 0.9849 0.988 0.012
#> SRR1026971 1 0.0938 0.9849 0.988 0.012
#> SRR1026972 1 0.0938 0.9849 0.988 0.012
#> SRR1026973 1 0.0938 0.9849 0.988 0.012
#> SRR1026974 1 0.0672 0.9863 0.992 0.008
#> SRR1026975 1 0.0672 0.9863 0.992 0.008
#> SRR1026976 1 0.0938 0.9849 0.988 0.012
#> SRR1026977 1 0.0938 0.9849 0.988 0.012
#> SRR1026978 2 0.0938 0.9522 0.012 0.988
#> SRR1026979 1 0.0000 0.9881 1.000 0.000
#> SRR1026980 1 0.1843 0.9716 0.972 0.028
#> SRR1026981 1 0.0000 0.9881 1.000 0.000
#> SRR1026982 2 0.7883 0.6931 0.236 0.764
#> SRR1026983 2 0.7299 0.7402 0.204 0.796
#> SRR1026984 2 0.0000 0.9619 0.000 1.000
#> SRR1026985 2 0.0000 0.9619 0.000 1.000
#> SRR1026986 2 0.0000 0.9619 0.000 1.000
#> SRR1026987 1 0.0938 0.9849 0.988 0.012
#> SRR1026988 1 0.0000 0.9881 1.000 0.000
#> SRR1026989 1 0.0000 0.9881 1.000 0.000
#> SRR1026990 1 0.0938 0.9849 0.988 0.012
#> SRR1026991 1 0.0000 0.9881 1.000 0.000
#> SRR1026992 1 0.0376 0.9873 0.996 0.004
#> SRR1026993 1 0.0938 0.9849 0.988 0.012
#> SRR1026994 1 0.0938 0.9849 0.988 0.012
#> SRR1026995 1 0.0000 0.9881 1.000 0.000
#> SRR1026996 1 0.0938 0.9849 0.988 0.012
#> SRR1026997 1 0.0938 0.9849 0.988 0.012
#> SRR1026998 1 0.0000 0.9881 1.000 0.000
#> SRR1026999 1 0.0000 0.9881 1.000 0.000
#> SRR1027000 1 0.0938 0.9849 0.988 0.012
#> SRR1027001 1 0.0000 0.9881 1.000 0.000
#> SRR1027002 2 0.0000 0.9619 0.000 1.000
#> SRR1027003 2 0.0000 0.9619 0.000 1.000
#> SRR1027004 1 0.0672 0.9863 0.992 0.008
#> SRR1027005 1 0.0000 0.9881 1.000 0.000
#> SRR1027006 1 0.0000 0.9881 1.000 0.000
#> SRR1027007 2 0.0000 0.9619 0.000 1.000
#> SRR1027008 1 0.0938 0.9849 0.988 0.012
#> SRR1027009 1 0.0000 0.9881 1.000 0.000
#> SRR1027010 1 0.0000 0.9881 1.000 0.000
#> SRR1027011 1 0.0000 0.9881 1.000 0.000
#> SRR1177668 1 0.0000 0.9881 1.000 0.000
#> SRR1177667 1 0.0000 0.9881 1.000 0.000
#> SRR1177669 1 0.0000 0.9881 1.000 0.000
#> SRR1177670 1 0.0000 0.9881 1.000 0.000
#> SRR1177671 2 0.0000 0.9619 0.000 1.000
#> SRR1177672 1 0.0000 0.9881 1.000 0.000
#> SRR1177673 1 0.0000 0.9881 1.000 0.000
#> SRR1177674 1 0.0000 0.9881 1.000 0.000
#> SRR1177675 1 0.0000 0.9881 1.000 0.000
#> SRR1177676 1 0.0000 0.9881 1.000 0.000
#> SRR1177677 1 0.0938 0.9849 0.988 0.012
#> SRR1177678 1 0.0000 0.9881 1.000 0.000
#> SRR1177679 2 0.0000 0.9619 0.000 1.000
#> SRR1177680 2 0.0000 0.9619 0.000 1.000
#> SRR1177681 1 0.0672 0.9863 0.992 0.008
#> SRR1177682 1 0.0938 0.9849 0.988 0.012
#> SRR1177683 2 0.0000 0.9619 0.000 1.000
#> SRR1177684 2 0.0000 0.9619 0.000 1.000
#> SRR1177685 1 0.0000 0.9881 1.000 0.000
#> SRR1177686 1 0.0000 0.9881 1.000 0.000
#> SRR1177687 2 0.0000 0.9619 0.000 1.000
#> SRR1177688 1 0.0376 0.9873 0.996 0.004
#> SRR1177689 1 0.4562 0.8943 0.904 0.096
#> SRR1177690 1 0.0938 0.9849 0.988 0.012
#> SRR1177691 2 0.0000 0.9619 0.000 1.000
#> SRR1177692 2 0.9129 0.5190 0.328 0.672
#> SRR1177693 2 0.0000 0.9619 0.000 1.000
#> SRR1177694 2 0.0000 0.9619 0.000 1.000
#> SRR1177695 1 0.0938 0.9849 0.988 0.012
#> SRR1177697 1 0.0938 0.9849 0.988 0.012
#> SRR1177696 1 0.0000 0.9881 1.000 0.000
#> SRR1177698 1 0.0000 0.9881 1.000 0.000
#> SRR1177700 1 0.0938 0.9849 0.988 0.012
#> SRR1177701 1 0.0938 0.9849 0.988 0.012
#> SRR1177702 1 0.0000 0.9881 1.000 0.000
#> SRR1177703 1 0.0938 0.9849 0.988 0.012
#> SRR1177704 1 0.0000 0.9881 1.000 0.000
#> SRR1177705 1 0.0938 0.9849 0.988 0.012
#> SRR1177706 2 0.0000 0.9619 0.000 1.000
#> SRR1177707 1 0.0938 0.9849 0.988 0.012
#> SRR1177708 1 0.0000 0.9881 1.000 0.000
#> SRR1177709 1 0.0000 0.9881 1.000 0.000
#> SRR1177710 1 0.0000 0.9881 1.000 0.000
#> SRR1177711 1 0.0000 0.9881 1.000 0.000
#> SRR1177712 1 0.0000 0.9881 1.000 0.000
#> SRR1177714 2 0.0000 0.9619 0.000 1.000
#> SRR1177713 1 0.0000 0.9881 1.000 0.000
#> SRR1177715 2 0.0000 0.9619 0.000 1.000
#> SRR1177716 1 0.0000 0.9881 1.000 0.000
#> SRR1177717 1 0.0672 0.9863 0.992 0.008
#> SRR1177718 1 0.0000 0.9881 1.000 0.000
#> SRR1177719 1 0.0938 0.9849 0.988 0.012
#> SRR1177720 1 0.0000 0.9881 1.000 0.000
#> SRR1177721 2 0.0000 0.9619 0.000 1.000
#> SRR1177722 2 0.0000 0.9619 0.000 1.000
#> SRR1177723 1 0.0938 0.9849 0.988 0.012
#> SRR1177725 1 0.0000 0.9881 1.000 0.000
#> SRR1177724 1 0.0938 0.9849 0.988 0.012
#> SRR1177726 1 0.0000 0.9881 1.000 0.000
#> SRR1177727 1 0.0000 0.9881 1.000 0.000
#> SRR1177728 1 0.0000 0.9881 1.000 0.000
#> SRR1177729 1 0.0938 0.9849 0.988 0.012
#> SRR1177730 1 0.0000 0.9881 1.000 0.000
#> SRR1177731 1 0.0000 0.9881 1.000 0.000
#> SRR1177732 1 0.0000 0.9881 1.000 0.000
#> SRR1177733 1 0.0938 0.9849 0.988 0.012
#> SRR1177734 1 0.0000 0.9881 1.000 0.000
#> SRR1177735 1 0.1184 0.9821 0.984 0.016
#> SRR1177736 1 0.0000 0.9881 1.000 0.000
#> SRR1177737 2 0.0000 0.9619 0.000 1.000
#> SRR1177738 1 0.0672 0.9863 0.992 0.008
#> SRR1177739 1 0.0000 0.9881 1.000 0.000
#> SRR1177740 1 0.0938 0.9849 0.988 0.012
#> SRR1177741 1 0.0000 0.9881 1.000 0.000
#> SRR1177742 1 0.0000 0.9881 1.000 0.000
#> SRR1177743 1 0.0000 0.9881 1.000 0.000
#> SRR1177744 1 0.0000 0.9881 1.000 0.000
#> SRR1177745 2 0.0000 0.9619 0.000 1.000
#> SRR1177746 2 0.0000 0.9619 0.000 1.000
#> SRR1177747 1 0.0000 0.9881 1.000 0.000
#> SRR1177748 1 0.0000 0.9881 1.000 0.000
#> SRR1177749 1 0.0000 0.9881 1.000 0.000
#> SRR1177750 1 0.0672 0.9863 0.992 0.008
#> SRR1177751 1 0.7453 0.7271 0.788 0.212
#> SRR1177752 1 0.0672 0.9863 0.992 0.008
#> SRR1177753 1 0.0000 0.9881 1.000 0.000
#> SRR1177754 1 0.0000 0.9881 1.000 0.000
#> SRR1177755 1 0.0938 0.9849 0.988 0.012
#> SRR1177756 1 0.8763 0.5698 0.704 0.296
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026873 3 0.6204 0.369 0.424 0.000 0.576
#> SRR1026874 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026875 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026877 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026879 3 0.4605 0.755 0.204 0.000 0.796
#> SRR1026880 3 0.3941 0.803 0.156 0.000 0.844
#> SRR1026881 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026883 1 0.3879 0.817 0.848 0.152 0.000
#> SRR1026884 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1026885 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026886 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026887 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026888 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026889 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026890 1 0.1643 0.912 0.956 0.044 0.000
#> SRR1026891 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026892 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026893 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026894 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026895 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1026896 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1026897 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026898 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026899 3 0.3941 0.803 0.156 0.000 0.844
#> SRR1026900 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1026901 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1026902 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026903 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026904 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026905 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026906 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026910 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026911 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026912 3 0.0237 0.909 0.004 0.000 0.996
#> SRR1026913 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026914 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026918 1 0.5926 0.505 0.644 0.356 0.000
#> SRR1026919 1 0.5926 0.505 0.644 0.356 0.000
#> SRR1026920 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026922 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026923 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026924 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1026925 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026926 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026927 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026928 1 0.5926 0.505 0.644 0.356 0.000
#> SRR1026929 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026930 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026931 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026936 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026937 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026938 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026940 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026941 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026942 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026945 3 0.0592 0.907 0.012 0.000 0.988
#> SRR1026947 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026948 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026949 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026950 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026951 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026952 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026954 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026955 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026957 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026958 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026959 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1026960 1 0.4605 0.742 0.796 0.204 0.000
#> SRR1026961 1 0.5926 0.505 0.644 0.356 0.000
#> SRR1026962 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026963 3 0.6168 0.401 0.412 0.000 0.588
#> SRR1026964 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026965 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026966 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026968 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026969 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026970 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026971 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026972 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026973 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026974 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026976 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026977 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026978 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026979 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026980 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026981 1 0.6126 0.330 0.600 0.000 0.400
#> SRR1026982 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026983 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026984 2 0.4399 0.748 0.188 0.812 0.000
#> SRR1026985 2 0.4555 0.731 0.200 0.800 0.000
#> SRR1026986 1 0.4555 0.746 0.800 0.200 0.000
#> SRR1026987 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026988 3 0.6168 0.401 0.412 0.000 0.588
#> SRR1026989 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026990 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026991 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026994 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026995 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026996 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026997 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1026998 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1027000 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1027001 3 0.0592 0.907 0.012 0.000 0.988
#> SRR1027002 2 0.2537 0.888 0.080 0.920 0.000
#> SRR1027003 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1027004 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1027006 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1027007 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1027008 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1027010 3 0.0592 0.907 0.012 0.000 0.988
#> SRR1027011 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177668 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177667 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177669 3 0.3941 0.803 0.156 0.000 0.844
#> SRR1177670 3 0.0592 0.907 0.012 0.000 0.988
#> SRR1177671 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177672 3 0.0592 0.907 0.012 0.000 0.988
#> SRR1177673 3 0.6079 0.457 0.388 0.000 0.612
#> SRR1177674 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177675 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177676 3 0.3941 0.803 0.156 0.000 0.844
#> SRR1177677 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177678 1 0.5254 0.599 0.736 0.000 0.264
#> SRR1177679 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177680 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1177681 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177682 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177683 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177684 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177685 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177687 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1177688 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177689 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177690 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177691 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177692 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1177693 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177694 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177695 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177697 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177696 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177698 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177700 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177701 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177702 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177703 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177704 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177705 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177706 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1177707 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177708 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177709 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177710 3 0.0592 0.907 0.012 0.000 0.988
#> SRR1177711 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177712 1 0.6204 0.270 0.576 0.000 0.424
#> SRR1177714 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177713 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177715 2 0.4605 0.728 0.204 0.796 0.000
#> SRR1177716 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177718 1 0.5254 0.599 0.736 0.000 0.264
#> SRR1177719 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177720 3 0.3038 0.823 0.104 0.000 0.896
#> SRR1177721 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177727 3 0.6126 0.430 0.400 0.000 0.600
#> SRR1177728 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177730 3 0.0592 0.907 0.012 0.000 0.988
#> SRR1177731 3 0.6126 0.430 0.400 0.000 0.600
#> SRR1177732 3 0.1529 0.889 0.040 0.000 0.960
#> SRR1177733 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177735 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177736 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177737 2 0.0000 0.982 0.000 1.000 0.000
#> SRR1177738 1 0.6126 0.338 0.600 0.000 0.400
#> SRR1177739 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177741 3 0.6168 0.401 0.412 0.000 0.588
#> SRR1177742 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177743 3 0.3879 0.806 0.152 0.000 0.848
#> SRR1177744 3 0.0592 0.907 0.012 0.000 0.988
#> SRR1177745 1 0.3941 0.813 0.844 0.156 0.000
#> SRR1177746 1 0.4002 0.809 0.840 0.160 0.000
#> SRR1177747 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177748 3 0.0000 0.911 0.000 0.000 1.000
#> SRR1177749 1 0.5254 0.599 0.736 0.000 0.264
#> SRR1177750 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177754 3 0.3941 0.803 0.156 0.000 0.844
#> SRR1177755 1 0.0000 0.944 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.944 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026871 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026872 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026873 1 0.2011 0.72093 0.920 0.000 0.080 0.000
#> SRR1026874 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1026875 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026876 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026877 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1026878 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1026879 1 0.3172 0.61047 0.840 0.000 0.160 0.000
#> SRR1026880 3 0.4972 0.42038 0.456 0.000 0.544 0.000
#> SRR1026881 4 0.4356 0.49212 0.000 0.292 0.000 0.708
#> SRR1026882 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026883 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026884 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026885 4 0.4661 0.38493 0.348 0.000 0.000 0.652
#> SRR1026886 4 0.4585 0.42598 0.332 0.000 0.000 0.668
#> SRR1026887 3 0.3528 0.83892 0.192 0.000 0.808 0.000
#> SRR1026888 3 0.3528 0.83892 0.192 0.000 0.808 0.000
#> SRR1026889 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026890 4 0.4304 0.53637 0.284 0.000 0.000 0.716
#> SRR1026891 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1026892 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1026893 3 0.4967 0.35936 0.452 0.000 0.548 0.000
#> SRR1026894 3 0.4967 0.35936 0.452 0.000 0.548 0.000
#> SRR1026895 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026896 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026897 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1026898 1 0.0817 0.81369 0.976 0.000 0.000 0.024
#> SRR1026899 3 0.4888 0.52097 0.412 0.000 0.588 0.000
#> SRR1026900 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026901 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026902 1 0.4933 0.33313 0.568 0.000 0.000 0.432
#> SRR1026903 1 0.4961 0.28567 0.552 0.000 0.000 0.448
#> SRR1026904 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026905 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026906 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026907 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026908 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026909 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026910 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026911 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026912 1 0.6735 -0.04397 0.516 0.000 0.388 0.096
#> SRR1026913 1 0.6296 0.02168 0.548 0.000 0.388 0.064
#> SRR1026914 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026915 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026916 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026917 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026918 4 0.0188 0.86210 0.000 0.004 0.000 0.996
#> SRR1026919 4 0.0188 0.86210 0.000 0.004 0.000 0.996
#> SRR1026920 4 0.2760 0.71831 0.000 0.128 0.000 0.872
#> SRR1026921 4 0.2760 0.71831 0.000 0.128 0.000 0.872
#> SRR1026922 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026923 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026924 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026925 1 0.4941 -0.02458 0.564 0.000 0.436 0.000
#> SRR1026926 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026927 1 0.0188 0.79670 0.996 0.000 0.000 0.004
#> SRR1026928 4 0.0188 0.86210 0.000 0.004 0.000 0.996
#> SRR1026929 3 0.0188 0.87563 0.004 0.000 0.996 0.000
#> SRR1026930 2 0.4843 0.35167 0.000 0.604 0.000 0.396
#> SRR1026931 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026932 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026933 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026934 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026935 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026936 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026937 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026938 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026939 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026940 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1026941 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1026943 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1026944 1 0.2647 0.86677 0.880 0.000 0.000 0.120
#> SRR1026945 3 0.3837 0.81687 0.224 0.000 0.776 0.000
#> SRR1026947 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026946 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026948 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026949 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026950 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1026951 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026952 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1026953 3 0.0817 0.87661 0.024 0.000 0.976 0.000
#> SRR1026954 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026955 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026956 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1026957 2 0.4830 0.36170 0.000 0.608 0.000 0.392
#> SRR1026958 1 0.3726 0.77801 0.788 0.000 0.000 0.212
#> SRR1026959 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1026960 4 0.0188 0.86210 0.000 0.004 0.000 0.996
#> SRR1026961 4 0.0188 0.86210 0.000 0.004 0.000 0.996
#> SRR1026962 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1026963 1 0.2704 0.66493 0.876 0.000 0.124 0.000
#> SRR1026964 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026965 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026966 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026969 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026970 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026971 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026972 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1026973 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1026974 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1026975 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1026976 4 0.3907 0.62397 0.232 0.000 0.000 0.768
#> SRR1026977 4 0.3942 0.61729 0.236 0.000 0.000 0.764
#> SRR1026978 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026979 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1026980 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026981 1 0.5717 0.29428 0.632 0.000 0.324 0.044
#> SRR1026982 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026983 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026984 4 0.0817 0.84620 0.000 0.024 0.000 0.976
#> SRR1026985 4 0.0817 0.84612 0.000 0.024 0.000 0.976
#> SRR1026986 4 0.3306 0.72454 0.156 0.004 0.000 0.840
#> SRR1026987 1 0.3528 0.80204 0.808 0.000 0.000 0.192
#> SRR1026988 1 0.0000 0.79301 1.000 0.000 0.000 0.000
#> SRR1026989 3 0.2530 0.87074 0.112 0.000 0.888 0.000
#> SRR1026990 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1026991 3 0.2530 0.87127 0.112 0.000 0.888 0.000
#> SRR1026992 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1026993 1 0.3764 0.77449 0.784 0.000 0.000 0.216
#> SRR1026994 4 0.4830 0.26060 0.392 0.000 0.000 0.608
#> SRR1026995 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1026996 4 0.3311 0.70908 0.172 0.000 0.000 0.828
#> SRR1026997 4 0.3649 0.66892 0.204 0.000 0.000 0.796
#> SRR1026998 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1027000 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1027001 3 0.3123 0.86140 0.156 0.000 0.844 0.000
#> SRR1027002 2 0.4972 0.16540 0.000 0.544 0.000 0.456
#> SRR1027003 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1027004 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1027005 3 0.0188 0.87563 0.004 0.000 0.996 0.000
#> SRR1027006 1 0.0707 0.81053 0.980 0.000 0.000 0.020
#> SRR1027007 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1027008 1 0.2973 0.85349 0.856 0.000 0.000 0.144
#> SRR1027009 3 0.0817 0.87661 0.024 0.000 0.976 0.000
#> SRR1027010 3 0.3219 0.85853 0.164 0.000 0.836 0.000
#> SRR1027011 3 0.0817 0.87661 0.024 0.000 0.976 0.000
#> SRR1177668 3 0.2704 0.86907 0.124 0.000 0.876 0.000
#> SRR1177667 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1177669 1 0.3837 0.49805 0.776 0.000 0.224 0.000
#> SRR1177670 3 0.3219 0.85853 0.164 0.000 0.836 0.000
#> SRR1177671 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177672 3 0.3172 0.85958 0.160 0.000 0.840 0.000
#> SRR1177673 1 0.0000 0.79301 1.000 0.000 0.000 0.000
#> SRR1177674 3 0.2589 0.87090 0.116 0.000 0.884 0.000
#> SRR1177675 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1177676 3 0.4855 0.54562 0.400 0.000 0.600 0.000
#> SRR1177677 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177678 1 0.0000 0.79301 1.000 0.000 0.000 0.000
#> SRR1177679 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177680 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1177681 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177682 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177683 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177684 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177685 1 0.2647 0.86677 0.880 0.000 0.000 0.120
#> SRR1177686 3 0.0188 0.87563 0.004 0.000 0.996 0.000
#> SRR1177687 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1177688 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177689 4 0.4916 0.17515 0.424 0.000 0.000 0.576
#> SRR1177690 1 0.3528 0.80204 0.808 0.000 0.000 0.192
#> SRR1177691 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177692 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1177693 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177694 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177695 4 0.4999 -0.07208 0.492 0.000 0.000 0.508
#> SRR1177697 4 0.4992 -0.00783 0.476 0.000 0.000 0.524
#> SRR1177696 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177698 3 0.2408 0.87279 0.104 0.000 0.896 0.000
#> SRR1177700 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177701 4 0.3024 0.73417 0.148 0.000 0.000 0.852
#> SRR1177702 3 0.4697 0.41841 0.356 0.000 0.644 0.000
#> SRR1177703 1 0.3528 0.80204 0.808 0.000 0.000 0.192
#> SRR1177704 3 0.4843 0.31361 0.396 0.000 0.604 0.000
#> SRR1177705 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177706 4 0.4331 0.54061 0.000 0.288 0.000 0.712
#> SRR1177707 4 0.4193 0.55382 0.268 0.000 0.000 0.732
#> SRR1177708 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177709 1 0.1792 0.84248 0.932 0.000 0.000 0.068
#> SRR1177710 1 0.4996 -0.28869 0.516 0.000 0.484 0.000
#> SRR1177711 1 0.2647 0.86677 0.880 0.000 0.000 0.120
#> SRR1177712 1 0.4978 0.15382 0.612 0.000 0.384 0.004
#> SRR1177714 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177713 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1177715 4 0.4804 0.32760 0.000 0.384 0.000 0.616
#> SRR1177716 3 0.2345 0.87118 0.100 0.000 0.900 0.000
#> SRR1177717 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1177718 1 0.0817 0.81482 0.976 0.000 0.000 0.024
#> SRR1177719 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177720 1 0.4999 0.03287 0.508 0.000 0.492 0.000
#> SRR1177721 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177722 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177723 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177725 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1177724 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177726 3 0.0817 0.87661 0.024 0.000 0.976 0.000
#> SRR1177727 1 0.3528 0.56024 0.808 0.000 0.192 0.000
#> SRR1177728 3 0.0817 0.87661 0.024 0.000 0.976 0.000
#> SRR1177729 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177730 3 0.3172 0.85958 0.160 0.000 0.840 0.000
#> SRR1177731 1 0.0336 0.78771 0.992 0.000 0.008 0.000
#> SRR1177732 3 0.3400 0.84673 0.180 0.000 0.820 0.000
#> SRR1177733 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177734 1 0.2760 0.86686 0.872 0.000 0.000 0.128
#> SRR1177735 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1177736 1 0.0921 0.81694 0.972 0.000 0.000 0.028
#> SRR1177737 2 0.0000 0.96618 0.000 1.000 0.000 0.000
#> SRR1177738 4 0.5088 0.52263 0.288 0.000 0.024 0.688
#> SRR1177739 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1177740 1 0.3219 0.83349 0.836 0.000 0.000 0.164
#> SRR1177741 1 0.2011 0.72093 0.920 0.000 0.080 0.000
#> SRR1177742 3 0.0336 0.87612 0.008 0.000 0.992 0.000
#> SRR1177743 3 0.4304 0.73745 0.284 0.000 0.716 0.000
#> SRR1177744 3 0.3219 0.85853 0.164 0.000 0.836 0.000
#> SRR1177745 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1177746 4 0.0000 0.86437 0.000 0.000 0.000 1.000
#> SRR1177747 3 0.2760 0.86835 0.128 0.000 0.872 0.000
#> SRR1177748 3 0.0000 0.87525 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0000 0.79301 1.000 0.000 0.000 0.000
#> SRR1177750 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1177751 4 0.4994 -0.02375 0.480 0.000 0.000 0.520
#> SRR1177752 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1177753 1 0.2704 0.86789 0.876 0.000 0.000 0.124
#> SRR1177754 1 0.3172 0.61047 0.840 0.000 0.160 0.000
#> SRR1177755 4 0.4994 -0.02375 0.480 0.000 0.000 0.520
#> SRR1177756 4 0.4992 -0.00783 0.476 0.000 0.000 0.524
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026871 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026872 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026873 1 0.3586 0.6532 0.736 0.000 0.264 0.000 0.000
#> SRR1026874 5 0.0404 0.7056 0.000 0.000 0.012 0.000 0.988
#> SRR1026875 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026876 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026877 3 0.3707 0.3336 0.000 0.000 0.716 0.000 0.284
#> SRR1026878 3 0.3730 0.3287 0.000 0.000 0.712 0.000 0.288
#> SRR1026879 3 0.4307 -0.1951 0.500 0.000 0.500 0.000 0.000
#> SRR1026880 3 0.6125 0.1471 0.136 0.000 0.500 0.000 0.364
#> SRR1026881 4 0.2891 0.7249 0.000 0.176 0.000 0.824 0.000
#> SRR1026882 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026883 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026884 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026885 4 0.4201 0.3810 0.408 0.000 0.000 0.592 0.000
#> SRR1026886 4 0.4138 0.4364 0.384 0.000 0.000 0.616 0.000
#> SRR1026887 3 0.1043 0.6141 0.040 0.000 0.960 0.000 0.000
#> SRR1026888 3 0.1205 0.6135 0.040 0.000 0.956 0.000 0.004
#> SRR1026889 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026890 4 0.3796 0.6026 0.300 0.000 0.000 0.700 0.000
#> SRR1026891 1 0.0162 0.8687 0.996 0.000 0.000 0.004 0.000
#> SRR1026892 1 0.0162 0.8687 0.996 0.000 0.000 0.004 0.000
#> SRR1026893 3 0.1043 0.6141 0.040 0.000 0.960 0.000 0.000
#> SRR1026894 3 0.1121 0.6139 0.044 0.000 0.956 0.000 0.000
#> SRR1026895 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026896 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026897 5 0.4307 0.1231 0.000 0.000 0.496 0.000 0.504
#> SRR1026898 1 0.0290 0.8686 0.992 0.000 0.008 0.000 0.000
#> SRR1026899 3 0.4452 0.0571 0.004 0.000 0.500 0.000 0.496
#> SRR1026900 4 0.0162 0.8894 0.004 0.000 0.000 0.996 0.000
#> SRR1026901 4 0.0162 0.8894 0.004 0.000 0.000 0.996 0.000
#> SRR1026902 1 0.4138 0.2708 0.616 0.000 0.000 0.384 0.000
#> SRR1026903 1 0.4171 0.2338 0.604 0.000 0.000 0.396 0.000
#> SRR1026904 4 0.1121 0.8728 0.044 0.000 0.000 0.956 0.000
#> SRR1026905 4 0.1121 0.8728 0.044 0.000 0.000 0.956 0.000
#> SRR1026906 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026907 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026908 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026909 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026910 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026911 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026912 3 0.1282 0.6138 0.044 0.000 0.952 0.004 0.000
#> SRR1026913 3 0.1282 0.6138 0.044 0.000 0.952 0.004 0.000
#> SRR1026914 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026915 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026916 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026917 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026918 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026919 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026920 4 0.1121 0.8662 0.000 0.044 0.000 0.956 0.000
#> SRR1026921 4 0.1121 0.8662 0.000 0.044 0.000 0.956 0.000
#> SRR1026922 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026923 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026924 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026925 3 0.1282 0.6138 0.044 0.000 0.952 0.004 0.000
#> SRR1026926 4 0.0290 0.8883 0.008 0.000 0.000 0.992 0.000
#> SRR1026927 1 0.1282 0.8653 0.952 0.000 0.044 0.004 0.000
#> SRR1026928 4 0.0162 0.8894 0.004 0.000 0.000 0.996 0.000
#> SRR1026929 3 0.3534 0.3745 0.000 0.000 0.744 0.000 0.256
#> SRR1026930 2 0.4256 0.2416 0.000 0.564 0.000 0.436 0.000
#> SRR1026931 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026932 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026933 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026934 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026935 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026936 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026937 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026938 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026939 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026940 1 0.0162 0.8687 0.996 0.000 0.000 0.004 0.000
#> SRR1026941 5 0.3966 0.3907 0.000 0.000 0.336 0.000 0.664
#> SRR1026942 1 0.1043 0.8660 0.960 0.000 0.040 0.000 0.000
#> SRR1026943 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1026944 1 0.1197 0.8642 0.952 0.000 0.048 0.000 0.000
#> SRR1026945 3 0.4307 0.0583 0.000 0.000 0.504 0.000 0.496
#> SRR1026947 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026946 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026948 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026949 4 0.1197 0.8731 0.048 0.000 0.000 0.952 0.000
#> SRR1026950 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1026951 4 0.1121 0.8742 0.044 0.000 0.000 0.956 0.000
#> SRR1026952 1 0.1043 0.8667 0.960 0.000 0.040 0.000 0.000
#> SRR1026953 5 0.0000 0.7108 0.000 0.000 0.000 0.000 1.000
#> SRR1026954 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026955 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026956 1 0.1205 0.8660 0.956 0.000 0.040 0.004 0.000
#> SRR1026957 2 0.4171 0.3319 0.000 0.604 0.000 0.396 0.000
#> SRR1026958 1 0.1043 0.8535 0.960 0.000 0.000 0.040 0.000
#> SRR1026959 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1026960 4 0.0162 0.8894 0.004 0.000 0.000 0.996 0.000
#> SRR1026961 4 0.0162 0.8894 0.004 0.000 0.000 0.996 0.000
#> SRR1026962 1 0.1121 0.8652 0.956 0.000 0.044 0.000 0.000
#> SRR1026963 1 0.3949 0.5502 0.668 0.000 0.332 0.000 0.000
#> SRR1026964 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026965 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026966 5 0.4138 0.3235 0.000 0.000 0.384 0.000 0.616
#> SRR1026967 5 0.4182 0.2978 0.000 0.000 0.400 0.000 0.600
#> SRR1026968 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026969 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026970 4 0.0162 0.8895 0.004 0.000 0.000 0.996 0.000
#> SRR1026971 4 0.0162 0.8895 0.004 0.000 0.000 0.996 0.000
#> SRR1026972 1 0.0162 0.8687 0.996 0.000 0.000 0.004 0.000
#> SRR1026973 1 0.0162 0.8687 0.996 0.000 0.000 0.004 0.000
#> SRR1026974 1 0.1205 0.8660 0.956 0.000 0.040 0.004 0.000
#> SRR1026975 1 0.1205 0.8660 0.956 0.000 0.040 0.004 0.000
#> SRR1026976 4 0.3684 0.6034 0.280 0.000 0.000 0.720 0.000
#> SRR1026977 4 0.3752 0.5826 0.292 0.000 0.000 0.708 0.000
#> SRR1026978 4 0.0290 0.8882 0.008 0.000 0.000 0.992 0.000
#> SRR1026979 5 0.2690 0.5990 0.000 0.000 0.156 0.000 0.844
#> SRR1026980 4 0.1121 0.8728 0.044 0.000 0.000 0.956 0.000
#> SRR1026981 1 0.1331 0.8413 0.952 0.000 0.008 0.040 0.000
#> SRR1026982 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026983 4 0.0000 0.8901 0.000 0.000 0.000 1.000 0.000
#> SRR1026984 4 0.0162 0.8894 0.004 0.000 0.000 0.996 0.000
#> SRR1026985 4 0.0162 0.8894 0.004 0.000 0.000 0.996 0.000
#> SRR1026986 4 0.2813 0.7332 0.168 0.000 0.000 0.832 0.000
#> SRR1026987 1 0.0162 0.8686 0.996 0.000 0.000 0.004 0.000
#> SRR1026988 1 0.3366 0.6939 0.768 0.000 0.232 0.000 0.000
#> SRR1026989 3 0.1043 0.5937 0.000 0.000 0.960 0.000 0.040
#> SRR1026990 4 0.0162 0.8895 0.004 0.000 0.000 0.996 0.000
#> SRR1026991 5 0.2329 0.6214 0.000 0.000 0.124 0.000 0.876
#> SRR1026992 1 0.0703 0.8690 0.976 0.000 0.024 0.000 0.000
#> SRR1026993 1 0.1671 0.8328 0.924 0.000 0.000 0.076 0.000
#> SRR1026994 4 0.4256 0.3099 0.436 0.000 0.000 0.564 0.000
#> SRR1026995 1 0.0162 0.8687 0.996 0.000 0.000 0.004 0.000
#> SRR1026996 4 0.3336 0.6974 0.228 0.000 0.000 0.772 0.000
#> SRR1026997 4 0.3480 0.6739 0.248 0.000 0.000 0.752 0.000
#> SRR1026998 3 0.3752 0.3233 0.000 0.000 0.708 0.000 0.292
#> SRR1026999 3 0.3752 0.3233 0.000 0.000 0.708 0.000 0.292
#> SRR1027000 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1027001 5 0.3730 0.4208 0.000 0.000 0.288 0.000 0.712
#> SRR1027002 2 0.4403 0.2336 0.004 0.560 0.000 0.436 0.000
#> SRR1027003 4 0.0794 0.8821 0.028 0.000 0.000 0.972 0.000
#> SRR1027004 1 0.0162 0.8687 0.996 0.000 0.000 0.004 0.000
#> SRR1027005 3 0.1965 0.5592 0.000 0.000 0.904 0.000 0.096
#> SRR1027006 1 0.0290 0.8686 0.992 0.000 0.008 0.000 0.000
#> SRR1027007 4 0.0162 0.8894 0.004 0.000 0.000 0.996 0.000
#> SRR1027008 1 0.1121 0.8556 0.956 0.000 0.000 0.044 0.000
#> SRR1027009 5 0.0000 0.7108 0.000 0.000 0.000 0.000 1.000
#> SRR1027010 3 0.4307 0.0583 0.000 0.000 0.504 0.000 0.496
#> SRR1027011 5 0.0000 0.7108 0.000 0.000 0.000 0.000 1.000
#> SRR1177668 5 0.3424 0.4675 0.000 0.000 0.240 0.000 0.760
#> SRR1177667 1 0.1121 0.8652 0.956 0.000 0.044 0.000 0.000
#> SRR1177669 1 0.4283 0.1783 0.544 0.000 0.456 0.000 0.000
#> SRR1177670 3 0.4307 0.0583 0.000 0.000 0.504 0.000 0.496
#> SRR1177671 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1177672 5 0.4305 -0.0869 0.000 0.000 0.488 0.000 0.512
#> SRR1177673 1 0.3684 0.6275 0.720 0.000 0.280 0.000 0.000
#> SRR1177674 5 0.0000 0.7108 0.000 0.000 0.000 0.000 1.000
#> SRR1177675 1 0.1121 0.8652 0.956 0.000 0.044 0.000 0.000
#> SRR1177676 3 0.4452 0.0571 0.004 0.000 0.500 0.000 0.496
#> SRR1177677 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177678 1 0.1341 0.8609 0.944 0.000 0.056 0.000 0.000
#> SRR1177679 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1177680 4 0.0162 0.8894 0.004 0.000 0.000 0.996 0.000
#> SRR1177681 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177682 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177683 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1177684 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1177685 1 0.1197 0.8642 0.952 0.000 0.048 0.000 0.000
#> SRR1177686 3 0.1478 0.5828 0.000 0.000 0.936 0.000 0.064
#> SRR1177687 4 0.1121 0.8742 0.044 0.000 0.000 0.956 0.000
#> SRR1177688 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177689 1 0.4287 0.1449 0.540 0.000 0.000 0.460 0.000
#> SRR1177690 1 0.1121 0.8556 0.956 0.000 0.000 0.044 0.000
#> SRR1177691 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1177692 4 0.1121 0.8742 0.044 0.000 0.000 0.956 0.000
#> SRR1177693 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1177694 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1177695 1 0.4219 0.3289 0.584 0.000 0.000 0.416 0.000
#> SRR1177697 1 0.4256 0.2802 0.564 0.000 0.000 0.436 0.000
#> SRR1177696 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177698 5 0.0000 0.7108 0.000 0.000 0.000 0.000 1.000
#> SRR1177700 1 0.0162 0.8687 0.996 0.000 0.000 0.004 0.000
#> SRR1177701 4 0.3039 0.7073 0.192 0.000 0.000 0.808 0.000
#> SRR1177702 3 0.1205 0.6138 0.040 0.000 0.956 0.000 0.004
#> SRR1177703 1 0.1121 0.8556 0.956 0.000 0.000 0.044 0.000
#> SRR1177704 3 0.1282 0.6138 0.044 0.000 0.952 0.004 0.000
#> SRR1177705 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177706 4 0.4321 0.3119 0.004 0.396 0.000 0.600 0.000
#> SRR1177707 4 0.3999 0.4154 0.344 0.000 0.000 0.656 0.000
#> SRR1177708 1 0.0162 0.8687 0.996 0.000 0.000 0.004 0.000
#> SRR1177709 1 0.0290 0.8686 0.992 0.000 0.008 0.000 0.000
#> SRR1177710 1 0.4291 0.1582 0.536 0.000 0.464 0.000 0.000
#> SRR1177711 1 0.1197 0.8642 0.952 0.000 0.048 0.000 0.000
#> SRR1177712 3 0.4331 0.2319 0.400 0.000 0.596 0.004 0.000
#> SRR1177714 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1177713 5 0.4307 0.1231 0.000 0.000 0.496 0.000 0.504
#> SRR1177715 4 0.4375 0.2183 0.004 0.420 0.000 0.576 0.000
#> SRR1177716 3 0.1121 0.5924 0.000 0.000 0.956 0.000 0.044
#> SRR1177717 1 0.1043 0.8660 0.960 0.000 0.040 0.000 0.000
#> SRR1177718 1 0.1197 0.8642 0.952 0.000 0.048 0.000 0.000
#> SRR1177719 1 0.1211 0.8655 0.960 0.000 0.024 0.016 0.000
#> SRR1177720 3 0.1365 0.6139 0.040 0.000 0.952 0.004 0.004
#> SRR1177721 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1177722 2 0.0000 0.9595 0.000 1.000 0.000 0.000 0.000
#> SRR1177723 1 0.1043 0.8660 0.960 0.000 0.040 0.000 0.000
#> SRR1177725 1 0.1043 0.8660 0.960 0.000 0.040 0.000 0.000
#> SRR1177724 1 0.1043 0.8660 0.960 0.000 0.040 0.000 0.000
#> SRR1177726 5 0.0000 0.7108 0.000 0.000 0.000 0.000 1.000
#> SRR1177727 1 0.4304 0.2039 0.516 0.000 0.484 0.000 0.000
#> SRR1177728 5 0.0000 0.7108 0.000 0.000 0.000 0.000 1.000
#> SRR1177729 1 0.1043 0.8660 0.960 0.000 0.040 0.000 0.000
#> SRR1177730 5 0.3730 0.4208 0.000 0.000 0.288 0.000 0.712
#> SRR1177731 1 0.3707 0.6260 0.716 0.000 0.284 0.000 0.000
#> SRR1177732 5 0.3861 0.4200 0.004 0.000 0.284 0.000 0.712
#> SRR1177733 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177734 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177735 4 0.1197 0.8731 0.048 0.000 0.000 0.952 0.000
#> SRR1177736 1 0.0290 0.8686 0.992 0.000 0.008 0.000 0.000
#> SRR1177737 2 0.1043 0.9139 0.000 0.960 0.000 0.040 0.000
#> SRR1177738 4 0.5240 0.5513 0.112 0.000 0.216 0.672 0.000
#> SRR1177739 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177740 1 0.1121 0.8556 0.956 0.000 0.000 0.044 0.000
#> SRR1177741 1 0.3730 0.6213 0.712 0.000 0.288 0.000 0.000
#> SRR1177742 5 0.0000 0.7108 0.000 0.000 0.000 0.000 1.000
#> SRR1177743 3 0.4452 0.0571 0.004 0.000 0.500 0.000 0.496
#> SRR1177744 3 0.4452 0.0571 0.004 0.000 0.500 0.000 0.496
#> SRR1177745 4 0.1043 0.8737 0.040 0.000 0.000 0.960 0.000
#> SRR1177746 4 0.0162 0.8894 0.004 0.000 0.000 0.996 0.000
#> SRR1177747 3 0.4963 0.2877 0.040 0.000 0.608 0.000 0.352
#> SRR1177748 5 0.0000 0.7108 0.000 0.000 0.000 0.000 1.000
#> SRR1177749 1 0.1197 0.8642 0.952 0.000 0.048 0.000 0.000
#> SRR1177750 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177751 1 0.4256 0.2831 0.564 0.000 0.000 0.436 0.000
#> SRR1177752 1 0.1043 0.8660 0.960 0.000 0.040 0.000 0.000
#> SRR1177753 1 0.0000 0.8692 1.000 0.000 0.000 0.000 0.000
#> SRR1177754 1 0.4302 0.2153 0.520 0.000 0.480 0.000 0.000
#> SRR1177755 1 0.4249 0.2903 0.568 0.000 0.000 0.432 0.000
#> SRR1177756 1 0.4262 0.2728 0.560 0.000 0.000 0.440 0.000
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026871 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026872 2 0.0865 0.84077 0.000 0.964 0.000 0.000 0.000 0.036
#> SRR1026873 6 0.4439 0.40470 0.432 0.000 0.028 0.000 0.000 0.540
#> SRR1026874 5 0.0458 0.78576 0.000 0.000 0.016 0.000 0.984 0.000
#> SRR1026875 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1026876 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1026877 3 0.2537 0.81474 0.000 0.000 0.872 0.000 0.096 0.032
#> SRR1026878 3 0.2135 0.78719 0.000 0.000 0.872 0.000 0.128 0.000
#> SRR1026879 6 0.4506 0.54227 0.348 0.000 0.044 0.000 0.000 0.608
#> SRR1026880 6 0.5823 0.62434 0.144 0.000 0.044 0.000 0.204 0.608
#> SRR1026881 4 0.4538 0.48008 0.000 0.340 0.000 0.612 0.000 0.048
#> SRR1026882 2 0.1934 0.78317 0.000 0.916 0.000 0.044 0.000 0.040
#> SRR1026883 4 0.1075 0.82007 0.000 0.000 0.048 0.952 0.000 0.000
#> SRR1026884 4 0.1007 0.82062 0.000 0.000 0.044 0.956 0.000 0.000
#> SRR1026885 4 0.5167 0.44999 0.300 0.000 0.076 0.608 0.000 0.016
#> SRR1026886 4 0.5064 0.50159 0.276 0.000 0.076 0.632 0.000 0.016
#> SRR1026887 3 0.3052 0.71435 0.000 0.000 0.780 0.000 0.004 0.216
#> SRR1026888 3 0.3076 0.69059 0.000 0.000 0.760 0.000 0.000 0.240
#> SRR1026889 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026890 4 0.4595 0.62392 0.196 0.000 0.076 0.712 0.000 0.016
#> SRR1026891 1 0.2787 0.81842 0.872 0.000 0.072 0.044 0.000 0.012
#> SRR1026892 1 0.2787 0.81842 0.872 0.000 0.072 0.044 0.000 0.012
#> SRR1026893 3 0.1814 0.81365 0.000 0.000 0.900 0.000 0.000 0.100
#> SRR1026894 3 0.2106 0.82129 0.032 0.000 0.904 0.000 0.000 0.064
#> SRR1026895 4 0.0865 0.82278 0.000 0.000 0.000 0.964 0.000 0.036
#> SRR1026896 4 0.0865 0.82278 0.000 0.000 0.000 0.964 0.000 0.036
#> SRR1026897 5 0.3695 0.43588 0.000 0.000 0.376 0.000 0.624 0.000
#> SRR1026898 1 0.0777 0.87453 0.972 0.000 0.004 0.000 0.000 0.024
#> SRR1026899 6 0.4506 0.69367 0.000 0.000 0.044 0.000 0.348 0.608
#> SRR1026900 4 0.3863 0.73854 0.000 0.164 0.012 0.776 0.000 0.048
#> SRR1026901 4 0.1219 0.82069 0.004 0.000 0.000 0.948 0.000 0.048
#> SRR1026902 1 0.5284 0.11387 0.500 0.000 0.068 0.420 0.000 0.012
#> SRR1026903 1 0.5294 0.07140 0.488 0.000 0.068 0.432 0.000 0.012
#> SRR1026904 4 0.2095 0.80376 0.004 0.000 0.076 0.904 0.000 0.016
#> SRR1026905 4 0.2095 0.80376 0.004 0.000 0.076 0.904 0.000 0.016
#> SRR1026906 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026907 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026908 2 0.0632 0.84216 0.000 0.976 0.000 0.000 0.000 0.024
#> SRR1026909 2 0.0632 0.84216 0.000 0.976 0.000 0.000 0.000 0.024
#> SRR1026910 4 0.1204 0.81835 0.000 0.000 0.056 0.944 0.000 0.000
#> SRR1026911 4 0.1267 0.81723 0.000 0.000 0.060 0.940 0.000 0.000
#> SRR1026912 3 0.1334 0.82237 0.032 0.000 0.948 0.000 0.000 0.020
#> SRR1026913 3 0.1334 0.82237 0.032 0.000 0.948 0.000 0.000 0.020
#> SRR1026914 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026915 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026916 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026917 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026918 4 0.3408 0.75145 0.000 0.152 0.000 0.800 0.000 0.048
#> SRR1026919 4 0.3408 0.75145 0.000 0.152 0.000 0.800 0.000 0.048
#> SRR1026920 4 0.3387 0.74519 0.000 0.164 0.000 0.796 0.000 0.040
#> SRR1026921 4 0.3387 0.74519 0.000 0.164 0.000 0.796 0.000 0.040
#> SRR1026922 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026923 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026924 4 0.0937 0.82196 0.000 0.000 0.000 0.960 0.000 0.040
#> SRR1026925 3 0.1334 0.82237 0.032 0.000 0.948 0.000 0.000 0.020
#> SRR1026926 4 0.1531 0.81297 0.000 0.000 0.068 0.928 0.000 0.004
#> SRR1026927 1 0.2070 0.83324 0.908 0.000 0.048 0.044 0.000 0.000
#> SRR1026928 4 0.3408 0.75145 0.000 0.152 0.000 0.800 0.000 0.048
#> SRR1026929 3 0.2560 0.81710 0.000 0.000 0.872 0.000 0.092 0.036
#> SRR1026930 2 0.5192 -0.00263 0.000 0.516 0.020 0.416 0.000 0.048
#> SRR1026931 2 0.2520 0.80602 0.000 0.844 0.000 0.000 0.004 0.152
#> SRR1026932 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1026933 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1026934 2 0.0713 0.84164 0.000 0.972 0.000 0.000 0.000 0.028
#> SRR1026935 2 0.0713 0.84164 0.000 0.972 0.000 0.000 0.000 0.028
#> SRR1026936 4 0.1007 0.82062 0.000 0.000 0.044 0.956 0.000 0.000
#> SRR1026937 4 0.1007 0.82062 0.000 0.000 0.044 0.956 0.000 0.000
#> SRR1026938 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026939 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026940 1 0.2070 0.83324 0.908 0.000 0.048 0.044 0.000 0.000
#> SRR1026941 5 0.3620 0.48311 0.000 0.000 0.352 0.000 0.648 0.000
#> SRR1026942 1 0.0146 0.88137 0.996 0.000 0.004 0.000 0.000 0.000
#> SRR1026943 1 0.1245 0.87220 0.952 0.000 0.032 0.000 0.000 0.016
#> SRR1026944 1 0.0291 0.88106 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1026945 6 0.4506 0.69367 0.000 0.000 0.044 0.000 0.348 0.608
#> SRR1026947 2 0.0713 0.84164 0.000 0.972 0.000 0.000 0.000 0.028
#> SRR1026946 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026948 2 0.2871 0.79235 0.000 0.804 0.000 0.000 0.004 0.192
#> SRR1026949 4 0.1692 0.82324 0.008 0.000 0.012 0.932 0.000 0.048
#> SRR1026950 1 0.1049 0.87484 0.960 0.000 0.032 0.000 0.000 0.008
#> SRR1026951 4 0.1464 0.82300 0.004 0.000 0.016 0.944 0.000 0.036
#> SRR1026952 1 0.0291 0.88106 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1026953 5 0.0146 0.78669 0.000 0.000 0.004 0.000 0.996 0.000
#> SRR1026954 4 0.1333 0.82103 0.000 0.000 0.048 0.944 0.000 0.008
#> SRR1026955 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1026956 1 0.2842 0.81547 0.868 0.000 0.076 0.044 0.000 0.012
#> SRR1026957 2 0.4603 0.05773 0.000 0.544 0.000 0.416 0.000 0.040
#> SRR1026958 1 0.1787 0.86544 0.932 0.000 0.032 0.020 0.000 0.016
#> SRR1026959 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1026960 4 0.2407 0.80694 0.004 0.056 0.000 0.892 0.000 0.048
#> SRR1026961 4 0.1700 0.81704 0.000 0.024 0.000 0.928 0.000 0.048
#> SRR1026962 1 0.0146 0.88137 0.996 0.000 0.004 0.000 0.000 0.000
#> SRR1026963 6 0.4379 0.48121 0.396 0.000 0.028 0.000 0.000 0.576
#> SRR1026964 4 0.1007 0.82062 0.000 0.000 0.044 0.956 0.000 0.000
#> SRR1026965 4 0.1007 0.82062 0.000 0.000 0.044 0.956 0.000 0.000
#> SRR1026966 5 0.3620 0.48311 0.000 0.000 0.352 0.000 0.648 0.000
#> SRR1026967 5 0.3620 0.48311 0.000 0.000 0.352 0.000 0.648 0.000
#> SRR1026968 4 0.1075 0.82127 0.000 0.000 0.000 0.952 0.000 0.048
#> SRR1026969 4 0.1265 0.82128 0.000 0.000 0.044 0.948 0.000 0.008
#> SRR1026970 4 0.2265 0.80568 0.004 0.000 0.076 0.896 0.000 0.024
#> SRR1026971 4 0.2265 0.80568 0.004 0.000 0.076 0.896 0.000 0.024
#> SRR1026972 1 0.3355 0.79292 0.836 0.000 0.076 0.072 0.000 0.016
#> SRR1026973 1 0.3355 0.79292 0.836 0.000 0.076 0.072 0.000 0.016
#> SRR1026974 1 0.1080 0.87638 0.960 0.000 0.032 0.004 0.000 0.004
#> SRR1026975 1 0.1080 0.87638 0.960 0.000 0.032 0.004 0.000 0.004
#> SRR1026976 4 0.4940 0.58946 0.224 0.000 0.076 0.676 0.000 0.024
#> SRR1026977 4 0.4936 0.57218 0.236 0.000 0.076 0.668 0.000 0.020
#> SRR1026978 4 0.1873 0.81784 0.008 0.000 0.020 0.924 0.000 0.048
#> SRR1026979 5 0.2562 0.69760 0.000 0.000 0.172 0.000 0.828 0.000
#> SRR1026980 4 0.1843 0.81545 0.004 0.000 0.080 0.912 0.000 0.004
#> SRR1026981 1 0.3867 0.73857 0.800 0.000 0.072 0.104 0.000 0.024
#> SRR1026982 4 0.1075 0.82127 0.000 0.000 0.000 0.952 0.000 0.048
#> SRR1026983 4 0.1075 0.82127 0.000 0.000 0.000 0.952 0.000 0.048
#> SRR1026984 4 0.3683 0.72534 0.000 0.184 0.000 0.768 0.000 0.048
#> SRR1026985 4 0.3683 0.72534 0.000 0.184 0.000 0.768 0.000 0.048
#> SRR1026986 4 0.6153 0.59278 0.136 0.180 0.020 0.616 0.000 0.048
#> SRR1026987 1 0.1594 0.86819 0.932 0.000 0.052 0.000 0.000 0.016
#> SRR1026988 1 0.0858 0.86926 0.968 0.000 0.028 0.000 0.000 0.004
#> SRR1026989 3 0.3823 0.33088 0.000 0.000 0.564 0.000 0.000 0.436
#> SRR1026990 4 0.2265 0.80568 0.004 0.000 0.076 0.896 0.000 0.024
#> SRR1026991 6 0.4310 0.62557 0.000 0.000 0.024 0.000 0.396 0.580
#> SRR1026992 1 0.0146 0.88137 0.996 0.000 0.004 0.000 0.000 0.000
#> SRR1026993 1 0.1777 0.86468 0.932 0.000 0.032 0.024 0.000 0.012
#> SRR1026994 4 0.5465 0.38184 0.324 0.000 0.096 0.564 0.000 0.016
#> SRR1026995 1 0.0777 0.87884 0.972 0.000 0.024 0.004 0.000 0.000
#> SRR1026996 4 0.4168 0.68395 0.144 0.000 0.076 0.764 0.000 0.016
#> SRR1026997 4 0.4276 0.67082 0.156 0.000 0.076 0.752 0.000 0.016
#> SRR1026998 3 0.2219 0.78060 0.000 0.000 0.864 0.000 0.136 0.000
#> SRR1026999 3 0.2219 0.78060 0.000 0.000 0.864 0.000 0.136 0.000
#> SRR1027000 1 0.1074 0.87861 0.960 0.000 0.028 0.000 0.000 0.012
#> SRR1027001 6 0.4300 0.68197 0.000 0.000 0.028 0.000 0.364 0.608
#> SRR1027002 2 0.5192 -0.00263 0.000 0.516 0.020 0.416 0.000 0.048
#> SRR1027003 4 0.2382 0.81300 0.004 0.024 0.020 0.904 0.000 0.048
#> SRR1027004 1 0.0146 0.88235 0.996 0.000 0.000 0.004 0.000 0.000
#> SRR1027005 3 0.2237 0.83005 0.000 0.000 0.896 0.000 0.068 0.036
#> SRR1027006 1 0.0291 0.88106 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1027007 4 0.1364 0.82056 0.004 0.000 0.004 0.944 0.000 0.048
#> SRR1027008 1 0.1151 0.87376 0.956 0.000 0.032 0.000 0.000 0.012
#> SRR1027009 5 0.0146 0.78669 0.000 0.000 0.004 0.000 0.996 0.000
#> SRR1027010 6 0.4506 0.69367 0.000 0.000 0.044 0.000 0.348 0.608
#> SRR1027011 5 0.0146 0.78669 0.000 0.000 0.004 0.000 0.996 0.000
#> SRR1177668 6 0.4300 0.68197 0.000 0.000 0.028 0.000 0.364 0.608
#> SRR1177667 1 0.0291 0.88106 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1177669 1 0.6044 -0.38019 0.380 0.000 0.252 0.000 0.000 0.368
#> SRR1177670 6 0.4506 0.69367 0.000 0.000 0.044 0.000 0.348 0.608
#> SRR1177671 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1177672 6 0.4506 0.69367 0.000 0.000 0.044 0.000 0.348 0.608
#> SRR1177673 1 0.1720 0.84160 0.928 0.000 0.032 0.000 0.000 0.040
#> SRR1177674 5 0.1501 0.68297 0.000 0.000 0.000 0.000 0.924 0.076
#> SRR1177675 1 0.0291 0.88106 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1177676 6 0.4506 0.69367 0.000 0.000 0.044 0.000 0.348 0.608
#> SRR1177677 1 0.0858 0.87828 0.968 0.000 0.028 0.000 0.000 0.004
#> SRR1177678 1 0.0405 0.88017 0.988 0.000 0.008 0.000 0.000 0.004
#> SRR1177679 2 0.2520 0.80602 0.000 0.844 0.000 0.000 0.004 0.152
#> SRR1177680 4 0.1624 0.81907 0.004 0.000 0.020 0.936 0.000 0.040
#> SRR1177681 1 0.0291 0.88199 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1177682 1 0.1367 0.87331 0.944 0.000 0.044 0.000 0.000 0.012
#> SRR1177683 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1177684 2 0.2558 0.80490 0.000 0.840 0.000 0.000 0.004 0.156
#> SRR1177685 1 0.0291 0.88106 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1177686 3 0.2237 0.83005 0.000 0.000 0.896 0.000 0.068 0.036
#> SRR1177687 4 0.1932 0.81757 0.000 0.016 0.020 0.924 0.000 0.040
#> SRR1177688 1 0.0777 0.87881 0.972 0.000 0.024 0.000 0.000 0.004
#> SRR1177689 1 0.4322 0.14520 0.528 0.000 0.020 0.452 0.000 0.000
#> SRR1177690 1 0.1642 0.86519 0.936 0.000 0.032 0.028 0.000 0.004
#> SRR1177691 2 0.3086 0.80064 0.000 0.820 0.020 0.000 0.004 0.156
#> SRR1177692 4 0.0865 0.82391 0.000 0.000 0.036 0.964 0.000 0.000
#> SRR1177693 2 0.0547 0.84287 0.000 0.980 0.000 0.000 0.000 0.020
#> SRR1177694 2 0.0000 0.84341 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1177695 1 0.4360 0.42715 0.628 0.000 0.028 0.340 0.000 0.004
#> SRR1177697 1 0.4284 0.33243 0.596 0.000 0.008 0.384 0.000 0.012
#> SRR1177696 1 0.0622 0.88121 0.980 0.000 0.008 0.012 0.000 0.000
#> SRR1177698 5 0.0713 0.75441 0.000 0.000 0.000 0.000 0.972 0.028
#> SRR1177700 1 0.2879 0.81631 0.868 0.000 0.072 0.044 0.000 0.016
#> SRR1177701 4 0.4648 0.57510 0.272 0.000 0.052 0.664 0.000 0.012
#> SRR1177702 3 0.2179 0.83058 0.000 0.000 0.900 0.000 0.064 0.036
#> SRR1177703 1 0.1334 0.87163 0.948 0.000 0.032 0.000 0.000 0.020
#> SRR1177704 3 0.1418 0.82289 0.032 0.000 0.944 0.000 0.024 0.000
#> SRR1177705 1 0.1151 0.87376 0.956 0.000 0.032 0.000 0.000 0.012
#> SRR1177706 4 0.5852 0.41554 0.000 0.240 0.020 0.580 0.004 0.156
#> SRR1177707 4 0.4672 0.23946 0.416 0.000 0.024 0.548 0.000 0.012
#> SRR1177708 1 0.0748 0.87808 0.976 0.000 0.004 0.004 0.000 0.016
#> SRR1177709 1 0.0777 0.87453 0.972 0.000 0.004 0.000 0.000 0.024
#> SRR1177710 6 0.5470 0.46601 0.348 0.000 0.136 0.000 0.000 0.516
#> SRR1177711 1 0.0291 0.88106 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1177712 3 0.5114 0.35691 0.304 0.000 0.616 0.048 0.000 0.032
#> SRR1177714 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1177713 5 0.3620 0.48311 0.000 0.000 0.352 0.000 0.648 0.000
#> SRR1177715 4 0.5176 0.33495 0.000 0.404 0.020 0.528 0.000 0.048
#> SRR1177716 3 0.2378 0.78118 0.000 0.000 0.848 0.000 0.000 0.152
#> SRR1177717 1 0.0146 0.88188 0.996 0.000 0.004 0.000 0.000 0.000
#> SRR1177718 1 0.0291 0.88106 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1177719 1 0.0260 0.88153 0.992 0.000 0.008 0.000 0.000 0.000
#> SRR1177720 3 0.1334 0.82111 0.032 0.000 0.948 0.000 0.020 0.000
#> SRR1177721 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1177722 2 0.3668 0.73601 0.000 0.668 0.000 0.000 0.004 0.328
#> SRR1177723 1 0.0508 0.88052 0.984 0.000 0.012 0.000 0.000 0.004
#> SRR1177725 1 0.0000 0.88185 1.000 0.000 0.000 0.000 0.000 0.000
#> SRR1177724 1 0.0405 0.88098 0.988 0.000 0.008 0.000 0.000 0.004
#> SRR1177726 5 0.0146 0.78669 0.000 0.000 0.004 0.000 0.996 0.000
#> SRR1177727 6 0.4563 0.52380 0.368 0.000 0.044 0.000 0.000 0.588
#> SRR1177728 5 0.0146 0.78669 0.000 0.000 0.004 0.000 0.996 0.000
#> SRR1177729 1 0.0508 0.88052 0.984 0.000 0.012 0.000 0.000 0.004
#> SRR1177730 6 0.4300 0.68197 0.000 0.000 0.028 0.000 0.364 0.608
#> SRR1177731 1 0.2499 0.79361 0.880 0.000 0.048 0.000 0.000 0.072
#> SRR1177732 6 0.4300 0.68197 0.000 0.000 0.028 0.000 0.364 0.608
#> SRR1177733 1 0.1787 0.86601 0.932 0.000 0.032 0.020 0.000 0.016
#> SRR1177734 1 0.0260 0.88201 0.992 0.000 0.008 0.000 0.000 0.000
#> SRR1177735 4 0.1757 0.82333 0.008 0.000 0.012 0.928 0.000 0.052
#> SRR1177736 1 0.0291 0.88106 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1177737 2 0.2070 0.77708 0.000 0.908 0.000 0.044 0.000 0.048
#> SRR1177738 4 0.4518 0.38011 0.020 0.000 0.376 0.592 0.000 0.012
#> SRR1177739 1 0.0146 0.88137 0.996 0.000 0.004 0.000 0.000 0.000
#> SRR1177740 1 0.1542 0.87024 0.936 0.000 0.052 0.004 0.000 0.008
#> SRR1177741 6 0.4353 0.50410 0.384 0.000 0.028 0.000 0.000 0.588
#> SRR1177742 5 0.0146 0.78669 0.000 0.000 0.004 0.000 0.996 0.000
#> SRR1177743 6 0.4506 0.69367 0.000 0.000 0.044 0.000 0.348 0.608
#> SRR1177744 6 0.4506 0.69367 0.000 0.000 0.044 0.000 0.348 0.608
#> SRR1177745 4 0.1327 0.81985 0.000 0.000 0.064 0.936 0.000 0.000
#> SRR1177746 4 0.3867 0.75061 0.004 0.144 0.020 0.792 0.000 0.040
#> SRR1177747 6 0.4506 0.69367 0.000 0.000 0.044 0.000 0.348 0.608
#> SRR1177748 5 0.0146 0.78669 0.000 0.000 0.004 0.000 0.996 0.000
#> SRR1177749 1 0.0291 0.88106 0.992 0.000 0.004 0.000 0.000 0.004
#> SRR1177750 1 0.0692 0.87905 0.976 0.000 0.020 0.000 0.000 0.004
#> SRR1177751 1 0.4178 0.36924 0.608 0.000 0.020 0.372 0.000 0.000
#> SRR1177752 1 0.0146 0.88137 0.996 0.000 0.004 0.000 0.000 0.000
#> SRR1177753 1 0.0146 0.88137 0.996 0.000 0.004 0.000 0.000 0.000
#> SRR1177754 6 0.4506 0.54227 0.348 0.000 0.044 0.000 0.000 0.608
#> SRR1177755 1 0.4286 0.39849 0.624 0.000 0.012 0.352 0.000 0.012
#> SRR1177756 1 0.4546 0.18807 0.528 0.000 0.020 0.444 0.000 0.008
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["ATC", "mclust"]
# you can also extract it by
# res = res_list["ATC:mclust"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'ATC' method.
#> Subgroups are detected by 'mclust' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 2.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.990 0.958 0.976 0.4368 0.563 0.563
#> 3 3 0.853 0.934 0.964 0.5058 0.777 0.604
#> 4 4 0.863 0.888 0.934 0.0623 0.899 0.733
#> 5 5 0.826 0.817 0.915 0.0490 0.949 0.841
#> 6 6 0.793 0.688 0.849 0.0628 0.921 0.721
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 2
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.1184 0.961 0.016 0.984
#> SRR1026871 2 0.1184 0.961 0.016 0.984
#> SRR1026872 2 0.1184 0.961 0.016 0.984
#> SRR1026873 1 0.1184 0.983 0.984 0.016
#> SRR1026874 1 0.0000 0.979 1.000 0.000
#> SRR1026875 1 0.7056 0.764 0.808 0.192
#> SRR1026876 1 0.7139 0.758 0.804 0.196
#> SRR1026877 1 0.0938 0.975 0.988 0.012
#> SRR1026878 1 0.0938 0.975 0.988 0.012
#> SRR1026879 1 0.1184 0.983 0.984 0.016
#> SRR1026880 1 0.1184 0.983 0.984 0.016
#> SRR1026881 2 0.0000 0.968 0.000 1.000
#> SRR1026882 2 0.0000 0.968 0.000 1.000
#> SRR1026883 2 0.0000 0.968 0.000 1.000
#> SRR1026884 2 0.0000 0.968 0.000 1.000
#> SRR1026885 2 0.0000 0.968 0.000 1.000
#> SRR1026886 2 0.0000 0.968 0.000 1.000
#> SRR1026887 2 0.9732 0.379 0.404 0.596
#> SRR1026888 2 0.9732 0.379 0.404 0.596
#> SRR1026889 2 0.1184 0.961 0.016 0.984
#> SRR1026890 2 0.4431 0.898 0.092 0.908
#> SRR1026891 2 0.0000 0.968 0.000 1.000
#> SRR1026892 2 0.0000 0.968 0.000 1.000
#> SRR1026893 1 0.0938 0.975 0.988 0.012
#> SRR1026894 1 0.0938 0.975 0.988 0.012
#> SRR1026895 2 0.0000 0.968 0.000 1.000
#> SRR1026896 2 0.0000 0.968 0.000 1.000
#> SRR1026897 1 0.0000 0.979 1.000 0.000
#> SRR1026898 1 0.1184 0.983 0.984 0.016
#> SRR1026899 1 0.1184 0.983 0.984 0.016
#> SRR1026900 1 0.1843 0.977 0.972 0.028
#> SRR1026901 1 0.2603 0.965 0.956 0.044
#> SRR1026902 2 0.0000 0.968 0.000 1.000
#> SRR1026903 2 0.0000 0.968 0.000 1.000
#> SRR1026904 2 0.0000 0.968 0.000 1.000
#> SRR1026905 2 0.0000 0.968 0.000 1.000
#> SRR1026906 2 0.0000 0.968 0.000 1.000
#> SRR1026907 2 0.0000 0.968 0.000 1.000
#> SRR1026908 2 0.1184 0.961 0.016 0.984
#> SRR1026909 2 0.1184 0.961 0.016 0.984
#> SRR1026910 2 0.0000 0.968 0.000 1.000
#> SRR1026911 2 0.0000 0.968 0.000 1.000
#> SRR1026912 1 0.0938 0.975 0.988 0.012
#> SRR1026913 1 0.0938 0.975 0.988 0.012
#> SRR1026914 2 0.1184 0.961 0.016 0.984
#> SRR1026915 2 0.1184 0.961 0.016 0.984
#> SRR1026916 2 0.1184 0.961 0.016 0.984
#> SRR1026917 2 0.1184 0.961 0.016 0.984
#> SRR1026918 2 0.0000 0.968 0.000 1.000
#> SRR1026919 2 0.0000 0.968 0.000 1.000
#> SRR1026920 2 0.1184 0.961 0.016 0.984
#> SRR1026921 2 0.1184 0.961 0.016 0.984
#> SRR1026922 1 0.5059 0.888 0.888 0.112
#> SRR1026923 1 0.0938 0.975 0.988 0.012
#> SRR1026924 2 0.0000 0.968 0.000 1.000
#> SRR1026925 2 0.9732 0.379 0.404 0.596
#> SRR1026926 2 0.0000 0.968 0.000 1.000
#> SRR1026927 2 0.0000 0.968 0.000 1.000
#> SRR1026928 2 0.0000 0.968 0.000 1.000
#> SRR1026929 1 0.0938 0.975 0.988 0.012
#> SRR1026930 1 0.1184 0.983 0.984 0.016
#> SRR1026931 1 0.0938 0.975 0.988 0.012
#> SRR1026932 1 0.7056 0.764 0.808 0.192
#> SRR1026933 1 0.7056 0.764 0.808 0.192
#> SRR1026934 2 0.1184 0.961 0.016 0.984
#> SRR1026935 2 0.1184 0.961 0.016 0.984
#> SRR1026936 2 0.0000 0.968 0.000 1.000
#> SRR1026937 2 0.0000 0.968 0.000 1.000
#> SRR1026938 2 0.0000 0.968 0.000 1.000
#> SRR1026939 2 0.0000 0.968 0.000 1.000
#> SRR1026940 1 0.1184 0.983 0.984 0.016
#> SRR1026941 1 0.0000 0.979 1.000 0.000
#> SRR1026942 1 0.1184 0.983 0.984 0.016
#> SRR1026943 1 0.1184 0.983 0.984 0.016
#> SRR1026944 1 0.1184 0.983 0.984 0.016
#> SRR1026945 1 0.1184 0.983 0.984 0.016
#> SRR1026947 2 0.1184 0.961 0.016 0.984
#> SRR1026946 2 0.1184 0.961 0.016 0.984
#> SRR1026948 1 0.0938 0.975 0.988 0.012
#> SRR1026949 1 0.1414 0.982 0.980 0.020
#> SRR1026950 1 0.1184 0.983 0.984 0.016
#> SRR1026951 1 0.1184 0.983 0.984 0.016
#> SRR1026952 1 0.1184 0.983 0.984 0.016
#> SRR1026953 1 0.0000 0.979 1.000 0.000
#> SRR1026954 2 0.0000 0.968 0.000 1.000
#> SRR1026955 1 0.7056 0.764 0.808 0.192
#> SRR1026956 2 0.0000 0.968 0.000 1.000
#> SRR1026957 1 0.7453 0.732 0.788 0.212
#> SRR1026958 1 0.1184 0.983 0.984 0.016
#> SRR1026959 1 0.0938 0.975 0.988 0.012
#> SRR1026960 2 0.0000 0.968 0.000 1.000
#> SRR1026961 2 0.0000 0.968 0.000 1.000
#> SRR1026962 1 0.1184 0.983 0.984 0.016
#> SRR1026963 1 0.1184 0.983 0.984 0.016
#> SRR1026964 2 0.0000 0.968 0.000 1.000
#> SRR1026965 2 0.0000 0.968 0.000 1.000
#> SRR1026966 1 0.0938 0.975 0.988 0.012
#> SRR1026967 1 0.0938 0.975 0.988 0.012
#> SRR1026968 2 0.0000 0.968 0.000 1.000
#> SRR1026969 2 0.0000 0.968 0.000 1.000
#> SRR1026970 2 0.0000 0.968 0.000 1.000
#> SRR1026971 2 0.0000 0.968 0.000 1.000
#> SRR1026972 1 0.3431 0.946 0.936 0.064
#> SRR1026973 1 0.2043 0.975 0.968 0.032
#> SRR1026974 2 0.0000 0.968 0.000 1.000
#> SRR1026975 2 0.0000 0.968 0.000 1.000
#> SRR1026976 2 0.0000 0.968 0.000 1.000
#> SRR1026977 2 0.0000 0.968 0.000 1.000
#> SRR1026978 1 0.1184 0.983 0.984 0.016
#> SRR1026979 1 0.0000 0.979 1.000 0.000
#> SRR1026980 1 0.0000 0.979 1.000 0.000
#> SRR1026981 1 0.0000 0.979 1.000 0.000
#> SRR1026982 2 0.0000 0.968 0.000 1.000
#> SRR1026983 2 0.0000 0.968 0.000 1.000
#> SRR1026984 2 0.0000 0.968 0.000 1.000
#> SRR1026985 2 0.0000 0.968 0.000 1.000
#> SRR1026986 1 0.1184 0.983 0.984 0.016
#> SRR1026987 1 0.1184 0.983 0.984 0.016
#> SRR1026988 1 0.1184 0.983 0.984 0.016
#> SRR1026989 1 0.0000 0.979 1.000 0.000
#> SRR1026990 2 0.0000 0.968 0.000 1.000
#> SRR1026991 1 0.0938 0.975 0.988 0.012
#> SRR1026992 1 0.1184 0.983 0.984 0.016
#> SRR1026993 1 0.1184 0.983 0.984 0.016
#> SRR1026994 1 0.0000 0.979 1.000 0.000
#> SRR1026995 1 0.0000 0.979 1.000 0.000
#> SRR1026996 2 0.0000 0.968 0.000 1.000
#> SRR1026997 2 0.0000 0.968 0.000 1.000
#> SRR1026998 1 0.0938 0.975 0.988 0.012
#> SRR1026999 1 0.0938 0.975 0.988 0.012
#> SRR1027000 1 0.1184 0.983 0.984 0.016
#> SRR1027001 1 0.1184 0.983 0.984 0.016
#> SRR1027002 1 0.1184 0.983 0.984 0.016
#> SRR1027003 1 0.1184 0.983 0.984 0.016
#> SRR1027004 1 0.1184 0.983 0.984 0.016
#> SRR1027005 1 0.0000 0.979 1.000 0.000
#> SRR1027006 1 0.1184 0.983 0.984 0.016
#> SRR1027007 1 0.1184 0.983 0.984 0.016
#> SRR1027008 1 0.1184 0.983 0.984 0.016
#> SRR1027009 1 0.0000 0.979 1.000 0.000
#> SRR1027010 1 0.1184 0.983 0.984 0.016
#> SRR1027011 1 0.0000 0.979 1.000 0.000
#> SRR1177668 1 0.0000 0.979 1.000 0.000
#> SRR1177667 1 0.1184 0.983 0.984 0.016
#> SRR1177669 1 0.1184 0.983 0.984 0.016
#> SRR1177670 1 0.1184 0.983 0.984 0.016
#> SRR1177671 1 0.0000 0.979 1.000 0.000
#> SRR1177672 1 0.1184 0.983 0.984 0.016
#> SRR1177673 1 0.1184 0.983 0.984 0.016
#> SRR1177674 1 0.0000 0.979 1.000 0.000
#> SRR1177675 1 0.1184 0.983 0.984 0.016
#> SRR1177676 1 0.1184 0.983 0.984 0.016
#> SRR1177677 1 0.1184 0.983 0.984 0.016
#> SRR1177678 1 0.1184 0.983 0.984 0.016
#> SRR1177679 1 0.0000 0.979 1.000 0.000
#> SRR1177680 1 0.1184 0.983 0.984 0.016
#> SRR1177681 1 0.1184 0.983 0.984 0.016
#> SRR1177682 1 0.1184 0.983 0.984 0.016
#> SRR1177683 1 0.0000 0.979 1.000 0.000
#> SRR1177684 1 0.0000 0.979 1.000 0.000
#> SRR1177685 1 0.1184 0.983 0.984 0.016
#> SRR1177686 1 0.0000 0.979 1.000 0.000
#> SRR1177687 1 0.0000 0.979 1.000 0.000
#> SRR1177688 1 0.1184 0.983 0.984 0.016
#> SRR1177689 1 0.1184 0.983 0.984 0.016
#> SRR1177690 1 0.1184 0.983 0.984 0.016
#> SRR1177691 1 0.0000 0.979 1.000 0.000
#> SRR1177692 1 0.0000 0.979 1.000 0.000
#> SRR1177693 2 0.7299 0.758 0.204 0.796
#> SRR1177694 2 0.1184 0.961 0.016 0.984
#> SRR1177695 1 0.1184 0.983 0.984 0.016
#> SRR1177697 1 0.1184 0.983 0.984 0.016
#> SRR1177696 1 0.1184 0.983 0.984 0.016
#> SRR1177698 1 0.0000 0.979 1.000 0.000
#> SRR1177700 1 0.2043 0.975 0.968 0.032
#> SRR1177701 2 0.8955 0.546 0.312 0.688
#> SRR1177702 1 0.0376 0.978 0.996 0.004
#> SRR1177703 1 0.1843 0.977 0.972 0.028
#> SRR1177704 1 0.0938 0.975 0.988 0.012
#> SRR1177705 1 0.1184 0.983 0.984 0.016
#> SRR1177706 1 0.0000 0.979 1.000 0.000
#> SRR1177707 2 0.7528 0.718 0.216 0.784
#> SRR1177708 1 0.1633 0.980 0.976 0.024
#> SRR1177709 1 0.1184 0.983 0.984 0.016
#> SRR1177710 1 0.0000 0.979 1.000 0.000
#> SRR1177711 1 0.1184 0.983 0.984 0.016
#> SRR1177712 1 0.0376 0.978 0.996 0.004
#> SRR1177714 1 0.0938 0.975 0.988 0.012
#> SRR1177713 1 0.0000 0.979 1.000 0.000
#> SRR1177715 1 0.1184 0.983 0.984 0.016
#> SRR1177716 1 0.0000 0.979 1.000 0.000
#> SRR1177717 1 0.1184 0.983 0.984 0.016
#> SRR1177718 1 0.1184 0.983 0.984 0.016
#> SRR1177719 1 0.1843 0.977 0.972 0.028
#> SRR1177720 1 0.0000 0.979 1.000 0.000
#> SRR1177721 1 0.0938 0.975 0.988 0.012
#> SRR1177722 1 0.1184 0.973 0.984 0.016
#> SRR1177723 1 0.1184 0.983 0.984 0.016
#> SRR1177725 1 0.1184 0.983 0.984 0.016
#> SRR1177724 1 0.1184 0.983 0.984 0.016
#> SRR1177726 1 0.0000 0.979 1.000 0.000
#> SRR1177727 1 0.1184 0.983 0.984 0.016
#> SRR1177728 1 0.0000 0.979 1.000 0.000
#> SRR1177729 1 0.1184 0.983 0.984 0.016
#> SRR1177730 1 0.1184 0.983 0.984 0.016
#> SRR1177731 1 0.1184 0.983 0.984 0.016
#> SRR1177732 1 0.1184 0.983 0.984 0.016
#> SRR1177733 1 0.1184 0.983 0.984 0.016
#> SRR1177734 1 0.1184 0.983 0.984 0.016
#> SRR1177735 1 0.1184 0.983 0.984 0.016
#> SRR1177736 1 0.1184 0.983 0.984 0.016
#> SRR1177737 2 0.0000 0.968 0.000 1.000
#> SRR1177738 1 0.0938 0.975 0.988 0.012
#> SRR1177739 1 0.1184 0.983 0.984 0.016
#> SRR1177740 1 0.1184 0.983 0.984 0.016
#> SRR1177741 1 0.1184 0.983 0.984 0.016
#> SRR1177742 1 0.0000 0.979 1.000 0.000
#> SRR1177743 1 0.1184 0.983 0.984 0.016
#> SRR1177744 1 0.1184 0.983 0.984 0.016
#> SRR1177745 1 0.0000 0.979 1.000 0.000
#> SRR1177746 1 0.0000 0.979 1.000 0.000
#> SRR1177747 1 0.0000 0.979 1.000 0.000
#> SRR1177748 1 0.0000 0.979 1.000 0.000
#> SRR1177749 1 0.1184 0.983 0.984 0.016
#> SRR1177750 1 0.1184 0.983 0.984 0.016
#> SRR1177751 1 0.1184 0.983 0.984 0.016
#> SRR1177752 1 0.1184 0.983 0.984 0.016
#> SRR1177753 1 0.1184 0.983 0.984 0.016
#> SRR1177754 1 0.1184 0.983 0.984 0.016
#> SRR1177755 1 0.1184 0.983 0.984 0.016
#> SRR1177756 1 0.1184 0.983 0.984 0.016
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026872 2 0.2165 0.917 0.000 0.936 0.064
#> SRR1026873 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026874 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026875 3 0.4139 0.861 0.016 0.124 0.860
#> SRR1026876 3 0.4209 0.857 0.016 0.128 0.856
#> SRR1026877 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026878 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026879 1 0.0747 0.963 0.984 0.000 0.016
#> SRR1026880 1 0.0747 0.963 0.984 0.000 0.016
#> SRR1026881 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026882 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026883 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026884 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026885 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026886 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026887 2 0.3752 0.835 0.000 0.856 0.144
#> SRR1026888 2 0.3752 0.835 0.000 0.856 0.144
#> SRR1026889 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026890 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026891 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026892 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026893 3 0.2165 0.894 0.000 0.064 0.936
#> SRR1026894 3 0.4555 0.739 0.000 0.200 0.800
#> SRR1026895 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026896 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026897 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026898 1 0.0237 0.969 0.996 0.000 0.004
#> SRR1026899 1 0.0747 0.963 0.984 0.000 0.016
#> SRR1026900 1 0.0592 0.962 0.988 0.012 0.000
#> SRR1026901 1 0.5334 0.795 0.820 0.120 0.060
#> SRR1026902 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026903 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026904 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026905 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026906 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026907 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026908 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026909 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026910 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026911 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026912 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026913 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026914 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026918 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026919 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026920 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026922 3 0.6100 0.826 0.096 0.120 0.784
#> SRR1026923 3 0.6887 0.715 0.236 0.060 0.704
#> SRR1026924 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026925 2 0.4654 0.755 0.000 0.792 0.208
#> SRR1026926 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026927 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026928 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026929 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026930 1 0.0475 0.968 0.992 0.004 0.004
#> SRR1026931 3 0.4249 0.891 0.108 0.028 0.864
#> SRR1026932 3 0.4136 0.867 0.020 0.116 0.864
#> SRR1026933 3 0.4136 0.867 0.020 0.116 0.864
#> SRR1026934 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026936 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026937 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026938 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026939 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026940 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026941 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026942 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026943 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026944 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026945 1 0.1031 0.957 0.976 0.000 0.024
#> SRR1026947 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026946 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026948 3 0.4249 0.891 0.108 0.028 0.864
#> SRR1026949 1 0.0424 0.966 0.992 0.008 0.000
#> SRR1026950 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026951 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026952 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026953 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026954 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026955 3 0.4139 0.861 0.016 0.124 0.860
#> SRR1026956 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026957 3 0.4861 0.789 0.008 0.192 0.800
#> SRR1026958 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026959 3 0.4475 0.891 0.072 0.064 0.864
#> SRR1026960 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026961 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026962 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026964 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026965 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026966 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026967 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026968 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026969 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026970 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026971 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026972 1 0.9021 0.350 0.552 0.184 0.264
#> SRR1026973 1 0.9092 0.267 0.528 0.168 0.304
#> SRR1026974 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026975 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026976 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026977 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026978 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026979 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026980 3 0.4842 0.777 0.224 0.000 0.776
#> SRR1026981 3 0.3412 0.884 0.124 0.000 0.876
#> SRR1026982 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026983 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026984 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026985 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026986 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026987 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026988 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026989 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026990 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026991 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026992 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1026994 3 0.3619 0.878 0.136 0.000 0.864
#> SRR1026995 1 0.0237 0.969 0.996 0.000 0.004
#> SRR1026996 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026997 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1026998 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1026999 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1027000 1 0.0237 0.969 0.996 0.000 0.004
#> SRR1027001 1 0.6126 0.386 0.600 0.000 0.400
#> SRR1027002 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1027003 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1027004 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1027005 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1027006 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1027007 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1027008 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1027010 1 0.1163 0.955 0.972 0.000 0.028
#> SRR1027011 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177668 3 0.2356 0.900 0.072 0.000 0.928
#> SRR1177667 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177669 1 0.0747 0.963 0.984 0.000 0.016
#> SRR1177670 1 0.3267 0.869 0.884 0.000 0.116
#> SRR1177671 3 0.3619 0.878 0.136 0.000 0.864
#> SRR1177672 1 0.2261 0.919 0.932 0.000 0.068
#> SRR1177673 1 0.0424 0.968 0.992 0.000 0.008
#> SRR1177674 3 0.1643 0.915 0.044 0.000 0.956
#> SRR1177675 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177676 1 0.0747 0.963 0.984 0.000 0.016
#> SRR1177677 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177679 3 0.3619 0.878 0.136 0.000 0.864
#> SRR1177680 1 0.1163 0.951 0.972 0.000 0.028
#> SRR1177681 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177682 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177683 3 0.3619 0.878 0.136 0.000 0.864
#> SRR1177684 3 0.3619 0.878 0.136 0.000 0.864
#> SRR1177685 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177686 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177687 3 0.4452 0.819 0.192 0.000 0.808
#> SRR1177688 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177689 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177690 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177691 3 0.3619 0.878 0.136 0.000 0.864
#> SRR1177692 3 0.3619 0.878 0.136 0.000 0.864
#> SRR1177693 2 0.5968 0.380 0.000 0.636 0.364
#> SRR1177694 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1177695 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177697 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177696 1 0.0237 0.969 0.996 0.000 0.004
#> SRR1177698 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177700 1 0.3412 0.841 0.876 0.124 0.000
#> SRR1177701 2 0.5058 0.673 0.244 0.756 0.000
#> SRR1177702 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177703 1 0.2959 0.869 0.900 0.100 0.000
#> SRR1177704 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177705 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177706 3 0.3619 0.878 0.136 0.000 0.864
#> SRR1177707 2 0.3038 0.865 0.104 0.896 0.000
#> SRR1177708 1 0.0237 0.969 0.996 0.004 0.000
#> SRR1177709 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177710 1 0.0892 0.960 0.980 0.000 0.020
#> SRR1177711 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177712 3 0.0747 0.926 0.000 0.016 0.984
#> SRR1177714 3 0.3276 0.911 0.068 0.024 0.908
#> SRR1177713 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177715 1 0.1411 0.944 0.964 0.000 0.036
#> SRR1177716 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177717 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177719 1 0.3267 0.851 0.884 0.116 0.000
#> SRR1177720 3 0.0424 0.930 0.008 0.000 0.992
#> SRR1177721 3 0.4196 0.889 0.112 0.024 0.864
#> SRR1177722 3 0.3832 0.880 0.020 0.100 0.880
#> SRR1177723 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177726 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177727 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177728 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177730 1 0.1031 0.957 0.976 0.000 0.024
#> SRR1177731 1 0.0747 0.963 0.984 0.000 0.016
#> SRR1177732 1 0.1031 0.957 0.976 0.000 0.024
#> SRR1177733 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177734 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177735 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177736 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177737 2 0.0000 0.981 0.000 1.000 0.000
#> SRR1177738 3 0.0424 0.929 0.000 0.008 0.992
#> SRR1177739 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177740 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177741 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177742 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177743 1 0.0747 0.963 0.984 0.000 0.016
#> SRR1177744 1 0.0747 0.963 0.984 0.000 0.016
#> SRR1177745 3 0.3619 0.878 0.136 0.000 0.864
#> SRR1177746 1 0.4750 0.704 0.784 0.000 0.216
#> SRR1177747 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177748 3 0.0000 0.931 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177751 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177752 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177754 1 0.0747 0.963 0.984 0.000 0.016
#> SRR1177755 1 0.0000 0.971 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.971 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 4 0.2281 0.922 0.000 0.096 0.000 0.904
#> SRR1026871 4 0.2281 0.922 0.000 0.096 0.000 0.904
#> SRR1026872 4 0.2345 0.920 0.000 0.100 0.000 0.900
#> SRR1026873 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1026874 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026875 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1026876 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1026877 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026878 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026879 1 0.1798 0.893 0.944 0.040 0.016 0.000
#> SRR1026880 1 0.1677 0.895 0.948 0.040 0.012 0.000
#> SRR1026881 4 0.0707 0.952 0.000 0.020 0.000 0.980
#> SRR1026882 4 0.2149 0.925 0.000 0.088 0.000 0.912
#> SRR1026883 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026884 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026885 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026886 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026887 3 0.1474 0.892 0.000 0.000 0.948 0.052
#> SRR1026888 3 0.1557 0.887 0.000 0.000 0.944 0.056
#> SRR1026889 4 0.2345 0.920 0.000 0.100 0.000 0.900
#> SRR1026890 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026891 4 0.0336 0.954 0.008 0.000 0.000 0.992
#> SRR1026892 4 0.0336 0.954 0.008 0.000 0.000 0.992
#> SRR1026893 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026894 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026895 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026896 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026897 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026898 1 0.2149 0.887 0.912 0.088 0.000 0.000
#> SRR1026899 1 0.1837 0.891 0.944 0.028 0.028 0.000
#> SRR1026900 1 0.2921 0.847 0.860 0.140 0.000 0.000
#> SRR1026901 1 0.4036 0.825 0.816 0.160 0.004 0.020
#> SRR1026902 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026903 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026904 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026905 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026906 4 0.2408 0.918 0.000 0.104 0.000 0.896
#> SRR1026907 4 0.2408 0.918 0.000 0.104 0.000 0.896
#> SRR1026908 4 0.2868 0.894 0.000 0.136 0.000 0.864
#> SRR1026909 4 0.3356 0.858 0.000 0.176 0.000 0.824
#> SRR1026910 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026911 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026912 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026913 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026914 4 0.2281 0.922 0.000 0.096 0.000 0.904
#> SRR1026915 4 0.2281 0.922 0.000 0.096 0.000 0.904
#> SRR1026916 4 0.2216 0.924 0.000 0.092 0.000 0.908
#> SRR1026917 4 0.2216 0.924 0.000 0.092 0.000 0.908
#> SRR1026918 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026919 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026920 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026921 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026922 2 0.6574 0.294 0.364 0.548 0.088 0.000
#> SRR1026923 1 0.5384 0.718 0.728 0.196 0.076 0.000
#> SRR1026924 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026925 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026926 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026927 4 0.0336 0.954 0.008 0.000 0.000 0.992
#> SRR1026928 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026929 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026930 1 0.2973 0.845 0.856 0.144 0.000 0.000
#> SRR1026931 2 0.2610 0.920 0.012 0.900 0.088 0.000
#> SRR1026932 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1026933 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1026934 4 0.4040 0.774 0.000 0.248 0.000 0.752
#> SRR1026935 4 0.3942 0.789 0.000 0.236 0.000 0.764
#> SRR1026936 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026937 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026938 4 0.2149 0.925 0.000 0.088 0.000 0.912
#> SRR1026939 4 0.2149 0.925 0.000 0.088 0.000 0.912
#> SRR1026940 1 0.0921 0.902 0.972 0.028 0.000 0.000
#> SRR1026941 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026942 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1026943 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1026944 1 0.0817 0.904 0.976 0.024 0.000 0.000
#> SRR1026945 1 0.3626 0.741 0.812 0.004 0.184 0.000
#> SRR1026947 4 0.4008 0.779 0.000 0.244 0.000 0.756
#> SRR1026946 4 0.2281 0.922 0.000 0.096 0.000 0.904
#> SRR1026948 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1026949 1 0.2760 0.855 0.872 0.128 0.000 0.000
#> SRR1026950 1 0.0921 0.904 0.972 0.028 0.000 0.000
#> SRR1026951 1 0.3172 0.839 0.840 0.160 0.000 0.000
#> SRR1026952 1 0.0817 0.904 0.976 0.024 0.000 0.000
#> SRR1026953 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026954 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026955 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1026956 4 0.0336 0.954 0.008 0.000 0.000 0.992
#> SRR1026957 1 0.8391 0.378 0.544 0.168 0.084 0.204
#> SRR1026958 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1026959 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1026960 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026961 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026962 1 0.0817 0.904 0.976 0.024 0.000 0.000
#> SRR1026963 1 0.0817 0.904 0.976 0.024 0.000 0.000
#> SRR1026964 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026965 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026966 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026967 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026968 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026969 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026970 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026971 4 0.0188 0.956 0.004 0.000 0.000 0.996
#> SRR1026972 1 0.5048 0.691 0.768 0.032 0.020 0.180
#> SRR1026973 1 0.5422 0.711 0.768 0.040 0.044 0.148
#> SRR1026974 4 0.0336 0.954 0.008 0.000 0.000 0.992
#> SRR1026975 4 0.0336 0.954 0.008 0.000 0.000 0.992
#> SRR1026976 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026977 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026978 1 0.2921 0.847 0.860 0.140 0.000 0.000
#> SRR1026979 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026980 1 0.5457 0.714 0.728 0.184 0.088 0.000
#> SRR1026981 1 0.5432 0.498 0.652 0.032 0.316 0.000
#> SRR1026982 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026983 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026984 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026985 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026986 1 0.0336 0.906 0.992 0.008 0.000 0.000
#> SRR1026987 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1026988 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1026989 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026990 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026991 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026992 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1026993 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1026994 1 0.5376 0.724 0.736 0.176 0.088 0.000
#> SRR1026995 1 0.1867 0.893 0.928 0.072 0.000 0.000
#> SRR1026996 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026997 4 0.0000 0.958 0.000 0.000 0.000 1.000
#> SRR1026998 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1026999 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1027000 1 0.3486 0.820 0.812 0.188 0.000 0.000
#> SRR1027001 3 0.1940 0.845 0.076 0.000 0.924 0.000
#> SRR1027002 1 0.2921 0.847 0.860 0.140 0.000 0.000
#> SRR1027003 1 0.3219 0.836 0.836 0.164 0.000 0.000
#> SRR1027004 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1027005 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1027006 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1027007 1 0.1211 0.900 0.960 0.040 0.000 0.000
#> SRR1027008 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1027009 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1027010 3 0.5105 0.249 0.432 0.004 0.564 0.000
#> SRR1027011 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177668 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177667 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177669 1 0.1833 0.890 0.944 0.024 0.032 0.000
#> SRR1177670 3 0.3975 0.609 0.240 0.000 0.760 0.000
#> SRR1177671 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1177672 3 0.4746 0.382 0.368 0.000 0.632 0.000
#> SRR1177673 1 0.1867 0.893 0.928 0.072 0.000 0.000
#> SRR1177674 3 0.0817 0.930 0.024 0.000 0.976 0.000
#> SRR1177675 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177676 1 0.2197 0.880 0.928 0.024 0.048 0.000
#> SRR1177677 1 0.3024 0.844 0.852 0.148 0.000 0.000
#> SRR1177678 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177679 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1177680 1 0.3266 0.834 0.832 0.168 0.000 0.000
#> SRR1177681 1 0.1302 0.902 0.956 0.044 0.000 0.000
#> SRR1177682 1 0.3444 0.823 0.816 0.184 0.000 0.000
#> SRR1177683 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1177684 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1177685 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177686 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177687 1 0.5496 0.709 0.724 0.188 0.088 0.000
#> SRR1177688 1 0.1389 0.901 0.952 0.048 0.000 0.000
#> SRR1177689 1 0.3266 0.834 0.832 0.168 0.000 0.000
#> SRR1177690 1 0.0817 0.904 0.976 0.024 0.000 0.000
#> SRR1177691 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1177692 1 0.5496 0.709 0.724 0.188 0.088 0.000
#> SRR1177693 4 0.4250 0.733 0.000 0.276 0.000 0.724
#> SRR1177694 4 0.2149 0.925 0.000 0.088 0.000 0.912
#> SRR1177695 1 0.3024 0.844 0.852 0.148 0.000 0.000
#> SRR1177697 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177696 1 0.1211 0.902 0.960 0.040 0.000 0.000
#> SRR1177698 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177700 1 0.4677 0.726 0.776 0.048 0.000 0.176
#> SRR1177701 4 0.4502 0.604 0.236 0.016 0.000 0.748
#> SRR1177702 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177703 1 0.3474 0.847 0.868 0.064 0.000 0.068
#> SRR1177704 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177705 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177706 2 0.6635 0.236 0.388 0.524 0.088 0.000
#> SRR1177707 4 0.1398 0.923 0.040 0.004 0.000 0.956
#> SRR1177708 1 0.0592 0.906 0.984 0.016 0.000 0.000
#> SRR1177709 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177710 1 0.5291 0.484 0.652 0.024 0.324 0.000
#> SRR1177711 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177712 3 0.0188 0.951 0.000 0.000 0.996 0.004
#> SRR1177714 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1177713 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177715 1 0.3486 0.820 0.812 0.188 0.000 0.000
#> SRR1177716 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177717 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177718 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177719 1 0.1913 0.897 0.940 0.040 0.000 0.020
#> SRR1177720 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177721 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1177722 2 0.2149 0.932 0.000 0.912 0.088 0.000
#> SRR1177723 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177725 1 0.0817 0.904 0.976 0.024 0.000 0.000
#> SRR1177724 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177726 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177727 1 0.0336 0.906 0.992 0.008 0.000 0.000
#> SRR1177728 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177729 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177730 1 0.4472 0.677 0.760 0.020 0.220 0.000
#> SRR1177731 1 0.0921 0.902 0.972 0.028 0.000 0.000
#> SRR1177732 1 0.4452 0.622 0.732 0.008 0.260 0.000
#> SRR1177733 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177734 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177735 1 0.2345 0.873 0.900 0.100 0.000 0.000
#> SRR1177736 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177737 4 0.1792 0.934 0.000 0.068 0.000 0.932
#> SRR1177738 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177739 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177740 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177741 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177742 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177743 1 0.2282 0.877 0.924 0.024 0.052 0.000
#> SRR1177744 1 0.3725 0.744 0.812 0.008 0.180 0.000
#> SRR1177745 1 0.5496 0.709 0.724 0.188 0.088 0.000
#> SRR1177746 1 0.3810 0.813 0.804 0.188 0.008 0.000
#> SRR1177747 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177748 3 0.0000 0.955 0.000 0.000 1.000 0.000
#> SRR1177749 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177750 1 0.0817 0.904 0.976 0.024 0.000 0.000
#> SRR1177751 1 0.2921 0.847 0.860 0.140 0.000 0.000
#> SRR1177752 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177753 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177754 1 0.1837 0.891 0.944 0.028 0.028 0.000
#> SRR1177755 1 0.0000 0.906 1.000 0.000 0.000 0.000
#> SRR1177756 1 0.1022 0.903 0.968 0.032 0.000 0.000
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.0703 0.708 0.000 0.976 0.000 0.024 0.000
#> SRR1026871 2 0.0794 0.709 0.000 0.972 0.000 0.028 0.000
#> SRR1026872 2 0.1121 0.708 0.000 0.956 0.000 0.044 0.000
#> SRR1026873 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1026874 3 0.0451 0.948 0.004 0.000 0.988 0.000 0.008
#> SRR1026875 5 0.2377 0.870 0.000 0.128 0.000 0.000 0.872
#> SRR1026876 5 0.2377 0.870 0.000 0.128 0.000 0.000 0.872
#> SRR1026877 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026878 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026879 1 0.1364 0.884 0.952 0.000 0.036 0.000 0.012
#> SRR1026880 1 0.1195 0.889 0.960 0.000 0.028 0.000 0.012
#> SRR1026881 2 0.4304 0.366 0.000 0.516 0.000 0.484 0.000
#> SRR1026882 2 0.4297 0.401 0.000 0.528 0.000 0.472 0.000
#> SRR1026883 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026884 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026885 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026886 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026887 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026888 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026889 2 0.0703 0.707 0.000 0.976 0.000 0.024 0.000
#> SRR1026890 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026891 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026892 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026893 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026894 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026895 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026896 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026897 3 0.0162 0.950 0.004 0.000 0.996 0.000 0.000
#> SRR1026898 1 0.0880 0.897 0.968 0.000 0.000 0.000 0.032
#> SRR1026899 1 0.1282 0.883 0.952 0.000 0.044 0.000 0.004
#> SRR1026900 1 0.0609 0.900 0.980 0.000 0.000 0.000 0.020
#> SRR1026901 1 0.2727 0.823 0.868 0.000 0.000 0.116 0.016
#> SRR1026902 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026903 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026904 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026905 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026906 2 0.0162 0.700 0.000 0.996 0.000 0.004 0.000
#> SRR1026907 2 0.0162 0.700 0.000 0.996 0.000 0.004 0.000
#> SRR1026908 2 0.0162 0.700 0.000 0.996 0.000 0.004 0.000
#> SRR1026909 2 0.0162 0.700 0.000 0.996 0.000 0.004 0.000
#> SRR1026910 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026911 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026912 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026913 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026914 2 0.4219 0.525 0.000 0.584 0.000 0.416 0.000
#> SRR1026915 2 0.4219 0.525 0.000 0.584 0.000 0.416 0.000
#> SRR1026916 2 0.4249 0.497 0.000 0.568 0.000 0.432 0.000
#> SRR1026917 2 0.4235 0.512 0.000 0.576 0.000 0.424 0.000
#> SRR1026918 4 0.2966 0.677 0.000 0.184 0.000 0.816 0.000
#> SRR1026919 4 0.3039 0.664 0.000 0.192 0.000 0.808 0.000
#> SRR1026920 4 0.4045 0.225 0.000 0.356 0.000 0.644 0.000
#> SRR1026921 4 0.4045 0.225 0.000 0.356 0.000 0.644 0.000
#> SRR1026922 1 0.6369 0.315 0.520 0.236 0.000 0.000 0.244
#> SRR1026923 1 0.4309 0.616 0.676 0.016 0.000 0.000 0.308
#> SRR1026924 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026925 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026926 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026927 4 0.0162 0.895 0.004 0.000 0.000 0.996 0.000
#> SRR1026928 4 0.2732 0.716 0.000 0.160 0.000 0.840 0.000
#> SRR1026929 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026930 1 0.3003 0.795 0.812 0.000 0.000 0.000 0.188
#> SRR1026931 5 0.0404 0.926 0.012 0.000 0.000 0.000 0.988
#> SRR1026932 5 0.2377 0.870 0.000 0.128 0.000 0.000 0.872
#> SRR1026933 5 0.2329 0.872 0.000 0.124 0.000 0.000 0.876
#> SRR1026934 2 0.0162 0.700 0.000 0.996 0.000 0.004 0.000
#> SRR1026935 2 0.0162 0.700 0.000 0.996 0.000 0.004 0.000
#> SRR1026936 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026937 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026938 2 0.4192 0.539 0.000 0.596 0.000 0.404 0.000
#> SRR1026939 2 0.4192 0.539 0.000 0.596 0.000 0.404 0.000
#> SRR1026940 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026941 3 0.0290 0.950 0.000 0.000 0.992 0.000 0.008
#> SRR1026942 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026943 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026944 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026945 1 0.2513 0.828 0.876 0.000 0.116 0.000 0.008
#> SRR1026947 2 0.0162 0.700 0.000 0.996 0.000 0.004 0.000
#> SRR1026946 2 0.0703 0.707 0.000 0.976 0.000 0.024 0.000
#> SRR1026948 5 0.0451 0.928 0.008 0.004 0.000 0.000 0.988
#> SRR1026949 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026950 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026951 1 0.0510 0.901 0.984 0.000 0.000 0.000 0.016
#> SRR1026952 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026953 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026954 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026955 5 0.2377 0.870 0.000 0.128 0.000 0.000 0.872
#> SRR1026956 4 0.0162 0.895 0.004 0.000 0.000 0.996 0.000
#> SRR1026957 1 0.6950 0.161 0.460 0.384 0.000 0.096 0.060
#> SRR1026958 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026959 5 0.2017 0.897 0.008 0.080 0.000 0.000 0.912
#> SRR1026960 4 0.1908 0.796 0.000 0.092 0.000 0.908 0.000
#> SRR1026961 4 0.0510 0.887 0.000 0.016 0.000 0.984 0.000
#> SRR1026962 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026963 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026964 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026965 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026966 3 0.0162 0.951 0.000 0.000 0.996 0.000 0.004
#> SRR1026967 3 0.0162 0.951 0.000 0.000 0.996 0.000 0.004
#> SRR1026968 4 0.0404 0.890 0.000 0.012 0.000 0.988 0.000
#> SRR1026969 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026970 4 0.1942 0.798 0.068 0.012 0.000 0.920 0.000
#> SRR1026971 4 0.1740 0.817 0.056 0.012 0.000 0.932 0.000
#> SRR1026972 1 0.3519 0.718 0.776 0.000 0.000 0.216 0.008
#> SRR1026973 1 0.3421 0.733 0.788 0.000 0.000 0.204 0.008
#> SRR1026974 4 0.0162 0.895 0.004 0.000 0.000 0.996 0.000
#> SRR1026975 4 0.0162 0.895 0.004 0.000 0.000 0.996 0.000
#> SRR1026976 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026977 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026978 1 0.1121 0.891 0.956 0.000 0.000 0.000 0.044
#> SRR1026979 3 0.0290 0.950 0.000 0.000 0.992 0.000 0.008
#> SRR1026980 1 0.1792 0.870 0.916 0.000 0.000 0.000 0.084
#> SRR1026981 1 0.4651 0.406 0.608 0.000 0.372 0.000 0.020
#> SRR1026982 4 0.0404 0.890 0.000 0.012 0.000 0.988 0.000
#> SRR1026983 4 0.0404 0.890 0.000 0.012 0.000 0.988 0.000
#> SRR1026984 4 0.3932 0.335 0.000 0.328 0.000 0.672 0.000
#> SRR1026985 4 0.3895 0.361 0.000 0.320 0.000 0.680 0.000
#> SRR1026986 1 0.0510 0.901 0.984 0.000 0.000 0.000 0.016
#> SRR1026987 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1026988 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1026989 3 0.2017 0.883 0.080 0.000 0.912 0.000 0.008
#> SRR1026990 4 0.0290 0.893 0.000 0.008 0.000 0.992 0.000
#> SRR1026991 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026992 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1026993 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1026994 1 0.3752 0.656 0.708 0.000 0.000 0.000 0.292
#> SRR1026995 1 0.0609 0.900 0.980 0.000 0.000 0.000 0.020
#> SRR1026996 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026997 4 0.0000 0.898 0.000 0.000 0.000 1.000 0.000
#> SRR1026998 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1026999 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1027000 1 0.3039 0.792 0.808 0.000 0.000 0.000 0.192
#> SRR1027001 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1027002 1 0.2852 0.810 0.828 0.000 0.000 0.000 0.172
#> SRR1027003 1 0.2329 0.847 0.876 0.000 0.000 0.000 0.124
#> SRR1027004 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1027005 3 0.1732 0.886 0.080 0.000 0.920 0.000 0.000
#> SRR1027006 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1027007 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1027008 1 0.0404 0.902 0.988 0.000 0.000 0.000 0.012
#> SRR1027009 3 0.0290 0.950 0.000 0.000 0.992 0.000 0.008
#> SRR1027010 1 0.4455 0.309 0.588 0.000 0.404 0.000 0.008
#> SRR1027011 3 0.1732 0.886 0.080 0.000 0.920 0.000 0.000
#> SRR1177668 3 0.2136 0.877 0.088 0.000 0.904 0.000 0.008
#> SRR1177667 1 0.0162 0.901 0.996 0.000 0.000 0.000 0.004
#> SRR1177669 1 0.1484 0.878 0.944 0.000 0.048 0.000 0.008
#> SRR1177670 3 0.3861 0.599 0.264 0.000 0.728 0.000 0.008
#> SRR1177671 5 0.0290 0.928 0.008 0.000 0.000 0.000 0.992
#> SRR1177672 3 0.4446 0.310 0.400 0.000 0.592 0.000 0.008
#> SRR1177673 1 0.1549 0.886 0.944 0.000 0.040 0.000 0.016
#> SRR1177674 3 0.2136 0.877 0.088 0.000 0.904 0.000 0.008
#> SRR1177675 1 0.0290 0.901 0.992 0.000 0.000 0.000 0.008
#> SRR1177676 1 0.1408 0.881 0.948 0.000 0.044 0.000 0.008
#> SRR1177677 1 0.2516 0.833 0.860 0.000 0.000 0.000 0.140
#> SRR1177678 1 0.0162 0.901 0.996 0.000 0.000 0.000 0.004
#> SRR1177679 5 0.0290 0.928 0.008 0.000 0.000 0.000 0.992
#> SRR1177680 1 0.3336 0.755 0.772 0.000 0.000 0.000 0.228
#> SRR1177681 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1177682 1 0.2813 0.813 0.832 0.000 0.000 0.000 0.168
#> SRR1177683 5 0.0290 0.928 0.008 0.000 0.000 0.000 0.992
#> SRR1177684 5 0.0290 0.928 0.008 0.000 0.000 0.000 0.992
#> SRR1177685 1 0.0162 0.901 0.996 0.000 0.000 0.000 0.004
#> SRR1177686 3 0.1732 0.886 0.080 0.000 0.920 0.000 0.000
#> SRR1177687 1 0.4150 0.513 0.612 0.000 0.000 0.000 0.388
#> SRR1177688 1 0.0404 0.902 0.988 0.000 0.000 0.000 0.012
#> SRR1177689 1 0.3003 0.795 0.812 0.000 0.000 0.000 0.188
#> SRR1177690 1 0.0880 0.896 0.968 0.000 0.000 0.000 0.032
#> SRR1177691 5 0.0290 0.928 0.008 0.000 0.000 0.000 0.992
#> SRR1177692 1 0.4150 0.513 0.612 0.000 0.000 0.000 0.388
#> SRR1177693 2 0.0290 0.703 0.000 0.992 0.000 0.008 0.000
#> SRR1177694 2 0.4219 0.523 0.000 0.584 0.000 0.416 0.000
#> SRR1177695 1 0.2561 0.829 0.856 0.000 0.000 0.000 0.144
#> SRR1177697 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177696 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1177698 3 0.1732 0.886 0.080 0.000 0.920 0.000 0.000
#> SRR1177700 1 0.4220 0.595 0.688 0.008 0.000 0.300 0.004
#> SRR1177701 4 0.4913 -0.110 0.488 0.012 0.000 0.492 0.008
#> SRR1177702 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1177703 1 0.3966 0.697 0.756 0.012 0.000 0.224 0.008
#> SRR1177704 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1177705 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1177706 5 0.2813 0.694 0.168 0.000 0.000 0.000 0.832
#> SRR1177707 4 0.4582 0.190 0.416 0.012 0.000 0.572 0.000
#> SRR1177708 1 0.1082 0.892 0.964 0.000 0.000 0.028 0.008
#> SRR1177709 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177710 1 0.3861 0.629 0.728 0.000 0.264 0.000 0.008
#> SRR1177711 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177712 3 0.0162 0.950 0.004 0.000 0.996 0.000 0.000
#> SRR1177714 5 0.0451 0.928 0.008 0.004 0.000 0.000 0.988
#> SRR1177713 3 0.0290 0.950 0.000 0.000 0.992 0.000 0.008
#> SRR1177715 1 0.4138 0.524 0.616 0.000 0.000 0.000 0.384
#> SRR1177716 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1177717 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177718 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1177719 1 0.3421 0.735 0.788 0.000 0.000 0.204 0.008
#> SRR1177720 3 0.2676 0.862 0.080 0.000 0.884 0.000 0.036
#> SRR1177721 5 0.0451 0.928 0.008 0.004 0.000 0.000 0.988
#> SRR1177722 5 0.0579 0.928 0.008 0.008 0.000 0.000 0.984
#> SRR1177723 1 0.0404 0.901 0.988 0.000 0.000 0.000 0.012
#> SRR1177725 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1177724 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177726 3 0.0290 0.950 0.000 0.000 0.992 0.000 0.008
#> SRR1177727 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1177728 3 0.0290 0.950 0.000 0.000 0.992 0.000 0.008
#> SRR1177729 1 0.0290 0.901 0.992 0.000 0.000 0.000 0.008
#> SRR1177730 1 0.2843 0.801 0.848 0.000 0.144 0.000 0.008
#> SRR1177731 1 0.0290 0.899 0.992 0.000 0.000 0.000 0.008
#> SRR1177732 1 0.3861 0.632 0.712 0.000 0.284 0.000 0.004
#> SRR1177733 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1177734 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177735 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1177736 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177737 2 0.4273 0.457 0.000 0.552 0.000 0.448 0.000
#> SRR1177738 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1177739 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177740 1 0.0290 0.902 0.992 0.000 0.000 0.000 0.008
#> SRR1177741 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177742 3 0.0290 0.950 0.000 0.000 0.992 0.000 0.008
#> SRR1177743 1 0.1484 0.878 0.944 0.000 0.048 0.000 0.008
#> SRR1177744 1 0.3715 0.671 0.736 0.000 0.260 0.000 0.004
#> SRR1177745 1 0.4171 0.497 0.604 0.000 0.000 0.000 0.396
#> SRR1177746 1 0.4126 0.532 0.620 0.000 0.000 0.000 0.380
#> SRR1177747 3 0.0000 0.951 0.000 0.000 1.000 0.000 0.000
#> SRR1177748 3 0.0290 0.950 0.000 0.000 0.992 0.000 0.008
#> SRR1177749 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177750 1 0.0404 0.902 0.988 0.000 0.000 0.000 0.012
#> SRR1177751 1 0.2773 0.815 0.836 0.000 0.000 0.000 0.164
#> SRR1177752 1 0.0162 0.901 0.996 0.000 0.000 0.000 0.004
#> SRR1177753 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177754 1 0.1408 0.881 0.948 0.000 0.044 0.000 0.008
#> SRR1177755 1 0.0000 0.902 1.000 0.000 0.000 0.000 0.000
#> SRR1177756 1 0.0404 0.901 0.988 0.000 0.000 0.000 0.012
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.0146 0.6509 0.000 0.996 0.000 0.004 0.000 0.000
#> SRR1026871 2 0.0146 0.6509 0.000 0.996 0.000 0.004 0.000 0.000
#> SRR1026872 2 0.0291 0.6487 0.000 0.992 0.000 0.004 0.000 0.004
#> SRR1026873 1 0.0632 0.8161 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1026874 3 0.0146 0.9795 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1026875 6 0.2558 0.7001 0.000 0.156 0.000 0.000 0.004 0.840
#> SRR1026876 6 0.2558 0.7001 0.000 0.156 0.000 0.000 0.004 0.840
#> SRR1026877 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026878 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026879 5 0.3866 0.3829 0.484 0.000 0.000 0.000 0.516 0.000
#> SRR1026880 1 0.3531 0.2225 0.672 0.000 0.000 0.000 0.328 0.000
#> SRR1026881 2 0.3847 0.3607 0.000 0.544 0.000 0.456 0.000 0.000
#> SRR1026882 2 0.3847 0.3607 0.000 0.544 0.000 0.456 0.000 0.000
#> SRR1026883 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026884 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026885 4 0.0146 0.8602 0.000 0.000 0.000 0.996 0.004 0.000
#> SRR1026886 4 0.0146 0.8602 0.000 0.000 0.000 0.996 0.004 0.000
#> SRR1026887 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026888 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026889 2 0.0146 0.6509 0.000 0.996 0.000 0.004 0.000 0.000
#> SRR1026890 4 0.0858 0.8467 0.000 0.000 0.028 0.968 0.004 0.000
#> SRR1026891 4 0.0458 0.8581 0.000 0.000 0.000 0.984 0.016 0.000
#> SRR1026892 4 0.0458 0.8581 0.000 0.000 0.000 0.984 0.016 0.000
#> SRR1026893 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026894 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026895 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026896 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026897 3 0.0146 0.9795 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1026898 1 0.3078 0.6791 0.836 0.000 0.000 0.000 0.056 0.108
#> SRR1026899 5 0.3866 0.3829 0.484 0.000 0.000 0.000 0.516 0.000
#> SRR1026900 1 0.1610 0.7736 0.916 0.000 0.000 0.000 0.084 0.000
#> SRR1026901 1 0.3718 0.6123 0.784 0.000 0.000 0.132 0.084 0.000
#> SRR1026902 4 0.0000 0.8600 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026903 4 0.0000 0.8600 0.000 0.000 0.000 1.000 0.000 0.000
#> SRR1026904 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026905 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026906 2 0.0000 0.6495 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026907 2 0.0000 0.6495 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026908 2 0.0000 0.6495 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026909 2 0.0000 0.6495 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026910 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026911 4 0.0713 0.8585 0.000 0.000 0.000 0.972 0.028 0.000
#> SRR1026912 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026913 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026914 2 0.3810 0.4200 0.000 0.572 0.000 0.428 0.000 0.000
#> SRR1026915 2 0.3810 0.4200 0.000 0.572 0.000 0.428 0.000 0.000
#> SRR1026916 2 0.3847 0.3667 0.000 0.544 0.000 0.456 0.000 0.000
#> SRR1026917 2 0.3843 0.3755 0.000 0.548 0.000 0.452 0.000 0.000
#> SRR1026918 4 0.2823 0.6441 0.000 0.204 0.000 0.796 0.000 0.000
#> SRR1026919 4 0.3244 0.5275 0.000 0.268 0.000 0.732 0.000 0.000
#> SRR1026920 4 0.3620 0.3017 0.000 0.352 0.000 0.648 0.000 0.000
#> SRR1026921 4 0.3620 0.3017 0.000 0.352 0.000 0.648 0.000 0.000
#> SRR1026922 2 0.6975 0.0605 0.232 0.464 0.000 0.000 0.204 0.100
#> SRR1026923 5 0.7252 0.0616 0.308 0.088 0.000 0.000 0.312 0.292
#> SRR1026924 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026925 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026926 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026927 4 0.0508 0.8575 0.004 0.000 0.000 0.984 0.012 0.000
#> SRR1026928 4 0.3810 0.0201 0.000 0.428 0.000 0.572 0.000 0.000
#> SRR1026929 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026930 1 0.5697 0.1099 0.520 0.000 0.000 0.000 0.272 0.208
#> SRR1026931 6 0.4066 0.6416 0.012 0.000 0.000 0.000 0.392 0.596
#> SRR1026932 6 0.2558 0.7001 0.000 0.156 0.000 0.000 0.004 0.840
#> SRR1026933 6 0.2558 0.7001 0.000 0.156 0.000 0.000 0.004 0.840
#> SRR1026934 2 0.0000 0.6495 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026935 2 0.0000 0.6495 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026936 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026937 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026938 2 0.3774 0.4444 0.000 0.592 0.000 0.408 0.000 0.000
#> SRR1026939 2 0.3774 0.4444 0.000 0.592 0.000 0.408 0.000 0.000
#> SRR1026940 1 0.0363 0.8205 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1026941 3 0.0146 0.9798 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026942 1 0.0363 0.8220 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1026943 1 0.0146 0.8229 0.996 0.000 0.000 0.000 0.004 0.000
#> SRR1026944 1 0.0458 0.8218 0.984 0.000 0.000 0.000 0.016 0.000
#> SRR1026945 5 0.5146 0.4783 0.396 0.000 0.088 0.000 0.516 0.000
#> SRR1026947 2 0.0000 0.6495 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026946 2 0.0000 0.6495 0.000 1.000 0.000 0.000 0.000 0.000
#> SRR1026948 6 0.0260 0.7687 0.000 0.008 0.000 0.000 0.000 0.992
#> SRR1026949 1 0.0692 0.8153 0.976 0.000 0.000 0.004 0.020 0.000
#> SRR1026950 1 0.0000 0.8233 1.000 0.000 0.000 0.000 0.000 0.000
#> SRR1026951 1 0.1556 0.7771 0.920 0.000 0.000 0.000 0.080 0.000
#> SRR1026952 1 0.0363 0.8220 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1026953 3 0.0260 0.9787 0.000 0.000 0.992 0.000 0.008 0.000
#> SRR1026954 4 0.0260 0.8591 0.000 0.000 0.000 0.992 0.008 0.000
#> SRR1026955 6 0.2558 0.7001 0.000 0.156 0.000 0.000 0.004 0.840
#> SRR1026956 4 0.0458 0.8581 0.000 0.000 0.000 0.984 0.016 0.000
#> SRR1026957 2 0.5991 0.1947 0.244 0.556 0.000 0.000 0.172 0.028
#> SRR1026958 1 0.0000 0.8233 1.000 0.000 0.000 0.000 0.000 0.000
#> SRR1026959 6 0.0632 0.7693 0.000 0.024 0.000 0.000 0.000 0.976
#> SRR1026960 4 0.3835 0.3528 0.000 0.320 0.000 0.668 0.012 0.000
#> SRR1026961 4 0.3383 0.4923 0.000 0.268 0.000 0.728 0.004 0.000
#> SRR1026962 1 0.0363 0.8220 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1026963 1 0.0632 0.8161 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1026964 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026965 4 0.0790 0.8579 0.000 0.000 0.000 0.968 0.032 0.000
#> SRR1026966 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026967 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026968 4 0.0363 0.8580 0.000 0.012 0.000 0.988 0.000 0.000
#> SRR1026969 4 0.0363 0.8585 0.000 0.000 0.000 0.988 0.012 0.000
#> SRR1026970 4 0.0984 0.8500 0.012 0.008 0.000 0.968 0.012 0.000
#> SRR1026971 4 0.0881 0.8529 0.008 0.008 0.000 0.972 0.012 0.000
#> SRR1026972 1 0.3627 0.4882 0.752 0.000 0.004 0.224 0.020 0.000
#> SRR1026973 1 0.3866 0.4644 0.736 0.000 0.008 0.232 0.024 0.000
#> SRR1026974 4 0.0458 0.8581 0.000 0.000 0.000 0.984 0.016 0.000
#> SRR1026975 4 0.0458 0.8581 0.000 0.000 0.000 0.984 0.016 0.000
#> SRR1026976 4 0.0363 0.8585 0.000 0.000 0.000 0.988 0.012 0.000
#> SRR1026977 4 0.0363 0.8585 0.000 0.000 0.000 0.988 0.012 0.000
#> SRR1026978 1 0.3109 0.5832 0.772 0.000 0.000 0.000 0.224 0.004
#> SRR1026979 3 0.0260 0.9787 0.000 0.000 0.992 0.000 0.008 0.000
#> SRR1026980 1 0.5011 0.3337 0.616 0.000 0.000 0.000 0.272 0.112
#> SRR1026981 3 0.5203 0.4593 0.168 0.000 0.684 0.000 0.044 0.104
#> SRR1026982 4 0.0622 0.8562 0.000 0.012 0.000 0.980 0.008 0.000
#> SRR1026983 4 0.0622 0.8562 0.000 0.012 0.000 0.980 0.008 0.000
#> SRR1026984 4 0.3828 -0.0472 0.000 0.440 0.000 0.560 0.000 0.000
#> SRR1026985 4 0.3823 -0.0297 0.000 0.436 0.000 0.564 0.000 0.000
#> SRR1026986 1 0.3112 0.6867 0.836 0.000 0.000 0.000 0.068 0.096
#> SRR1026987 1 0.0146 0.8229 0.996 0.000 0.000 0.000 0.004 0.000
#> SRR1026988 1 0.0632 0.8161 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1026989 3 0.0146 0.9798 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026990 4 0.0622 0.8563 0.000 0.008 0.000 0.980 0.012 0.000
#> SRR1026991 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026992 1 0.0363 0.8220 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1026993 1 0.0000 0.8233 1.000 0.000 0.000 0.000 0.000 0.000
#> SRR1026994 5 0.6006 0.0720 0.316 0.000 0.000 0.000 0.428 0.256
#> SRR1026995 1 0.3487 0.5626 0.756 0.000 0.000 0.000 0.224 0.020
#> SRR1026996 4 0.0458 0.8599 0.000 0.000 0.000 0.984 0.016 0.000
#> SRR1026997 4 0.0458 0.8599 0.000 0.000 0.000 0.984 0.016 0.000
#> SRR1026998 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1026999 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1027000 1 0.5378 0.1837 0.544 0.000 0.000 0.000 0.324 0.132
#> SRR1027001 3 0.0458 0.9738 0.000 0.000 0.984 0.000 0.016 0.000
#> SRR1027002 1 0.5468 0.1813 0.548 0.000 0.000 0.000 0.296 0.156
#> SRR1027003 1 0.5232 0.2305 0.564 0.000 0.000 0.000 0.320 0.116
#> SRR1027004 1 0.0363 0.8220 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1027005 3 0.0146 0.9798 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1027006 1 0.0632 0.8198 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1027007 1 0.1007 0.8015 0.956 0.000 0.000 0.000 0.044 0.000
#> SRR1027008 1 0.0146 0.8229 0.996 0.000 0.000 0.000 0.004 0.000
#> SRR1027009 3 0.0458 0.9738 0.000 0.000 0.984 0.000 0.016 0.000
#> SRR1027010 5 0.5670 0.3966 0.188 0.000 0.296 0.000 0.516 0.000
#> SRR1027011 3 0.0260 0.9787 0.000 0.000 0.992 0.000 0.008 0.000
#> SRR1177668 3 0.2738 0.7867 0.000 0.000 0.820 0.000 0.176 0.004
#> SRR1177667 1 0.0363 0.8220 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1177669 5 0.3866 0.3829 0.484 0.000 0.000 0.000 0.516 0.000
#> SRR1177670 5 0.4783 -0.0266 0.052 0.000 0.428 0.000 0.520 0.000
#> SRR1177671 6 0.2597 0.7504 0.000 0.000 0.000 0.000 0.176 0.824
#> SRR1177672 5 0.5722 0.4255 0.216 0.000 0.268 0.000 0.516 0.000
#> SRR1177673 1 0.2383 0.7296 0.880 0.000 0.000 0.000 0.024 0.096
#> SRR1177674 3 0.0458 0.9738 0.000 0.000 0.984 0.000 0.016 0.000
#> SRR1177675 1 0.0632 0.8161 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177676 5 0.3866 0.3829 0.484 0.000 0.000 0.000 0.516 0.000
#> SRR1177677 1 0.5048 0.3289 0.612 0.000 0.000 0.000 0.272 0.116
#> SRR1177678 1 0.0632 0.8161 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177679 6 0.4076 0.6397 0.012 0.000 0.000 0.000 0.396 0.592
#> SRR1177680 1 0.5475 0.1630 0.536 0.000 0.000 0.000 0.316 0.148
#> SRR1177681 1 0.0458 0.8211 0.984 0.000 0.000 0.000 0.016 0.000
#> SRR1177682 1 0.5219 0.2395 0.568 0.000 0.000 0.000 0.316 0.116
#> SRR1177683 6 0.2762 0.7450 0.000 0.000 0.000 0.000 0.196 0.804
#> SRR1177684 6 0.4076 0.6397 0.012 0.000 0.000 0.000 0.396 0.592
#> SRR1177685 1 0.0547 0.8185 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1177686 3 0.0146 0.9798 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1177687 5 0.5919 0.1592 0.364 0.000 0.000 0.000 0.424 0.212
#> SRR1177688 1 0.0777 0.8156 0.972 0.000 0.000 0.000 0.024 0.004
#> SRR1177689 1 0.5219 0.2395 0.568 0.000 0.000 0.000 0.316 0.116
#> SRR1177690 1 0.2258 0.7545 0.896 0.000 0.000 0.000 0.044 0.060
#> SRR1177691 6 0.4076 0.6397 0.012 0.000 0.000 0.000 0.396 0.592
#> SRR1177692 5 0.6001 -0.0221 0.268 0.000 0.000 0.000 0.436 0.296
#> SRR1177693 2 0.0291 0.6487 0.000 0.992 0.000 0.004 0.000 0.004
#> SRR1177694 2 0.3854 0.3476 0.000 0.536 0.000 0.464 0.000 0.000
#> SRR1177695 1 0.4813 0.3867 0.648 0.000 0.000 0.000 0.248 0.104
#> SRR1177697 1 0.0146 0.8229 0.996 0.000 0.000 0.000 0.004 0.000
#> SRR1177696 1 0.0632 0.8198 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177698 3 0.0146 0.9795 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177700 4 0.4093 -0.1058 0.476 0.000 0.000 0.516 0.008 0.000
#> SRR1177701 4 0.3935 0.4194 0.288 0.008 0.000 0.692 0.012 0.000
#> SRR1177702 3 0.0146 0.9795 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177703 1 0.4037 0.1597 0.608 0.000 0.000 0.380 0.012 0.000
#> SRR1177704 3 0.0146 0.9795 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177705 1 0.0000 0.8233 1.000 0.000 0.000 0.000 0.000 0.000
#> SRR1177706 6 0.4681 0.5435 0.044 0.000 0.000 0.000 0.432 0.524
#> SRR1177707 4 0.3507 0.5397 0.216 0.008 0.000 0.764 0.012 0.000
#> SRR1177708 1 0.1049 0.8039 0.960 0.000 0.000 0.032 0.008 0.000
#> SRR1177709 1 0.0632 0.8198 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177710 5 0.5934 0.4119 0.232 0.000 0.320 0.000 0.448 0.000
#> SRR1177711 1 0.0632 0.8161 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177712 3 0.0146 0.9795 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177714 6 0.1387 0.7664 0.000 0.000 0.000 0.000 0.068 0.932
#> SRR1177713 3 0.0146 0.9795 0.000 0.000 0.996 0.000 0.000 0.004
#> SRR1177715 5 0.6000 -0.0674 0.244 0.000 0.000 0.000 0.420 0.336
#> SRR1177716 3 0.0146 0.9798 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1177717 1 0.0363 0.8220 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1177718 1 0.0632 0.8161 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177719 1 0.3470 0.4448 0.740 0.000 0.000 0.248 0.012 0.000
#> SRR1177720 3 0.0632 0.9632 0.000 0.000 0.976 0.000 0.000 0.024
#> SRR1177721 6 0.0363 0.7683 0.000 0.000 0.000 0.000 0.012 0.988
#> SRR1177722 6 0.0865 0.7682 0.000 0.036 0.000 0.000 0.000 0.964
#> SRR1177723 1 0.0000 0.8233 1.000 0.000 0.000 0.000 0.000 0.000
#> SRR1177725 1 0.0363 0.8220 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1177724 1 0.0146 0.8234 0.996 0.000 0.000 0.000 0.004 0.000
#> SRR1177726 3 0.0458 0.9738 0.000 0.000 0.984 0.000 0.016 0.000
#> SRR1177727 1 0.0632 0.8161 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177728 3 0.0458 0.9738 0.000 0.000 0.984 0.000 0.016 0.000
#> SRR1177729 1 0.0547 0.8185 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1177730 5 0.5448 0.5068 0.352 0.000 0.132 0.000 0.516 0.000
#> SRR1177731 1 0.2527 0.6506 0.832 0.000 0.000 0.000 0.168 0.000
#> SRR1177732 5 0.5580 0.5174 0.324 0.000 0.160 0.000 0.516 0.000
#> SRR1177733 1 0.0000 0.8233 1.000 0.000 0.000 0.000 0.000 0.000
#> SRR1177734 1 0.0363 0.8220 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1177735 1 0.0713 0.8121 0.972 0.000 0.000 0.000 0.028 0.000
#> SRR1177736 1 0.0547 0.8214 0.980 0.000 0.000 0.000 0.020 0.000
#> SRR1177737 2 0.3847 0.3607 0.000 0.544 0.000 0.456 0.000 0.000
#> SRR1177738 3 0.0146 0.9802 0.000 0.000 0.996 0.000 0.004 0.000
#> SRR1177739 1 0.0632 0.8198 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177740 1 0.0146 0.8229 0.996 0.000 0.000 0.000 0.004 0.000
#> SRR1177741 1 0.0632 0.8161 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177742 3 0.0458 0.9738 0.000 0.000 0.984 0.000 0.016 0.000
#> SRR1177743 5 0.4179 0.4001 0.472 0.000 0.012 0.000 0.516 0.000
#> SRR1177744 5 0.5934 0.5026 0.328 0.000 0.228 0.000 0.444 0.000
#> SRR1177745 5 0.5969 -0.0976 0.236 0.000 0.000 0.000 0.432 0.332
#> SRR1177746 5 0.5961 0.1311 0.336 0.000 0.000 0.000 0.432 0.232
#> SRR1177747 3 0.0260 0.9802 0.000 0.000 0.992 0.000 0.008 0.000
#> SRR1177748 3 0.0260 0.9787 0.000 0.000 0.992 0.000 0.008 0.000
#> SRR1177749 1 0.0632 0.8161 0.976 0.000 0.000 0.000 0.024 0.000
#> SRR1177750 1 0.0260 0.8217 0.992 0.000 0.000 0.000 0.008 0.000
#> SRR1177751 1 0.5133 0.2785 0.592 0.000 0.000 0.000 0.292 0.116
#> SRR1177752 1 0.0000 0.8233 1.000 0.000 0.000 0.000 0.000 0.000
#> SRR1177753 1 0.0363 0.8220 0.988 0.000 0.000 0.000 0.012 0.000
#> SRR1177754 5 0.3866 0.3829 0.484 0.000 0.000 0.000 0.516 0.000
#> SRR1177755 1 0.0146 0.8229 0.996 0.000 0.000 0.000 0.004 0.000
#> SRR1177756 1 0.1387 0.7822 0.932 0.000 0.000 0.000 0.068 0.000
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
The object with results only for a single top-value method and a single partition method can be extracted as:
res = res_list["ATC", "NMF"]
# you can also extract it by
# res = res_list["ATC:NMF"]
A summary of res and all the functions that can be applied to it:
res
#> A 'ConsensusPartition' object with k = 2, 3, 4, 5, 6.
#> On a matrix with 16362 rows and 231 columns.
#> Top rows (1000, 2000, 3000, 4000, 5000) are extracted by 'ATC' method.
#> Subgroups are detected by 'NMF' method.
#> Performed in total 1250 partitions by row resampling.
#> Best k for subgroups seems to be 2.
#>
#> Following methods can be applied to this 'ConsensusPartition' object:
#> [1] "cola_report" "collect_classes" "collect_plots"
#> [4] "collect_stats" "colnames" "compare_signatures"
#> [7] "consensus_heatmap" "dimension_reduction" "functional_enrichment"
#> [10] "get_anno_col" "get_anno" "get_classes"
#> [13] "get_consensus" "get_matrix" "get_membership"
#> [16] "get_param" "get_signatures" "get_stats"
#> [19] "is_best_k" "is_stable_k" "membership_heatmap"
#> [22] "ncol" "nrow" "plot_ecdf"
#> [25] "rownames" "select_partition_number" "show"
#> [28] "suggest_best_k" "test_to_known_factors"
collect_plots() function collects all the plots made from res for all k (number of partitions)
into one single page to provide an easy and fast comparison between different k.
collect_plots(res)
The plots are:
k and the heatmap of
predicted classes for each k.k.k.k.All the plots in panels can be made by individual functions and they are plotted later in this section.
select_partition_number() produces several plots showing different
statistics for choosing “optimized” k. There are following statistics:
k;k, the area increased is defined as \(A_k - A_{k-1}\).The detailed explanations of these statistics can be found in the cola vignette.
Generally speaking, lower PAC score, higher mean silhouette score or higher
concordance corresponds to better partition. Rand index and Jaccard index
measure how similar the current partition is compared to partition with k-1.
If they are too similar, we won't accept k is better than k-1.
select_partition_number(res)
The numeric values for all these statistics can be obtained by get_stats().
get_stats(res)
#> k 1-PAC mean_silhouette concordance area_increased Rand Jaccard
#> 2 2 0.658 0.829 0.927 0.4613 0.535 0.535
#> 3 3 0.707 0.807 0.916 0.2842 0.653 0.456
#> 4 4 0.543 0.639 0.798 0.1819 0.879 0.700
#> 5 5 0.513 0.578 0.709 0.0417 0.829 0.539
#> 6 6 0.519 0.488 0.652 0.0370 0.972 0.901
suggest_best_k() suggests the best \(k\) based on these statistics. The rules are as follows:
suggest_best_k(res)
#> [1] 2
Following shows the table of the partitions (You need to click the show/hide
code output link to see it). The membership matrix (columns with name p*)
is inferred by
clue::cl_consensus()
function with the SE method. Basically the value in the membership matrix
represents the probability to belong to a certain group. The finall class
label for an item is determined with the group with highest probability it
belongs to.
In get_classes() function, the entropy is calculated from the membership
matrix and the silhouette score is calculated from the consensus matrix.
cbind(get_classes(res, k = 2), get_membership(res, k = 2))
#> class entropy silhouette p1 p2
#> SRR1026870 2 0.0000 0.9232 0.000 1.000
#> SRR1026871 2 0.0000 0.9232 0.000 1.000
#> SRR1026872 2 0.0000 0.9232 0.000 1.000
#> SRR1026873 1 0.0000 0.9035 1.000 0.000
#> SRR1026874 1 0.0000 0.9035 1.000 0.000
#> SRR1026875 2 0.0000 0.9232 0.000 1.000
#> SRR1026876 2 0.0000 0.9232 0.000 1.000
#> SRR1026877 2 0.8813 0.5715 0.300 0.700
#> SRR1026878 2 0.9815 0.2520 0.420 0.580
#> SRR1026879 1 0.0000 0.9035 1.000 0.000
#> SRR1026880 1 0.0000 0.9035 1.000 0.000
#> SRR1026881 2 0.0000 0.9232 0.000 1.000
#> SRR1026882 2 0.0000 0.9232 0.000 1.000
#> SRR1026883 2 0.0000 0.9232 0.000 1.000
#> SRR1026884 2 0.0000 0.9232 0.000 1.000
#> SRR1026885 2 0.3431 0.8850 0.064 0.936
#> SRR1026886 2 0.3733 0.8785 0.072 0.928
#> SRR1026887 1 0.7528 0.7130 0.784 0.216
#> SRR1026888 1 0.7376 0.7219 0.792 0.208
#> SRR1026889 2 0.0000 0.9232 0.000 1.000
#> SRR1026890 2 0.0000 0.9232 0.000 1.000
#> SRR1026891 1 0.9000 0.5398 0.684 0.316
#> SRR1026892 1 0.9087 0.5179 0.676 0.324
#> SRR1026893 1 0.9815 0.3281 0.580 0.420
#> SRR1026894 2 0.9963 0.0897 0.464 0.536
#> SRR1026895 2 0.0000 0.9232 0.000 1.000
#> SRR1026896 2 0.0000 0.9232 0.000 1.000
#> SRR1026897 2 0.0000 0.9232 0.000 1.000
#> SRR1026898 1 0.0672 0.8993 0.992 0.008
#> SRR1026899 1 0.0000 0.9035 1.000 0.000
#> SRR1026900 2 0.0938 0.9188 0.012 0.988
#> SRR1026901 2 0.0376 0.9220 0.004 0.996
#> SRR1026902 2 0.7950 0.6876 0.240 0.760
#> SRR1026903 2 0.7674 0.7112 0.224 0.776
#> SRR1026904 2 0.0000 0.9232 0.000 1.000
#> SRR1026905 2 0.0000 0.9232 0.000 1.000
#> SRR1026906 2 0.0000 0.9232 0.000 1.000
#> SRR1026907 2 0.0000 0.9232 0.000 1.000
#> SRR1026908 2 0.0000 0.9232 0.000 1.000
#> SRR1026909 2 0.0000 0.9232 0.000 1.000
#> SRR1026910 2 0.0000 0.9232 0.000 1.000
#> SRR1026911 2 0.0376 0.9220 0.004 0.996
#> SRR1026912 2 0.0000 0.9232 0.000 1.000
#> SRR1026913 2 0.0000 0.9232 0.000 1.000
#> SRR1026914 2 0.0000 0.9232 0.000 1.000
#> SRR1026915 2 0.0000 0.9232 0.000 1.000
#> SRR1026916 2 0.0000 0.9232 0.000 1.000
#> SRR1026917 2 0.0000 0.9232 0.000 1.000
#> SRR1026918 2 0.0000 0.9232 0.000 1.000
#> SRR1026919 2 0.0000 0.9232 0.000 1.000
#> SRR1026920 2 0.0000 0.9232 0.000 1.000
#> SRR1026921 2 0.0000 0.9232 0.000 1.000
#> SRR1026922 2 0.0000 0.9232 0.000 1.000
#> SRR1026923 2 0.0000 0.9232 0.000 1.000
#> SRR1026924 2 0.0000 0.9232 0.000 1.000
#> SRR1026925 2 0.8144 0.6608 0.252 0.748
#> SRR1026926 2 0.0000 0.9232 0.000 1.000
#> SRR1026927 1 0.0376 0.9015 0.996 0.004
#> SRR1026928 2 0.0000 0.9232 0.000 1.000
#> SRR1026929 2 0.8608 0.6036 0.284 0.716
#> SRR1026930 2 0.0672 0.9205 0.008 0.992
#> SRR1026931 2 0.0000 0.9232 0.000 1.000
#> SRR1026932 2 0.0000 0.9232 0.000 1.000
#> SRR1026933 2 0.0000 0.9232 0.000 1.000
#> SRR1026934 2 0.0000 0.9232 0.000 1.000
#> SRR1026935 2 0.0000 0.9232 0.000 1.000
#> SRR1026936 2 0.0000 0.9232 0.000 1.000
#> SRR1026937 2 0.0000 0.9232 0.000 1.000
#> SRR1026938 2 0.0000 0.9232 0.000 1.000
#> SRR1026939 2 0.0000 0.9232 0.000 1.000
#> SRR1026940 2 0.7299 0.7439 0.204 0.796
#> SRR1026941 1 0.6148 0.7837 0.848 0.152
#> SRR1026942 1 0.2603 0.8751 0.956 0.044
#> SRR1026943 2 0.3114 0.8918 0.056 0.944
#> SRR1026944 1 0.0000 0.9035 1.000 0.000
#> SRR1026945 1 0.0000 0.9035 1.000 0.000
#> SRR1026947 2 0.0000 0.9232 0.000 1.000
#> SRR1026946 2 0.0000 0.9232 0.000 1.000
#> SRR1026948 2 0.0000 0.9232 0.000 1.000
#> SRR1026949 2 0.1184 0.9168 0.016 0.984
#> SRR1026950 1 0.9732 0.3145 0.596 0.404
#> SRR1026951 2 0.0938 0.9188 0.012 0.988
#> SRR1026952 1 0.0000 0.9035 1.000 0.000
#> SRR1026953 1 0.0000 0.9035 1.000 0.000
#> SRR1026954 2 0.3274 0.8895 0.060 0.940
#> SRR1026955 2 0.0000 0.9232 0.000 1.000
#> SRR1026956 1 0.7453 0.7051 0.788 0.212
#> SRR1026957 2 0.0000 0.9232 0.000 1.000
#> SRR1026958 2 0.8555 0.6367 0.280 0.720
#> SRR1026959 2 0.0000 0.9232 0.000 1.000
#> SRR1026960 2 0.1843 0.9102 0.028 0.972
#> SRR1026961 2 0.0000 0.9232 0.000 1.000
#> SRR1026962 1 0.0000 0.9035 1.000 0.000
#> SRR1026963 1 0.0000 0.9035 1.000 0.000
#> SRR1026964 2 0.0000 0.9232 0.000 1.000
#> SRR1026965 2 0.0000 0.9232 0.000 1.000
#> SRR1026966 1 0.7219 0.7298 0.800 0.200
#> SRR1026967 1 0.7219 0.7298 0.800 0.200
#> SRR1026968 2 0.0376 0.9220 0.004 0.996
#> SRR1026969 2 0.7745 0.7109 0.228 0.772
#> SRR1026970 2 0.8016 0.6910 0.244 0.756
#> SRR1026971 2 0.8016 0.6910 0.244 0.756
#> SRR1026972 2 0.0376 0.9220 0.004 0.996
#> SRR1026973 2 0.0376 0.9220 0.004 0.996
#> SRR1026974 1 0.0000 0.9035 1.000 0.000
#> SRR1026975 1 0.0376 0.9015 0.996 0.004
#> SRR1026976 2 0.7056 0.7569 0.192 0.808
#> SRR1026977 2 0.7056 0.7569 0.192 0.808
#> SRR1026978 2 0.1843 0.9102 0.028 0.972
#> SRR1026979 1 0.0000 0.9035 1.000 0.000
#> SRR1026980 2 0.0000 0.9232 0.000 1.000
#> SRR1026981 2 0.0000 0.9232 0.000 1.000
#> SRR1026982 2 0.0938 0.9188 0.012 0.988
#> SRR1026983 2 0.0938 0.9188 0.012 0.988
#> SRR1026984 2 0.0938 0.9188 0.012 0.988
#> SRR1026985 2 0.0938 0.9188 0.012 0.988
#> SRR1026986 2 0.2603 0.8998 0.044 0.956
#> SRR1026987 2 0.4562 0.8619 0.096 0.904
#> SRR1026988 1 0.0000 0.9035 1.000 0.000
#> SRR1026989 1 0.2423 0.8773 0.960 0.040
#> SRR1026990 2 0.7453 0.7333 0.212 0.788
#> SRR1026991 1 0.0000 0.9035 1.000 0.000
#> SRR1026992 1 0.0376 0.9015 0.996 0.004
#> SRR1026993 1 0.9710 0.3260 0.600 0.400
#> SRR1026994 2 0.0000 0.9232 0.000 1.000
#> SRR1026995 2 0.1843 0.9102 0.028 0.972
#> SRR1026996 2 0.0672 0.9209 0.008 0.992
#> SRR1026997 2 0.0672 0.9209 0.008 0.992
#> SRR1026998 2 0.0000 0.9232 0.000 1.000
#> SRR1026999 2 0.0000 0.9232 0.000 1.000
#> SRR1027000 2 0.2603 0.8998 0.044 0.956
#> SRR1027001 1 0.0000 0.9035 1.000 0.000
#> SRR1027002 2 0.1843 0.9102 0.028 0.972
#> SRR1027003 2 0.0938 0.9188 0.012 0.988
#> SRR1027004 1 0.9922 0.1737 0.552 0.448
#> SRR1027005 2 0.9661 0.3414 0.392 0.608
#> SRR1027006 1 0.0000 0.9035 1.000 0.000
#> SRR1027007 2 0.2603 0.8998 0.044 0.956
#> SRR1027008 2 0.9358 0.4956 0.352 0.648
#> SRR1027009 1 0.0000 0.9035 1.000 0.000
#> SRR1027010 1 0.0000 0.9035 1.000 0.000
#> SRR1027011 1 0.0000 0.9035 1.000 0.000
#> SRR1177668 1 0.0000 0.9035 1.000 0.000
#> SRR1177667 1 0.0000 0.9035 1.000 0.000
#> SRR1177669 1 0.0000 0.9035 1.000 0.000
#> SRR1177670 1 0.0000 0.9035 1.000 0.000
#> SRR1177671 2 0.0000 0.9232 0.000 1.000
#> SRR1177672 1 0.0000 0.9035 1.000 0.000
#> SRR1177673 1 0.0000 0.9035 1.000 0.000
#> SRR1177674 1 0.0000 0.9035 1.000 0.000
#> SRR1177675 1 0.0000 0.9035 1.000 0.000
#> SRR1177676 1 0.0000 0.9035 1.000 0.000
#> SRR1177677 2 0.9087 0.5520 0.324 0.676
#> SRR1177678 1 0.0000 0.9035 1.000 0.000
#> SRR1177679 2 0.0000 0.9232 0.000 1.000
#> SRR1177680 2 0.0000 0.9232 0.000 1.000
#> SRR1177681 2 0.8713 0.6115 0.292 0.708
#> SRR1177682 2 0.2423 0.9025 0.040 0.960
#> SRR1177683 2 0.0000 0.9232 0.000 1.000
#> SRR1177684 2 0.0000 0.9232 0.000 1.000
#> SRR1177685 1 0.0000 0.9035 1.000 0.000
#> SRR1177686 1 0.9909 0.2549 0.556 0.444
#> SRR1177687 2 0.0000 0.9232 0.000 1.000
#> SRR1177688 2 0.9044 0.5622 0.320 0.680
#> SRR1177689 2 0.1843 0.9102 0.028 0.972
#> SRR1177690 2 0.9850 0.2972 0.428 0.572
#> SRR1177691 2 0.0000 0.9232 0.000 1.000
#> SRR1177692 2 0.0000 0.9232 0.000 1.000
#> SRR1177693 2 0.0000 0.9232 0.000 1.000
#> SRR1177694 2 0.0000 0.9232 0.000 1.000
#> SRR1177695 2 0.2603 0.8998 0.044 0.956
#> SRR1177697 2 0.9896 0.2586 0.440 0.560
#> SRR1177696 2 0.7139 0.7543 0.196 0.804
#> SRR1177698 1 0.0000 0.9035 1.000 0.000
#> SRR1177700 2 0.8016 0.6910 0.244 0.756
#> SRR1177701 2 0.9922 0.2320 0.448 0.552
#> SRR1177702 2 0.0000 0.9232 0.000 1.000
#> SRR1177703 1 0.9833 0.2543 0.576 0.424
#> SRR1177704 2 0.0000 0.9232 0.000 1.000
#> SRR1177705 2 0.6623 0.7888 0.172 0.828
#> SRR1177706 2 0.0000 0.9232 0.000 1.000
#> SRR1177707 2 0.9815 0.3171 0.420 0.580
#> SRR1177708 2 0.9732 0.3501 0.404 0.596
#> SRR1177709 1 0.9608 0.3698 0.616 0.384
#> SRR1177710 1 0.0000 0.9035 1.000 0.000
#> SRR1177711 1 0.0000 0.9035 1.000 0.000
#> SRR1177712 2 0.0000 0.9232 0.000 1.000
#> SRR1177714 2 0.0000 0.9232 0.000 1.000
#> SRR1177713 2 0.0000 0.9232 0.000 1.000
#> SRR1177715 2 0.0938 0.9188 0.012 0.988
#> SRR1177716 1 0.7299 0.7257 0.796 0.204
#> SRR1177717 1 0.0000 0.9035 1.000 0.000
#> SRR1177718 1 0.0000 0.9035 1.000 0.000
#> SRR1177719 1 0.6048 0.7812 0.852 0.148
#> SRR1177720 2 0.0000 0.9232 0.000 1.000
#> SRR1177721 2 0.0000 0.9232 0.000 1.000
#> SRR1177722 2 0.0000 0.9232 0.000 1.000
#> SRR1177723 1 0.0672 0.8993 0.992 0.008
#> SRR1177725 1 0.0000 0.9035 1.000 0.000
#> SRR1177724 1 0.3274 0.8630 0.940 0.060
#> SRR1177726 1 0.0000 0.9035 1.000 0.000
#> SRR1177727 1 0.0000 0.9035 1.000 0.000
#> SRR1177728 1 0.0000 0.9035 1.000 0.000
#> SRR1177729 1 0.0000 0.9035 1.000 0.000
#> SRR1177730 1 0.0000 0.9035 1.000 0.000
#> SRR1177731 1 0.0000 0.9035 1.000 0.000
#> SRR1177732 1 0.0000 0.9035 1.000 0.000
#> SRR1177733 2 0.5178 0.8442 0.116 0.884
#> SRR1177734 1 0.9754 0.3027 0.592 0.408
#> SRR1177735 2 0.1843 0.9102 0.028 0.972
#> SRR1177736 1 0.0000 0.9035 1.000 0.000
#> SRR1177737 2 0.0000 0.9232 0.000 1.000
#> SRR1177738 2 0.0000 0.9232 0.000 1.000
#> SRR1177739 1 0.8081 0.6505 0.752 0.248
#> SRR1177740 2 0.6887 0.7725 0.184 0.816
#> SRR1177741 1 0.0000 0.9035 1.000 0.000
#> SRR1177742 1 0.0000 0.9035 1.000 0.000
#> SRR1177743 1 0.0000 0.9035 1.000 0.000
#> SRR1177744 1 0.0000 0.9035 1.000 0.000
#> SRR1177745 2 0.0000 0.9232 0.000 1.000
#> SRR1177746 2 0.0000 0.9232 0.000 1.000
#> SRR1177747 1 0.0000 0.9035 1.000 0.000
#> SRR1177748 1 0.0000 0.9035 1.000 0.000
#> SRR1177749 1 0.0000 0.9035 1.000 0.000
#> SRR1177750 1 0.9866 0.2257 0.568 0.432
#> SRR1177751 2 0.5737 0.8144 0.136 0.864
#> SRR1177752 1 0.0000 0.9035 1.000 0.000
#> SRR1177753 1 0.7528 0.6984 0.784 0.216
#> SRR1177754 1 0.0000 0.9035 1.000 0.000
#> SRR1177755 1 0.9833 0.2527 0.576 0.424
#> SRR1177756 2 0.6801 0.7601 0.180 0.820
cbind(get_classes(res, k = 3), get_membership(res, k = 3))
#> class entropy silhouette p1 p2 p3
#> SRR1026870 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026871 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026872 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026873 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026874 3 0.4654 0.627 0.208 0.000 0.792
#> SRR1026875 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026876 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026877 3 0.6126 0.571 0.000 0.400 0.600
#> SRR1026878 3 0.6045 0.596 0.000 0.380 0.620
#> SRR1026879 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026880 1 0.0424 0.937 0.992 0.000 0.008
#> SRR1026881 2 0.1411 0.842 0.036 0.964 0.000
#> SRR1026882 2 0.0747 0.852 0.016 0.984 0.000
#> SRR1026883 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026884 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026885 1 0.3752 0.807 0.856 0.144 0.000
#> SRR1026886 1 0.3752 0.807 0.856 0.144 0.000
#> SRR1026887 3 0.4887 0.731 0.000 0.228 0.772
#> SRR1026888 3 0.4796 0.736 0.000 0.220 0.780
#> SRR1026889 2 0.0424 0.855 0.008 0.992 0.000
#> SRR1026890 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026891 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026892 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026893 3 0.6215 0.521 0.000 0.428 0.572
#> SRR1026894 3 0.6295 0.416 0.000 0.472 0.528
#> SRR1026895 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1026896 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1026897 2 0.3551 0.752 0.000 0.868 0.132
#> SRR1026898 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026899 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026900 2 0.5988 0.491 0.368 0.632 0.000
#> SRR1026901 2 0.4399 0.710 0.188 0.812 0.000
#> SRR1026902 1 0.3038 0.855 0.896 0.104 0.000
#> SRR1026903 1 0.3482 0.828 0.872 0.128 0.000
#> SRR1026904 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026905 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026906 2 0.2711 0.808 0.088 0.912 0.000
#> SRR1026907 2 0.2711 0.808 0.088 0.912 0.000
#> SRR1026908 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1026909 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1026910 2 0.4452 0.706 0.192 0.808 0.000
#> SRR1026911 2 0.4842 0.671 0.224 0.776 0.000
#> SRR1026912 2 0.3752 0.690 0.000 0.856 0.144
#> SRR1026913 2 0.3941 0.671 0.000 0.844 0.156
#> SRR1026914 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026915 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026916 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026917 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026918 2 0.3192 0.787 0.112 0.888 0.000
#> SRR1026919 2 0.3340 0.780 0.120 0.880 0.000
#> SRR1026920 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026921 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026922 2 0.1163 0.847 0.028 0.972 0.000
#> SRR1026923 2 0.2448 0.816 0.076 0.924 0.000
#> SRR1026924 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1026925 2 0.6299 -0.291 0.000 0.524 0.476
#> SRR1026926 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026927 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026928 2 0.3879 0.749 0.152 0.848 0.000
#> SRR1026929 3 0.6192 0.538 0.000 0.420 0.580
#> SRR1026930 2 0.5859 0.533 0.344 0.656 0.000
#> SRR1026931 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026932 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026933 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026934 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026935 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026936 2 0.1163 0.847 0.028 0.972 0.000
#> SRR1026937 2 0.0747 0.852 0.016 0.984 0.000
#> SRR1026938 2 0.1529 0.840 0.040 0.960 0.000
#> SRR1026939 2 0.1411 0.842 0.036 0.964 0.000
#> SRR1026940 1 0.2356 0.889 0.928 0.072 0.000
#> SRR1026941 3 0.0237 0.804 0.000 0.004 0.996
#> SRR1026942 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026943 1 0.1031 0.931 0.976 0.024 0.000
#> SRR1026944 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026945 1 0.1289 0.921 0.968 0.000 0.032
#> SRR1026947 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026946 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1026948 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026949 1 0.5810 0.453 0.664 0.336 0.000
#> SRR1026950 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026951 2 0.5465 0.598 0.288 0.712 0.000
#> SRR1026952 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026953 3 0.0237 0.804 0.004 0.000 0.996
#> SRR1026954 1 0.2711 0.873 0.912 0.088 0.000
#> SRR1026955 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026956 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026957 2 0.0424 0.855 0.008 0.992 0.000
#> SRR1026958 1 0.0424 0.940 0.992 0.008 0.000
#> SRR1026959 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026960 1 0.1411 0.922 0.964 0.036 0.000
#> SRR1026961 2 0.5760 0.552 0.328 0.672 0.000
#> SRR1026962 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026963 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026964 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1026965 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1026966 3 0.1643 0.800 0.000 0.044 0.956
#> SRR1026967 3 0.1163 0.803 0.000 0.028 0.972
#> SRR1026968 2 0.6295 0.213 0.472 0.528 0.000
#> SRR1026969 1 0.1411 0.922 0.964 0.036 0.000
#> SRR1026970 1 0.1031 0.931 0.976 0.024 0.000
#> SRR1026971 1 0.1031 0.931 0.976 0.024 0.000
#> SRR1026972 2 0.6095 0.440 0.392 0.608 0.000
#> SRR1026973 2 0.5905 0.523 0.352 0.648 0.000
#> SRR1026974 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026975 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026976 1 0.2066 0.901 0.940 0.060 0.000
#> SRR1026977 1 0.2165 0.897 0.936 0.064 0.000
#> SRR1026978 1 0.6192 0.195 0.580 0.420 0.000
#> SRR1026979 3 0.0000 0.804 0.000 0.000 1.000
#> SRR1026980 2 0.2959 0.798 0.100 0.900 0.000
#> SRR1026981 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026982 1 0.5291 0.611 0.732 0.268 0.000
#> SRR1026983 1 0.5560 0.541 0.700 0.300 0.000
#> SRR1026984 2 0.6180 0.379 0.416 0.584 0.000
#> SRR1026985 2 0.6154 0.399 0.408 0.592 0.000
#> SRR1026986 1 0.1411 0.922 0.964 0.036 0.000
#> SRR1026987 1 0.1031 0.931 0.976 0.024 0.000
#> SRR1026988 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026989 3 0.4178 0.688 0.172 0.000 0.828
#> SRR1026990 1 0.1411 0.922 0.964 0.036 0.000
#> SRR1026991 3 0.1289 0.796 0.032 0.000 0.968
#> SRR1026992 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026993 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1026994 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1026995 2 0.6225 0.336 0.432 0.568 0.000
#> SRR1026996 2 0.6126 0.420 0.400 0.600 0.000
#> SRR1026997 2 0.6225 0.334 0.432 0.568 0.000
#> SRR1026998 3 0.6168 0.553 0.000 0.412 0.588
#> SRR1026999 3 0.6154 0.559 0.000 0.408 0.592
#> SRR1027000 1 0.1411 0.923 0.964 0.036 0.000
#> SRR1027001 1 0.5397 0.609 0.720 0.000 0.280
#> SRR1027002 2 0.6305 0.167 0.484 0.516 0.000
#> SRR1027003 2 0.5905 0.523 0.352 0.648 0.000
#> SRR1027004 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1027005 3 0.6192 0.538 0.000 0.420 0.580
#> SRR1027006 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1027007 1 0.1643 0.916 0.956 0.044 0.000
#> SRR1027008 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1027009 3 0.0000 0.804 0.000 0.000 1.000
#> SRR1027010 1 0.5058 0.671 0.756 0.000 0.244
#> SRR1027011 3 0.0000 0.804 0.000 0.000 1.000
#> SRR1177668 1 0.3551 0.818 0.868 0.000 0.132
#> SRR1177667 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177669 1 0.0424 0.939 0.992 0.000 0.008
#> SRR1177670 3 0.6235 0.136 0.436 0.000 0.564
#> SRR1177671 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1177672 1 0.5733 0.515 0.676 0.000 0.324
#> SRR1177673 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177674 3 0.1411 0.795 0.036 0.000 0.964
#> SRR1177675 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177676 1 0.1031 0.926 0.976 0.000 0.024
#> SRR1177677 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177678 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177679 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1177680 2 0.3038 0.795 0.104 0.896 0.000
#> SRR1177681 1 0.0592 0.938 0.988 0.012 0.000
#> SRR1177682 1 0.5810 0.453 0.664 0.336 0.000
#> SRR1177683 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1177684 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1177685 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177686 3 0.6079 0.584 0.000 0.388 0.612
#> SRR1177687 2 0.2537 0.814 0.080 0.920 0.000
#> SRR1177688 1 0.0424 0.940 0.992 0.008 0.000
#> SRR1177689 2 0.6045 0.465 0.380 0.620 0.000
#> SRR1177690 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177691 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1177692 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1177693 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1177694 2 0.0237 0.856 0.004 0.996 0.000
#> SRR1177695 1 0.1289 0.926 0.968 0.032 0.000
#> SRR1177697 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177696 1 0.3686 0.813 0.860 0.140 0.000
#> SRR1177698 3 0.0000 0.804 0.000 0.000 1.000
#> SRR1177700 1 0.1031 0.931 0.976 0.024 0.000
#> SRR1177701 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177702 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1177703 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177704 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1177705 1 0.0424 0.940 0.992 0.008 0.000
#> SRR1177706 2 0.0424 0.855 0.008 0.992 0.000
#> SRR1177707 1 0.0424 0.940 0.992 0.008 0.000
#> SRR1177708 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177709 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177710 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177711 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177712 2 0.0592 0.854 0.012 0.988 0.000
#> SRR1177714 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1177713 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1177715 2 0.5678 0.566 0.316 0.684 0.000
#> SRR1177716 3 0.4346 0.755 0.000 0.184 0.816
#> SRR1177717 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177718 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177719 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177720 2 0.0592 0.845 0.000 0.988 0.012
#> SRR1177721 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1177722 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1177723 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177725 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177724 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177726 3 0.0237 0.804 0.004 0.000 0.996
#> SRR1177727 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177728 3 0.0000 0.804 0.000 0.000 1.000
#> SRR1177729 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177730 1 0.4887 0.687 0.772 0.000 0.228
#> SRR1177731 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177732 1 0.4452 0.740 0.808 0.000 0.192
#> SRR1177733 1 0.0892 0.933 0.980 0.020 0.000
#> SRR1177734 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177735 1 0.4842 0.693 0.776 0.224 0.000
#> SRR1177736 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177737 2 0.2796 0.805 0.092 0.908 0.000
#> SRR1177738 2 0.2066 0.801 0.000 0.940 0.060
#> SRR1177739 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177740 1 0.0424 0.940 0.992 0.008 0.000
#> SRR1177741 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177742 3 0.0000 0.804 0.000 0.000 1.000
#> SRR1177743 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177744 1 0.0237 0.940 0.996 0.000 0.004
#> SRR1177745 2 0.0000 0.856 0.000 1.000 0.000
#> SRR1177746 2 0.3619 0.764 0.136 0.864 0.000
#> SRR1177747 3 0.2959 0.758 0.100 0.000 0.900
#> SRR1177748 3 0.0000 0.804 0.000 0.000 1.000
#> SRR1177749 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177750 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177751 1 0.0592 0.938 0.988 0.012 0.000
#> SRR1177752 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177753 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177754 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177755 1 0.0000 0.943 1.000 0.000 0.000
#> SRR1177756 1 0.0000 0.943 1.000 0.000 0.000
cbind(get_classes(res, k = 4), get_membership(res, k = 4))
#> class entropy silhouette p1 p2 p3 p4
#> SRR1026870 4 0.4500 0.5816 0.000 0.316 0.000 0.684
#> SRR1026871 4 0.4406 0.6000 0.000 0.300 0.000 0.700
#> SRR1026872 4 0.4431 0.5954 0.000 0.304 0.000 0.696
#> SRR1026873 1 0.0895 0.8411 0.976 0.020 0.004 0.000
#> SRR1026874 3 0.5030 0.6226 0.188 0.060 0.752 0.000
#> SRR1026875 4 0.4877 0.4278 0.000 0.408 0.000 0.592
#> SRR1026876 4 0.4877 0.4272 0.000 0.408 0.000 0.592
#> SRR1026877 3 0.5432 0.5787 0.000 0.032 0.652 0.316
#> SRR1026878 3 0.5182 0.6191 0.000 0.028 0.684 0.288
#> SRR1026879 1 0.2799 0.8013 0.884 0.108 0.008 0.000
#> SRR1026880 1 0.2255 0.8261 0.920 0.068 0.012 0.000
#> SRR1026881 4 0.3308 0.6776 0.036 0.092 0.000 0.872
#> SRR1026882 4 0.3443 0.6798 0.016 0.136 0.000 0.848
#> SRR1026883 4 0.1398 0.6705 0.004 0.040 0.000 0.956
#> SRR1026884 4 0.1489 0.6711 0.004 0.044 0.000 0.952
#> SRR1026885 1 0.5440 0.5236 0.596 0.020 0.000 0.384
#> SRR1026886 1 0.5440 0.5236 0.596 0.020 0.000 0.384
#> SRR1026887 3 0.6085 0.4407 0.020 0.016 0.528 0.436
#> SRR1026888 3 0.6079 0.4455 0.020 0.016 0.532 0.432
#> SRR1026889 4 0.4795 0.6097 0.012 0.292 0.000 0.696
#> SRR1026890 4 0.2197 0.6762 0.004 0.080 0.000 0.916
#> SRR1026891 1 0.4675 0.7115 0.736 0.020 0.000 0.244
#> SRR1026892 1 0.4706 0.7079 0.732 0.020 0.000 0.248
#> SRR1026893 3 0.5137 0.3884 0.000 0.004 0.544 0.452
#> SRR1026894 4 0.5132 -0.1493 0.000 0.004 0.448 0.548
#> SRR1026895 4 0.0524 0.6581 0.004 0.008 0.000 0.988
#> SRR1026896 4 0.0804 0.6575 0.012 0.008 0.000 0.980
#> SRR1026897 2 0.5042 0.6428 0.000 0.768 0.096 0.136
#> SRR1026898 2 0.5273 0.0482 0.456 0.536 0.008 0.000
#> SRR1026899 1 0.1724 0.8356 0.948 0.032 0.020 0.000
#> SRR1026900 2 0.6868 0.3840 0.152 0.584 0.000 0.264
#> SRR1026901 4 0.6837 0.3469 0.104 0.392 0.000 0.504
#> SRR1026902 1 0.5487 0.4963 0.580 0.020 0.000 0.400
#> SRR1026903 1 0.5498 0.4900 0.576 0.020 0.000 0.404
#> SRR1026904 4 0.1209 0.6669 0.004 0.032 0.000 0.964
#> SRR1026905 4 0.1305 0.6676 0.004 0.036 0.000 0.960
#> SRR1026906 4 0.5861 0.5763 0.060 0.296 0.000 0.644
#> SRR1026907 4 0.5951 0.5684 0.064 0.300 0.000 0.636
#> SRR1026908 4 0.4781 0.5537 0.004 0.336 0.000 0.660
#> SRR1026909 4 0.4819 0.5408 0.004 0.344 0.000 0.652
#> SRR1026910 4 0.2859 0.5801 0.112 0.008 0.000 0.880
#> SRR1026911 4 0.3142 0.5592 0.132 0.008 0.000 0.860
#> SRR1026912 4 0.5307 0.5541 0.000 0.076 0.188 0.736
#> SRR1026913 4 0.5429 0.5255 0.000 0.072 0.208 0.720
#> SRR1026914 4 0.4277 0.6177 0.000 0.280 0.000 0.720
#> SRR1026915 4 0.4277 0.6177 0.000 0.280 0.000 0.720
#> SRR1026916 4 0.3649 0.6599 0.000 0.204 0.000 0.796
#> SRR1026917 4 0.3726 0.6563 0.000 0.212 0.000 0.788
#> SRR1026918 4 0.4104 0.6527 0.088 0.080 0.000 0.832
#> SRR1026919 4 0.4231 0.6472 0.096 0.080 0.000 0.824
#> SRR1026920 4 0.3123 0.6738 0.000 0.156 0.000 0.844
#> SRR1026921 4 0.3172 0.6730 0.000 0.160 0.000 0.840
#> SRR1026922 4 0.5846 0.2903 0.032 0.452 0.000 0.516
#> SRR1026923 2 0.5857 0.3988 0.056 0.636 0.000 0.308
#> SRR1026924 4 0.0927 0.6623 0.008 0.016 0.000 0.976
#> SRR1026925 4 0.5731 -0.0484 0.000 0.028 0.428 0.544
#> SRR1026926 4 0.1661 0.6733 0.004 0.052 0.000 0.944
#> SRR1026927 1 0.4576 0.7195 0.748 0.020 0.000 0.232
#> SRR1026928 4 0.4070 0.6071 0.132 0.044 0.000 0.824
#> SRR1026929 3 0.5535 0.5843 0.000 0.040 0.656 0.304
#> SRR1026930 2 0.5110 0.6567 0.132 0.764 0.000 0.104
#> SRR1026931 2 0.4304 0.4959 0.000 0.716 0.000 0.284
#> SRR1026932 2 0.4996 -0.1353 0.000 0.516 0.000 0.484
#> SRR1026933 2 0.4992 -0.1046 0.000 0.524 0.000 0.476
#> SRR1026934 4 0.4819 0.5408 0.004 0.344 0.000 0.652
#> SRR1026935 4 0.4819 0.5408 0.004 0.344 0.000 0.652
#> SRR1026936 4 0.1452 0.6374 0.036 0.008 0.000 0.956
#> SRR1026937 4 0.1151 0.6445 0.024 0.008 0.000 0.968
#> SRR1026938 4 0.4755 0.6617 0.040 0.200 0.000 0.760
#> SRR1026939 4 0.4939 0.6526 0.040 0.220 0.000 0.740
#> SRR1026940 1 0.2840 0.8253 0.900 0.056 0.000 0.044
#> SRR1026941 3 0.0524 0.7818 0.000 0.008 0.988 0.004
#> SRR1026942 1 0.1520 0.8367 0.956 0.020 0.000 0.024
#> SRR1026943 1 0.1629 0.8409 0.952 0.024 0.000 0.024
#> SRR1026944 1 0.2360 0.8267 0.924 0.020 0.004 0.052
#> SRR1026945 1 0.2799 0.7935 0.884 0.008 0.108 0.000
#> SRR1026947 4 0.4661 0.5379 0.000 0.348 0.000 0.652
#> SRR1026946 4 0.5026 0.5875 0.016 0.312 0.000 0.672
#> SRR1026948 2 0.4761 0.3883 0.004 0.664 0.000 0.332
#> SRR1026949 1 0.5267 0.6538 0.740 0.184 0.000 0.076
#> SRR1026950 1 0.2089 0.8299 0.932 0.020 0.000 0.048
#> SRR1026951 2 0.6011 0.5780 0.132 0.688 0.000 0.180
#> SRR1026952 1 0.1624 0.8348 0.952 0.020 0.000 0.028
#> SRR1026953 3 0.0336 0.7835 0.008 0.000 0.992 0.000
#> SRR1026954 1 0.5323 0.5753 0.628 0.020 0.000 0.352
#> SRR1026955 4 0.4992 0.2456 0.000 0.476 0.000 0.524
#> SRR1026956 1 0.4542 0.7255 0.752 0.020 0.000 0.228
#> SRR1026957 4 0.4868 0.5972 0.012 0.304 0.000 0.684
#> SRR1026958 1 0.0804 0.8433 0.980 0.012 0.000 0.008
#> SRR1026959 2 0.3837 0.5981 0.000 0.776 0.000 0.224
#> SRR1026960 1 0.4642 0.7163 0.740 0.020 0.000 0.240
#> SRR1026961 4 0.4158 0.4672 0.224 0.008 0.000 0.768
#> SRR1026962 1 0.2275 0.8281 0.928 0.020 0.004 0.048
#> SRR1026963 1 0.1598 0.8362 0.956 0.020 0.004 0.020
#> SRR1026964 4 0.1004 0.6529 0.024 0.004 0.000 0.972
#> SRR1026965 4 0.1151 0.6552 0.024 0.008 0.000 0.968
#> SRR1026966 3 0.1677 0.7823 0.000 0.012 0.948 0.040
#> SRR1026967 3 0.1356 0.7834 0.000 0.008 0.960 0.032
#> SRR1026968 4 0.5452 -0.0624 0.428 0.016 0.000 0.556
#> SRR1026969 1 0.4767 0.7006 0.724 0.020 0.000 0.256
#> SRR1026970 1 0.4642 0.7149 0.740 0.020 0.000 0.240
#> SRR1026971 1 0.4675 0.7114 0.736 0.020 0.000 0.244
#> SRR1026972 4 0.5323 0.1978 0.352 0.020 0.000 0.628
#> SRR1026973 4 0.4844 0.3540 0.300 0.012 0.000 0.688
#> SRR1026974 1 0.4284 0.7455 0.780 0.020 0.000 0.200
#> SRR1026975 1 0.4323 0.7432 0.776 0.020 0.000 0.204
#> SRR1026976 1 0.5400 0.5465 0.608 0.020 0.000 0.372
#> SRR1026977 1 0.5371 0.5560 0.616 0.020 0.000 0.364
#> SRR1026978 2 0.5785 0.5391 0.272 0.664 0.000 0.064
#> SRR1026979 3 0.0336 0.7835 0.008 0.000 0.992 0.000
#> SRR1026980 2 0.3899 0.7034 0.052 0.840 0.000 0.108
#> SRR1026981 2 0.2329 0.7186 0.000 0.916 0.012 0.072
#> SRR1026982 1 0.5233 0.6035 0.648 0.020 0.000 0.332
#> SRR1026983 1 0.5252 0.5983 0.644 0.020 0.000 0.336
#> SRR1026984 4 0.5277 -0.1523 0.460 0.008 0.000 0.532
#> SRR1026985 4 0.5236 -0.0510 0.432 0.008 0.000 0.560
#> SRR1026986 1 0.3037 0.8113 0.880 0.100 0.000 0.020
#> SRR1026987 1 0.1474 0.8353 0.948 0.052 0.000 0.000
#> SRR1026988 1 0.0712 0.8408 0.984 0.008 0.004 0.004
#> SRR1026989 3 0.3680 0.7032 0.160 0.008 0.828 0.004
#> SRR1026990 1 0.4642 0.7152 0.740 0.020 0.000 0.240
#> SRR1026991 3 0.4327 0.7482 0.096 0.012 0.832 0.060
#> SRR1026992 1 0.0469 0.8420 0.988 0.012 0.000 0.000
#> SRR1026993 1 0.1022 0.8402 0.968 0.032 0.000 0.000
#> SRR1026994 2 0.2266 0.7201 0.004 0.912 0.000 0.084
#> SRR1026995 2 0.3768 0.6363 0.184 0.808 0.000 0.008
#> SRR1026996 4 0.4936 0.3721 0.280 0.020 0.000 0.700
#> SRR1026997 4 0.5108 0.3047 0.308 0.020 0.000 0.672
#> SRR1026998 3 0.5814 0.5764 0.000 0.056 0.644 0.300
#> SRR1026999 3 0.5697 0.5924 0.000 0.052 0.656 0.292
#> SRR1027000 2 0.4008 0.5284 0.244 0.756 0.000 0.000
#> SRR1027001 1 0.5116 0.7424 0.784 0.024 0.140 0.052
#> SRR1027002 2 0.4322 0.6695 0.152 0.804 0.000 0.044
#> SRR1027003 2 0.3873 0.7065 0.096 0.844 0.000 0.060
#> SRR1027004 1 0.1302 0.8382 0.956 0.044 0.000 0.000
#> SRR1027005 3 0.4462 0.7225 0.000 0.164 0.792 0.044
#> SRR1027006 1 0.0524 0.8416 0.988 0.004 0.000 0.008
#> SRR1027007 1 0.2565 0.8295 0.912 0.032 0.000 0.056
#> SRR1027008 1 0.3311 0.7504 0.828 0.172 0.000 0.000
#> SRR1027009 3 0.0336 0.7835 0.008 0.000 0.992 0.000
#> SRR1027010 3 0.6332 0.2818 0.404 0.064 0.532 0.000
#> SRR1027011 3 0.1940 0.7691 0.000 0.076 0.924 0.000
#> SRR1177668 1 0.2500 0.8241 0.916 0.044 0.040 0.000
#> SRR1177667 1 0.1557 0.8339 0.944 0.056 0.000 0.000
#> SRR1177669 1 0.6639 0.3793 0.596 0.120 0.284 0.000
#> SRR1177670 3 0.4746 0.5437 0.304 0.008 0.688 0.000
#> SRR1177671 2 0.2593 0.7101 0.004 0.892 0.000 0.104
#> SRR1177672 1 0.5000 -0.0375 0.504 0.000 0.496 0.000
#> SRR1177673 1 0.5193 0.3181 0.580 0.412 0.008 0.000
#> SRR1177674 3 0.2053 0.7607 0.072 0.004 0.924 0.000
#> SRR1177675 1 0.0817 0.8406 0.976 0.024 0.000 0.000
#> SRR1177676 1 0.4869 0.7118 0.780 0.088 0.132 0.000
#> SRR1177677 2 0.4985 0.0355 0.468 0.532 0.000 0.000
#> SRR1177678 1 0.1389 0.8357 0.952 0.048 0.000 0.000
#> SRR1177679 2 0.2021 0.7259 0.012 0.932 0.000 0.056
#> SRR1177680 2 0.2256 0.7275 0.020 0.924 0.000 0.056
#> SRR1177681 1 0.4907 0.3012 0.580 0.420 0.000 0.000
#> SRR1177682 2 0.3356 0.6131 0.176 0.824 0.000 0.000
#> SRR1177683 2 0.2197 0.7196 0.004 0.916 0.000 0.080
#> SRR1177684 2 0.2125 0.7214 0.004 0.920 0.000 0.076
#> SRR1177685 1 0.1474 0.8344 0.948 0.052 0.000 0.000
#> SRR1177686 3 0.3991 0.7270 0.000 0.172 0.808 0.020
#> SRR1177687 2 0.2300 0.7266 0.016 0.920 0.000 0.064
#> SRR1177688 1 0.5126 0.2278 0.552 0.444 0.004 0.000
#> SRR1177689 2 0.2888 0.6739 0.124 0.872 0.000 0.004
#> SRR1177690 1 0.3074 0.7708 0.848 0.152 0.000 0.000
#> SRR1177691 2 0.1767 0.7247 0.012 0.944 0.000 0.044
#> SRR1177692 2 0.2053 0.7221 0.004 0.924 0.000 0.072
#> SRR1177693 4 0.4454 0.5960 0.000 0.308 0.000 0.692
#> SRR1177694 4 0.3681 0.6733 0.008 0.176 0.000 0.816
#> SRR1177695 2 0.4222 0.5043 0.272 0.728 0.000 0.000
#> SRR1177697 1 0.0592 0.8418 0.984 0.016 0.000 0.000
#> SRR1177696 2 0.4401 0.5185 0.272 0.724 0.004 0.000
#> SRR1177698 3 0.3447 0.7435 0.020 0.128 0.852 0.000
#> SRR1177700 1 0.3757 0.7795 0.828 0.020 0.000 0.152
#> SRR1177701 1 0.3392 0.7954 0.856 0.020 0.000 0.124
#> SRR1177702 4 0.4356 0.6114 0.000 0.292 0.000 0.708
#> SRR1177703 1 0.2909 0.8120 0.888 0.020 0.000 0.092
#> SRR1177704 4 0.4304 0.6171 0.000 0.284 0.000 0.716
#> SRR1177705 1 0.0804 0.8433 0.980 0.012 0.000 0.008
#> SRR1177706 2 0.1767 0.7241 0.012 0.944 0.000 0.044
#> SRR1177707 1 0.3658 0.7841 0.836 0.020 0.000 0.144
#> SRR1177708 1 0.2662 0.8172 0.900 0.016 0.000 0.084
#> SRR1177709 1 0.2216 0.8170 0.908 0.092 0.000 0.000
#> SRR1177710 1 0.4259 0.7365 0.816 0.056 0.128 0.000
#> SRR1177711 1 0.0469 0.8414 0.988 0.012 0.000 0.000
#> SRR1177712 4 0.4820 0.6148 0.012 0.296 0.000 0.692
#> SRR1177714 2 0.4761 0.2539 0.000 0.628 0.000 0.372
#> SRR1177713 4 0.3444 0.6682 0.000 0.184 0.000 0.816
#> SRR1177715 2 0.1824 0.7026 0.060 0.936 0.000 0.004
#> SRR1177716 3 0.3616 0.7499 0.000 0.036 0.852 0.112
#> SRR1177717 1 0.0469 0.8420 0.988 0.012 0.000 0.000
#> SRR1177718 1 0.0524 0.8417 0.988 0.008 0.004 0.000
#> SRR1177719 1 0.2843 0.8129 0.892 0.020 0.000 0.088
#> SRR1177720 2 0.4609 0.5501 0.000 0.752 0.024 0.224
#> SRR1177721 2 0.3870 0.6197 0.004 0.788 0.000 0.208
#> SRR1177722 4 0.4961 0.3333 0.000 0.448 0.000 0.552
#> SRR1177723 1 0.1867 0.8279 0.928 0.072 0.000 0.000
#> SRR1177725 1 0.0524 0.8421 0.988 0.008 0.000 0.004
#> SRR1177724 1 0.1389 0.8364 0.952 0.048 0.000 0.000
#> SRR1177726 3 0.0336 0.7835 0.008 0.000 0.992 0.000
#> SRR1177727 1 0.0895 0.8400 0.976 0.020 0.004 0.000
#> SRR1177728 3 0.0336 0.7835 0.008 0.000 0.992 0.000
#> SRR1177729 1 0.0524 0.8421 0.988 0.008 0.000 0.004
#> SRR1177730 1 0.2797 0.8134 0.900 0.032 0.068 0.000
#> SRR1177731 1 0.1743 0.8320 0.940 0.056 0.004 0.000
#> SRR1177732 1 0.0707 0.8404 0.980 0.000 0.020 0.000
#> SRR1177733 1 0.1902 0.8302 0.932 0.064 0.000 0.004
#> SRR1177734 1 0.0657 0.8427 0.984 0.012 0.000 0.004
#> SRR1177735 1 0.4541 0.7227 0.796 0.144 0.000 0.060
#> SRR1177736 1 0.0592 0.8416 0.984 0.016 0.000 0.000
#> SRR1177737 4 0.4127 0.6668 0.052 0.124 0.000 0.824
#> SRR1177738 4 0.3081 0.6585 0.000 0.048 0.064 0.888
#> SRR1177739 1 0.0921 0.8408 0.972 0.028 0.000 0.000
#> SRR1177740 1 0.1211 0.8384 0.960 0.040 0.000 0.000
#> SRR1177741 1 0.0657 0.8413 0.984 0.012 0.004 0.000
#> SRR1177742 3 0.0336 0.7835 0.008 0.000 0.992 0.000
#> SRR1177743 1 0.2996 0.8095 0.892 0.064 0.044 0.000
#> SRR1177744 1 0.1247 0.8397 0.968 0.016 0.012 0.004
#> SRR1177745 2 0.3052 0.6882 0.004 0.860 0.000 0.136
#> SRR1177746 2 0.2089 0.7248 0.020 0.932 0.000 0.048
#> SRR1177747 3 0.4946 0.6033 0.256 0.004 0.720 0.020
#> SRR1177748 3 0.0188 0.7827 0.004 0.000 0.996 0.000
#> SRR1177749 1 0.0336 0.8415 0.992 0.008 0.000 0.000
#> SRR1177750 1 0.3610 0.7190 0.800 0.200 0.000 0.000
#> SRR1177751 1 0.4843 0.3668 0.604 0.396 0.000 0.000
#> SRR1177752 1 0.1637 0.8327 0.940 0.060 0.000 0.000
#> SRR1177753 1 0.1867 0.8277 0.928 0.072 0.000 0.000
#> SRR1177754 1 0.1970 0.8295 0.932 0.060 0.008 0.000
#> SRR1177755 1 0.0376 0.8424 0.992 0.004 0.000 0.004
#> SRR1177756 1 0.2198 0.8309 0.920 0.072 0.000 0.008
cbind(get_classes(res, k = 5), get_membership(res, k = 5))
#> class entropy silhouette p1 p2 p3 p4 p5
#> SRR1026870 2 0.2389 0.7539 0.000 0.880 0.000 0.116 0.004
#> SRR1026871 2 0.2230 0.7540 0.000 0.884 0.000 0.116 0.000
#> SRR1026872 2 0.3513 0.7226 0.000 0.800 0.000 0.180 0.020
#> SRR1026873 1 0.1492 0.7412 0.948 0.000 0.004 0.008 0.040
#> SRR1026874 3 0.7072 0.4018 0.228 0.000 0.516 0.040 0.216
#> SRR1026875 2 0.1836 0.7451 0.000 0.932 0.000 0.032 0.036
#> SRR1026876 2 0.1750 0.7445 0.000 0.936 0.000 0.028 0.036
#> SRR1026877 4 0.6534 0.2126 0.000 0.072 0.336 0.536 0.056
#> SRR1026878 4 0.6498 0.1593 0.000 0.072 0.368 0.512 0.048
#> SRR1026879 1 0.4241 0.5767 0.748 0.000 0.016 0.016 0.220
#> SRR1026880 1 0.5116 0.5378 0.724 0.000 0.100 0.016 0.160
#> SRR1026881 2 0.5875 0.1700 0.100 0.556 0.000 0.340 0.004
#> SRR1026882 2 0.5113 0.3842 0.056 0.620 0.000 0.324 0.000
#> SRR1026883 4 0.5150 0.5959 0.172 0.136 0.000 0.692 0.000
#> SRR1026884 4 0.5162 0.5934 0.160 0.148 0.000 0.692 0.000
#> SRR1026885 1 0.4581 0.5514 0.624 0.012 0.000 0.360 0.004
#> SRR1026886 1 0.4567 0.5575 0.628 0.012 0.000 0.356 0.004
#> SRR1026887 4 0.6216 0.4772 0.064 0.052 0.188 0.672 0.024
#> SRR1026888 4 0.6297 0.4752 0.064 0.052 0.188 0.668 0.028
#> SRR1026889 2 0.3431 0.7346 0.020 0.828 0.000 0.144 0.008
#> SRR1026890 4 0.4163 0.4675 0.000 0.228 0.000 0.740 0.032
#> SRR1026891 1 0.4134 0.6617 0.720 0.008 0.000 0.264 0.008
#> SRR1026892 1 0.4134 0.6617 0.720 0.008 0.000 0.264 0.008
#> SRR1026893 4 0.6263 0.3619 0.008 0.068 0.276 0.608 0.040
#> SRR1026894 4 0.6040 0.4079 0.008 0.068 0.236 0.648 0.040
#> SRR1026895 4 0.5779 0.5642 0.212 0.172 0.000 0.616 0.000
#> SRR1026896 4 0.5773 0.5609 0.216 0.168 0.000 0.616 0.000
#> SRR1026897 5 0.7304 0.1648 0.000 0.172 0.048 0.336 0.444
#> SRR1026898 5 0.4127 0.4639 0.312 0.000 0.000 0.008 0.680
#> SRR1026899 1 0.4467 0.6227 0.780 0.000 0.128 0.016 0.076
#> SRR1026900 2 0.6138 0.2917 0.188 0.596 0.000 0.008 0.208
#> SRR1026901 2 0.2532 0.7082 0.028 0.908 0.000 0.028 0.036
#> SRR1026902 1 0.4608 0.5777 0.644 0.012 0.000 0.336 0.008
#> SRR1026903 1 0.4608 0.5808 0.644 0.012 0.000 0.336 0.008
#> SRR1026904 4 0.5061 0.6024 0.128 0.132 0.000 0.728 0.012
#> SRR1026905 4 0.5103 0.6017 0.128 0.136 0.000 0.724 0.012
#> SRR1026906 2 0.3765 0.7200 0.064 0.836 0.000 0.080 0.020
#> SRR1026907 2 0.3799 0.7195 0.068 0.836 0.000 0.072 0.024
#> SRR1026908 2 0.2390 0.7563 0.000 0.896 0.000 0.084 0.020
#> SRR1026909 2 0.2208 0.7558 0.000 0.908 0.000 0.072 0.020
#> SRR1026910 1 0.5417 0.3038 0.516 0.048 0.000 0.432 0.004
#> SRR1026911 1 0.5502 0.3536 0.532 0.048 0.000 0.412 0.008
#> SRR1026912 4 0.5919 0.4258 0.000 0.092 0.124 0.692 0.092
#> SRR1026913 4 0.5942 0.4190 0.000 0.088 0.136 0.688 0.088
#> SRR1026914 2 0.4223 0.6471 0.000 0.724 0.000 0.248 0.028
#> SRR1026915 2 0.4058 0.6644 0.000 0.740 0.000 0.236 0.024
#> SRR1026916 2 0.3461 0.6787 0.000 0.772 0.000 0.224 0.004
#> SRR1026917 2 0.3398 0.6875 0.000 0.780 0.000 0.216 0.004
#> SRR1026918 4 0.6809 0.2981 0.320 0.312 0.000 0.368 0.000
#> SRR1026919 4 0.6811 0.2633 0.336 0.304 0.000 0.360 0.000
#> SRR1026920 2 0.4206 0.5906 0.000 0.696 0.000 0.288 0.016
#> SRR1026921 2 0.4063 0.6072 0.000 0.708 0.000 0.280 0.012
#> SRR1026922 2 0.1408 0.7266 0.000 0.948 0.000 0.008 0.044
#> SRR1026923 2 0.2206 0.7058 0.004 0.912 0.000 0.016 0.068
#> SRR1026924 4 0.5344 0.5771 0.164 0.164 0.000 0.672 0.000
#> SRR1026925 4 0.6079 0.3921 0.000 0.084 0.220 0.644 0.052
#> SRR1026926 4 0.4483 0.5696 0.052 0.156 0.000 0.772 0.020
#> SRR1026927 1 0.4070 0.6681 0.728 0.004 0.000 0.256 0.012
#> SRR1026928 1 0.6550 0.1812 0.480 0.188 0.000 0.328 0.004
#> SRR1026929 4 0.6546 0.1604 0.000 0.076 0.368 0.508 0.048
#> SRR1026930 2 0.5715 0.2146 0.088 0.576 0.000 0.004 0.332
#> SRR1026931 2 0.2848 0.6428 0.000 0.840 0.000 0.004 0.156
#> SRR1026932 2 0.2208 0.7249 0.000 0.908 0.000 0.020 0.072
#> SRR1026933 2 0.2270 0.7239 0.000 0.904 0.000 0.020 0.076
#> SRR1026934 2 0.2448 0.7551 0.000 0.892 0.000 0.088 0.020
#> SRR1026935 2 0.2561 0.7545 0.000 0.884 0.000 0.096 0.020
#> SRR1026936 4 0.6369 0.3322 0.328 0.160 0.000 0.508 0.004
#> SRR1026937 4 0.6261 0.3784 0.312 0.152 0.000 0.532 0.004
#> SRR1026938 2 0.4281 0.6518 0.056 0.768 0.000 0.172 0.004
#> SRR1026939 2 0.4166 0.6595 0.056 0.780 0.000 0.160 0.004
#> SRR1026940 1 0.2390 0.7523 0.896 0.000 0.000 0.084 0.020
#> SRR1026941 3 0.2332 0.7377 0.000 0.004 0.904 0.076 0.016
#> SRR1026942 1 0.2332 0.7486 0.904 0.004 0.000 0.076 0.016
#> SRR1026943 1 0.1970 0.7544 0.924 0.004 0.000 0.060 0.012
#> SRR1026944 1 0.2984 0.7338 0.856 0.004 0.000 0.124 0.016
#> SRR1026945 3 0.4806 0.5077 0.336 0.000 0.636 0.016 0.012
#> SRR1026947 2 0.2482 0.7547 0.000 0.892 0.000 0.084 0.024
#> SRR1026946 2 0.3599 0.7386 0.008 0.812 0.000 0.160 0.020
#> SRR1026948 2 0.3912 0.5701 0.000 0.752 0.000 0.020 0.228
#> SRR1026949 1 0.4010 0.7365 0.828 0.068 0.000 0.060 0.044
#> SRR1026950 1 0.2677 0.7407 0.872 0.000 0.000 0.112 0.016
#> SRR1026951 2 0.5691 0.3788 0.124 0.644 0.000 0.008 0.224
#> SRR1026952 1 0.2069 0.7500 0.912 0.000 0.000 0.076 0.012
#> SRR1026953 3 0.1731 0.7675 0.040 0.000 0.940 0.008 0.012
#> SRR1026954 1 0.4768 0.6121 0.672 0.036 0.000 0.288 0.004
#> SRR1026955 2 0.1893 0.7376 0.000 0.928 0.000 0.024 0.048
#> SRR1026956 1 0.3974 0.6864 0.752 0.004 0.000 0.228 0.016
#> SRR1026957 2 0.3506 0.7490 0.024 0.836 0.000 0.124 0.016
#> SRR1026958 1 0.1568 0.7560 0.944 0.000 0.000 0.036 0.020
#> SRR1026959 2 0.3766 0.4963 0.000 0.728 0.000 0.004 0.268
#> SRR1026960 1 0.4089 0.6724 0.736 0.016 0.000 0.244 0.004
#> SRR1026961 1 0.6115 0.3999 0.552 0.136 0.000 0.308 0.004
#> SRR1026962 1 0.2727 0.7381 0.868 0.000 0.000 0.116 0.016
#> SRR1026963 1 0.1862 0.7517 0.932 0.000 0.004 0.048 0.016
#> SRR1026964 4 0.5878 0.3561 0.324 0.120 0.000 0.556 0.000
#> SRR1026965 4 0.5858 0.3964 0.308 0.124 0.000 0.568 0.000
#> SRR1026966 3 0.4675 0.5980 0.000 0.028 0.736 0.208 0.028
#> SRR1026967 3 0.4592 0.6026 0.000 0.024 0.740 0.208 0.028
#> SRR1026968 1 0.4715 0.6085 0.668 0.024 0.000 0.300 0.008
#> SRR1026969 1 0.4288 0.6622 0.720 0.016 0.000 0.256 0.008
#> SRR1026970 1 0.4288 0.6622 0.720 0.016 0.000 0.256 0.008
#> SRR1026971 1 0.4190 0.6649 0.724 0.012 0.000 0.256 0.008
#> SRR1026972 1 0.5024 0.5490 0.628 0.040 0.000 0.328 0.004
#> SRR1026973 1 0.4898 0.5556 0.632 0.032 0.000 0.332 0.004
#> SRR1026974 1 0.4004 0.6844 0.748 0.004 0.000 0.232 0.016
#> SRR1026975 1 0.3974 0.6871 0.752 0.004 0.000 0.228 0.016
#> SRR1026976 1 0.4422 0.6196 0.680 0.016 0.000 0.300 0.004
#> SRR1026977 1 0.4422 0.6196 0.680 0.016 0.000 0.300 0.004
#> SRR1026978 2 0.6851 -0.1775 0.316 0.416 0.000 0.004 0.264
#> SRR1026979 3 0.0579 0.7697 0.000 0.000 0.984 0.008 0.008
#> SRR1026980 2 0.4718 0.0248 0.016 0.540 0.000 0.000 0.444
#> SRR1026981 5 0.4797 0.5175 0.004 0.280 0.040 0.000 0.676
#> SRR1026982 1 0.4449 0.6310 0.688 0.020 0.000 0.288 0.004
#> SRR1026983 1 0.4449 0.6310 0.688 0.020 0.000 0.288 0.004
#> SRR1026984 1 0.5455 0.5501 0.624 0.080 0.000 0.292 0.004
#> SRR1026985 1 0.5403 0.5565 0.628 0.076 0.000 0.292 0.004
#> SRR1026986 1 0.3333 0.6970 0.820 0.008 0.000 0.008 0.164
#> SRR1026987 1 0.2864 0.7391 0.864 0.000 0.000 0.024 0.112
#> SRR1026988 1 0.3079 0.7401 0.876 0.000 0.044 0.064 0.016
#> SRR1026989 3 0.4047 0.7425 0.076 0.052 0.832 0.008 0.032
#> SRR1026990 1 0.4170 0.6539 0.712 0.012 0.000 0.272 0.004
#> SRR1026991 3 0.4375 0.6638 0.104 0.004 0.776 0.116 0.000
#> SRR1026992 1 0.0671 0.7523 0.980 0.000 0.000 0.004 0.016
#> SRR1026993 1 0.1498 0.7485 0.952 0.008 0.000 0.016 0.024
#> SRR1026994 5 0.3884 0.5316 0.004 0.288 0.000 0.000 0.708
#> SRR1026995 5 0.6069 0.2310 0.092 0.448 0.000 0.008 0.452
#> SRR1026996 1 0.5250 0.3934 0.552 0.040 0.000 0.404 0.004
#> SRR1026997 1 0.5206 0.4417 0.572 0.040 0.000 0.384 0.004
#> SRR1026998 4 0.6696 0.2613 0.000 0.072 0.252 0.580 0.096
#> SRR1026999 4 0.6716 0.2585 0.000 0.072 0.256 0.576 0.096
#> SRR1027000 5 0.3343 0.5567 0.172 0.016 0.000 0.000 0.812
#> SRR1027001 3 0.6137 0.3619 0.368 0.020 0.548 0.048 0.016
#> SRR1027002 5 0.6767 0.3219 0.224 0.352 0.000 0.004 0.420
#> SRR1027003 2 0.4655 -0.1264 0.012 0.512 0.000 0.000 0.476
#> SRR1027004 1 0.1883 0.7474 0.940 0.012 0.008 0.012 0.028
#> SRR1027005 3 0.5490 0.6614 0.000 0.040 0.704 0.080 0.176
#> SRR1027006 1 0.1673 0.7537 0.944 0.000 0.016 0.032 0.008
#> SRR1027007 1 0.5396 0.4471 0.648 0.284 0.000 0.036 0.032
#> SRR1027008 1 0.3838 0.5425 0.716 0.000 0.000 0.004 0.280
#> SRR1027009 3 0.0162 0.7730 0.004 0.000 0.996 0.000 0.000
#> SRR1027010 1 0.6673 0.1116 0.476 0.000 0.324 0.008 0.192
#> SRR1027011 3 0.2984 0.7514 0.016 0.000 0.856 0.004 0.124
#> SRR1177668 1 0.5263 0.5075 0.696 0.000 0.208 0.016 0.080
#> SRR1177667 1 0.2124 0.7211 0.900 0.000 0.000 0.004 0.096
#> SRR1177669 1 0.5568 0.4868 0.644 0.000 0.116 0.004 0.236
#> SRR1177670 3 0.4686 0.6624 0.196 0.000 0.740 0.016 0.048
#> SRR1177671 5 0.4201 0.3495 0.000 0.408 0.000 0.000 0.592
#> SRR1177672 3 0.4421 0.6424 0.220 0.000 0.740 0.016 0.024
#> SRR1177673 5 0.5607 0.3049 0.416 0.000 0.048 0.012 0.524
#> SRR1177674 3 0.2692 0.7540 0.092 0.000 0.884 0.008 0.016
#> SRR1177675 1 0.1478 0.7400 0.936 0.000 0.000 0.000 0.064
#> SRR1177676 1 0.6511 0.2754 0.560 0.000 0.200 0.016 0.224
#> SRR1177677 5 0.4402 0.4211 0.372 0.004 0.000 0.004 0.620
#> SRR1177678 1 0.2289 0.7223 0.904 0.000 0.004 0.012 0.080
#> SRR1177679 5 0.4065 0.5557 0.016 0.264 0.000 0.000 0.720
#> SRR1177680 5 0.3934 0.5721 0.016 0.244 0.000 0.000 0.740
#> SRR1177681 5 0.4434 0.2001 0.460 0.000 0.000 0.004 0.536
#> SRR1177682 5 0.3536 0.5675 0.156 0.032 0.000 0.000 0.812
#> SRR1177683 5 0.4074 0.4245 0.000 0.364 0.000 0.000 0.636
#> SRR1177684 5 0.4402 0.4592 0.012 0.352 0.000 0.000 0.636
#> SRR1177685 1 0.2522 0.7073 0.880 0.000 0.000 0.012 0.108
#> SRR1177686 3 0.6965 0.4727 0.000 0.036 0.524 0.192 0.248
#> SRR1177687 5 0.3819 0.5760 0.016 0.228 0.000 0.000 0.756
#> SRR1177688 5 0.4294 0.1750 0.468 0.000 0.000 0.000 0.532
#> SRR1177689 5 0.4361 0.6101 0.124 0.108 0.000 0.000 0.768
#> SRR1177690 1 0.3728 0.5714 0.748 0.000 0.000 0.008 0.244
#> SRR1177691 5 0.4184 0.5452 0.016 0.284 0.000 0.000 0.700
#> SRR1177692 5 0.4130 0.5332 0.012 0.292 0.000 0.000 0.696
#> SRR1177693 2 0.1469 0.7512 0.000 0.948 0.000 0.036 0.016
#> SRR1177694 2 0.2818 0.7413 0.004 0.860 0.000 0.128 0.008
#> SRR1177695 5 0.3720 0.5371 0.228 0.012 0.000 0.000 0.760
#> SRR1177697 1 0.0579 0.7535 0.984 0.000 0.000 0.008 0.008
#> SRR1177696 5 0.5345 0.5727 0.196 0.080 0.012 0.008 0.704
#> SRR1177698 3 0.3866 0.7054 0.024 0.000 0.780 0.004 0.192
#> SRR1177700 1 0.3551 0.6990 0.772 0.000 0.000 0.220 0.008
#> SRR1177701 1 0.3752 0.7032 0.780 0.004 0.000 0.200 0.016
#> SRR1177702 2 0.3184 0.6944 0.000 0.852 0.000 0.100 0.048
#> SRR1177703 1 0.3242 0.7226 0.816 0.000 0.000 0.172 0.012
#> SRR1177704 2 0.2300 0.7372 0.000 0.908 0.000 0.052 0.040
#> SRR1177705 1 0.1300 0.7552 0.956 0.000 0.000 0.028 0.016
#> SRR1177706 5 0.4341 0.4394 0.008 0.364 0.000 0.000 0.628
#> SRR1177707 1 0.3439 0.7111 0.800 0.004 0.000 0.188 0.008
#> SRR1177708 1 0.3353 0.7178 0.796 0.000 0.000 0.196 0.008
#> SRR1177709 1 0.3210 0.6259 0.788 0.000 0.000 0.000 0.212
#> SRR1177710 1 0.5344 0.5714 0.688 0.000 0.116 0.008 0.188
#> SRR1177711 1 0.1430 0.7409 0.944 0.000 0.000 0.004 0.052
#> SRR1177712 2 0.1568 0.7346 0.000 0.944 0.000 0.036 0.020
#> SRR1177714 2 0.3750 0.5651 0.000 0.756 0.000 0.012 0.232
#> SRR1177713 2 0.3216 0.7284 0.000 0.848 0.000 0.108 0.044
#> SRR1177715 5 0.4054 0.6084 0.072 0.140 0.000 0.000 0.788
#> SRR1177716 3 0.2568 0.7286 0.000 0.092 0.888 0.016 0.004
#> SRR1177717 1 0.0794 0.7489 0.972 0.000 0.000 0.000 0.028
#> SRR1177718 1 0.0798 0.7498 0.976 0.000 0.000 0.016 0.008
#> SRR1177719 1 0.3242 0.7208 0.816 0.000 0.000 0.172 0.012
#> SRR1177720 5 0.7242 0.1382 0.000 0.204 0.036 0.308 0.452
#> SRR1177721 2 0.4435 0.3688 0.000 0.648 0.000 0.016 0.336
#> SRR1177722 2 0.1965 0.7367 0.000 0.924 0.000 0.024 0.052
#> SRR1177723 1 0.2329 0.7095 0.876 0.000 0.000 0.000 0.124
#> SRR1177725 1 0.1012 0.7546 0.968 0.000 0.000 0.020 0.012
#> SRR1177724 1 0.1478 0.7420 0.936 0.000 0.000 0.000 0.064
#> SRR1177726 3 0.1173 0.7730 0.020 0.000 0.964 0.012 0.004
#> SRR1177727 1 0.1630 0.7525 0.944 0.000 0.004 0.036 0.016
#> SRR1177728 3 0.0162 0.7730 0.004 0.000 0.996 0.000 0.000
#> SRR1177729 1 0.1485 0.7540 0.948 0.000 0.000 0.020 0.032
#> SRR1177730 1 0.5588 0.1906 0.572 0.000 0.364 0.016 0.048
#> SRR1177731 1 0.3413 0.6709 0.836 0.000 0.016 0.016 0.132
#> SRR1177732 1 0.4537 0.5754 0.744 0.000 0.204 0.016 0.036
#> SRR1177733 1 0.2833 0.7268 0.864 0.004 0.000 0.012 0.120
#> SRR1177734 1 0.1300 0.7539 0.956 0.000 0.000 0.016 0.028
#> SRR1177735 1 0.3248 0.7356 0.868 0.048 0.000 0.020 0.064
#> SRR1177736 1 0.2171 0.7485 0.912 0.000 0.000 0.024 0.064
#> SRR1177737 2 0.3287 0.7023 0.052 0.864 0.000 0.068 0.016
#> SRR1177738 2 0.5497 0.5173 0.000 0.676 0.096 0.212 0.016
#> SRR1177739 1 0.2390 0.7425 0.896 0.000 0.000 0.020 0.084
#> SRR1177740 1 0.1877 0.7483 0.924 0.000 0.000 0.012 0.064
#> SRR1177741 1 0.0992 0.7478 0.968 0.000 0.000 0.008 0.024
#> SRR1177742 3 0.0486 0.7729 0.004 0.000 0.988 0.004 0.004
#> SRR1177743 1 0.5642 0.4620 0.668 0.000 0.148 0.012 0.172
#> SRR1177744 1 0.3666 0.6931 0.824 0.000 0.132 0.032 0.012
#> SRR1177745 2 0.4304 -0.0793 0.000 0.516 0.000 0.000 0.484
#> SRR1177746 5 0.3940 0.5837 0.024 0.220 0.000 0.000 0.756
#> SRR1177747 1 0.7466 -0.0416 0.420 0.000 0.308 0.228 0.044
#> SRR1177748 3 0.0162 0.7717 0.000 0.000 0.996 0.004 0.000
#> SRR1177749 1 0.0794 0.7476 0.972 0.000 0.000 0.000 0.028
#> SRR1177750 1 0.3934 0.5182 0.716 0.000 0.000 0.008 0.276
#> SRR1177751 5 0.4656 0.1231 0.480 0.012 0.000 0.000 0.508
#> SRR1177752 1 0.2069 0.7268 0.912 0.000 0.000 0.012 0.076
#> SRR1177753 1 0.2280 0.7159 0.880 0.000 0.000 0.000 0.120
#> SRR1177754 1 0.2890 0.6708 0.836 0.000 0.000 0.004 0.160
#> SRR1177755 1 0.1281 0.7553 0.956 0.000 0.000 0.032 0.012
#> SRR1177756 1 0.3568 0.7068 0.844 0.080 0.000 0.012 0.064
cbind(get_classes(res, k = 6), get_membership(res, k = 6))
#> class entropy silhouette p1 p2 p3 p4 p5 p6
#> SRR1026870 2 0.3113 0.6798 0.000 0.844 0.000 0.048 0.008 0.100
#> SRR1026871 2 0.3364 0.6737 0.000 0.828 0.000 0.068 0.008 0.096
#> SRR1026872 2 0.4024 0.6144 0.000 0.748 0.000 0.048 0.008 0.196
#> SRR1026873 1 0.2755 0.6539 0.888 0.000 0.036 0.032 0.036 0.008
#> SRR1026874 3 0.8467 0.3610 0.124 0.008 0.380 0.156 0.240 0.092
#> SRR1026875 2 0.0972 0.6713 0.000 0.964 0.000 0.000 0.028 0.008
#> SRR1026876 2 0.0858 0.6698 0.000 0.968 0.000 0.000 0.028 0.004
#> SRR1026877 6 0.5372 0.5806 0.000 0.072 0.216 0.048 0.004 0.660
#> SRR1026878 6 0.5452 0.5589 0.000 0.072 0.232 0.040 0.008 0.648
#> SRR1026879 1 0.4490 0.4872 0.688 0.000 0.012 0.024 0.264 0.012
#> SRR1026880 1 0.6091 0.4288 0.620 0.000 0.176 0.060 0.132 0.012
#> SRR1026881 4 0.7085 0.4490 0.112 0.332 0.000 0.416 0.004 0.136
#> SRR1026882 2 0.6559 -0.2247 0.052 0.424 0.000 0.368 0.000 0.156
#> SRR1026883 4 0.6909 0.5182 0.104 0.116 0.000 0.428 0.004 0.348
#> SRR1026884 4 0.6940 0.5270 0.108 0.116 0.000 0.424 0.004 0.348
#> SRR1026885 1 0.5406 0.0667 0.504 0.012 0.000 0.412 0.004 0.068
#> SRR1026886 1 0.5435 0.0910 0.512 0.012 0.000 0.400 0.004 0.072
#> SRR1026887 6 0.6713 0.4237 0.020 0.052 0.128 0.300 0.000 0.500
#> SRR1026888 6 0.6794 0.4042 0.020 0.052 0.136 0.308 0.000 0.484
#> SRR1026889 2 0.4550 0.6280 0.012 0.744 0.000 0.108 0.008 0.128
#> SRR1026890 6 0.5713 0.1763 0.000 0.156 0.000 0.336 0.004 0.504
#> SRR1026891 1 0.3930 0.3862 0.628 0.004 0.000 0.364 0.004 0.000
#> SRR1026892 1 0.3930 0.3808 0.628 0.004 0.000 0.364 0.004 0.000
#> SRR1026893 6 0.6268 0.5682 0.000 0.068 0.136 0.240 0.000 0.556
#> SRR1026894 6 0.6271 0.5507 0.000 0.072 0.124 0.252 0.000 0.552
#> SRR1026895 4 0.7062 0.5969 0.120 0.136 0.000 0.452 0.004 0.288
#> SRR1026896 4 0.7170 0.6058 0.128 0.144 0.000 0.436 0.004 0.288
#> SRR1026897 6 0.7399 0.0905 0.000 0.120 0.008 0.176 0.296 0.400
#> SRR1026898 5 0.4300 0.4834 0.308 0.012 0.008 0.004 0.664 0.004
#> SRR1026899 1 0.4797 0.5668 0.728 0.000 0.168 0.040 0.056 0.008
#> SRR1026900 2 0.6909 0.2835 0.164 0.536 0.000 0.068 0.204 0.028
#> SRR1026901 2 0.3726 0.6289 0.020 0.824 0.000 0.100 0.032 0.024
#> SRR1026902 1 0.5031 0.0413 0.504 0.016 0.000 0.440 0.000 0.040
#> SRR1026903 1 0.5034 0.0270 0.500 0.016 0.000 0.444 0.000 0.040
#> SRR1026904 4 0.6173 0.2151 0.040 0.116 0.000 0.440 0.000 0.404
#> SRR1026905 4 0.6116 0.1803 0.040 0.108 0.000 0.436 0.000 0.416
#> SRR1026906 2 0.5121 0.6020 0.104 0.732 0.000 0.096 0.028 0.040
#> SRR1026907 2 0.5008 0.6118 0.100 0.744 0.000 0.084 0.032 0.040
#> SRR1026908 2 0.1887 0.6849 0.000 0.924 0.000 0.012 0.016 0.048
#> SRR1026909 2 0.1908 0.6843 0.000 0.924 0.000 0.012 0.020 0.044
#> SRR1026910 4 0.6303 0.4534 0.368 0.064 0.000 0.468 0.000 0.100
#> SRR1026911 4 0.5841 0.3026 0.412 0.044 0.000 0.472 0.000 0.072
#> SRR1026912 6 0.4286 0.6348 0.000 0.080 0.024 0.120 0.004 0.772
#> SRR1026913 6 0.4356 0.6377 0.000 0.076 0.024 0.112 0.012 0.776
#> SRR1026914 2 0.5482 0.4371 0.000 0.592 0.000 0.132 0.012 0.264
#> SRR1026915 2 0.5491 0.4638 0.000 0.604 0.000 0.132 0.016 0.248
#> SRR1026916 2 0.5028 0.5114 0.000 0.656 0.000 0.176 0.004 0.164
#> SRR1026917 2 0.5059 0.5053 0.000 0.652 0.000 0.176 0.004 0.168
#> SRR1026918 4 0.7310 0.6339 0.224 0.232 0.000 0.424 0.004 0.116
#> SRR1026919 4 0.7220 0.6336 0.248 0.228 0.000 0.424 0.004 0.096
#> SRR1026920 2 0.5703 0.3019 0.000 0.524 0.000 0.232 0.000 0.244
#> SRR1026921 2 0.5649 0.3213 0.000 0.536 0.000 0.228 0.000 0.236
#> SRR1026922 2 0.2295 0.6564 0.004 0.908 0.000 0.040 0.036 0.012
#> SRR1026923 2 0.3020 0.6375 0.008 0.868 0.000 0.064 0.044 0.016
#> SRR1026924 4 0.6966 0.5578 0.100 0.136 0.000 0.444 0.004 0.316
#> SRR1026925 6 0.5638 0.6425 0.000 0.080 0.112 0.152 0.000 0.656
#> SRR1026926 6 0.6347 -0.2984 0.068 0.100 0.000 0.368 0.000 0.464
#> SRR1026927 1 0.3942 0.3742 0.624 0.004 0.000 0.368 0.000 0.004
#> SRR1026928 4 0.6834 0.5668 0.332 0.160 0.000 0.428 0.000 0.080
#> SRR1026929 6 0.5551 0.5422 0.000 0.068 0.248 0.044 0.008 0.632
#> SRR1026930 2 0.5629 0.3398 0.080 0.616 0.000 0.020 0.264 0.020
#> SRR1026931 2 0.2882 0.5963 0.000 0.848 0.000 0.028 0.120 0.004
#> SRR1026932 2 0.2110 0.6488 0.000 0.900 0.000 0.004 0.084 0.012
#> SRR1026933 2 0.2110 0.6488 0.000 0.900 0.000 0.004 0.084 0.012
#> SRR1026934 2 0.2703 0.6847 0.000 0.876 0.000 0.028 0.016 0.080
#> SRR1026935 2 0.2778 0.6847 0.000 0.872 0.000 0.032 0.016 0.080
#> SRR1026936 4 0.7175 0.6789 0.216 0.136 0.000 0.468 0.004 0.176
#> SRR1026937 4 0.7087 0.6739 0.200 0.132 0.000 0.464 0.000 0.204
#> SRR1026938 2 0.5842 0.3816 0.100 0.620 0.000 0.204 0.000 0.076
#> SRR1026939 2 0.5685 0.4211 0.092 0.636 0.000 0.200 0.000 0.072
#> SRR1026940 1 0.2753 0.6587 0.872 0.004 0.000 0.092 0.016 0.016
#> SRR1026941 3 0.3183 0.6339 0.000 0.004 0.788 0.008 0.000 0.200
#> SRR1026942 1 0.1973 0.6706 0.916 0.012 0.004 0.064 0.004 0.000
#> SRR1026943 1 0.2232 0.6664 0.908 0.008 0.000 0.060 0.008 0.016
#> SRR1026944 1 0.3118 0.6366 0.832 0.008 0.012 0.140 0.008 0.000
#> SRR1026945 3 0.6320 0.5345 0.212 0.040 0.620 0.080 0.032 0.016
#> SRR1026947 2 0.2894 0.6810 0.000 0.864 0.000 0.020 0.028 0.088
#> SRR1026946 2 0.4952 0.6353 0.016 0.732 0.000 0.092 0.032 0.128
#> SRR1026948 2 0.3756 0.4917 0.000 0.736 0.000 0.008 0.240 0.016
#> SRR1026949 1 0.4557 0.6070 0.768 0.068 0.000 0.112 0.036 0.016
#> SRR1026950 1 0.2146 0.6452 0.880 0.000 0.000 0.116 0.004 0.000
#> SRR1026951 2 0.6049 0.3498 0.156 0.620 0.000 0.036 0.168 0.020
#> SRR1026952 1 0.1501 0.6608 0.924 0.000 0.000 0.076 0.000 0.000
#> SRR1026953 3 0.1293 0.7059 0.020 0.000 0.956 0.016 0.004 0.004
#> SRR1026954 1 0.4444 0.2709 0.576 0.024 0.000 0.396 0.004 0.000
#> SRR1026955 2 0.1757 0.6618 0.000 0.928 0.000 0.008 0.052 0.012
#> SRR1026956 1 0.3619 0.4584 0.680 0.004 0.000 0.316 0.000 0.000
#> SRR1026957 2 0.4541 0.6687 0.016 0.768 0.000 0.072 0.032 0.112
#> SRR1026958 1 0.1524 0.6687 0.932 0.000 0.000 0.060 0.008 0.000
#> SRR1026959 2 0.3213 0.5332 0.000 0.784 0.000 0.008 0.204 0.004
#> SRR1026960 1 0.4586 0.4154 0.640 0.036 0.000 0.312 0.000 0.012
#> SRR1026961 1 0.6375 -0.3735 0.416 0.144 0.000 0.404 0.004 0.032
#> SRR1026962 1 0.2543 0.6488 0.868 0.000 0.004 0.116 0.008 0.004
#> SRR1026963 1 0.2746 0.6648 0.868 0.000 0.020 0.100 0.004 0.008
#> SRR1026964 4 0.7298 0.6438 0.292 0.092 0.000 0.380 0.004 0.232
#> SRR1026965 4 0.7312 0.6450 0.288 0.096 0.000 0.384 0.004 0.228
#> SRR1026966 3 0.4720 0.4538 0.000 0.044 0.640 0.008 0.004 0.304
#> SRR1026967 3 0.4642 0.4701 0.000 0.040 0.648 0.008 0.004 0.300
#> SRR1026968 1 0.4879 0.1809 0.548 0.028 0.000 0.404 0.000 0.020
#> SRR1026969 1 0.3668 0.4524 0.668 0.004 0.000 0.328 0.000 0.000
#> SRR1026970 1 0.3547 0.4893 0.696 0.004 0.000 0.300 0.000 0.000
#> SRR1026971 1 0.3601 0.4751 0.684 0.004 0.000 0.312 0.000 0.000
#> SRR1026972 1 0.5231 0.2469 0.576 0.032 0.000 0.352 0.004 0.036
#> SRR1026973 1 0.5269 0.2488 0.580 0.032 0.000 0.344 0.004 0.040
#> SRR1026974 1 0.3584 0.4678 0.688 0.004 0.000 0.308 0.000 0.000
#> SRR1026975 1 0.3565 0.4719 0.692 0.004 0.000 0.304 0.000 0.000
#> SRR1026976 1 0.4481 0.2033 0.556 0.024 0.000 0.416 0.000 0.004
#> SRR1026977 1 0.4402 0.2261 0.564 0.020 0.000 0.412 0.000 0.004
#> SRR1026978 2 0.6655 0.0489 0.280 0.492 0.000 0.028 0.180 0.020
#> SRR1026979 3 0.2212 0.6920 0.000 0.000 0.880 0.008 0.000 0.112
#> SRR1026980 2 0.4767 0.1620 0.016 0.584 0.000 0.012 0.376 0.012
#> SRR1026981 5 0.6300 0.4421 0.004 0.260 0.064 0.004 0.564 0.104
#> SRR1026982 1 0.4302 0.3468 0.608 0.020 0.000 0.368 0.000 0.004
#> SRR1026983 1 0.4178 0.3482 0.608 0.020 0.000 0.372 0.000 0.000
#> SRR1026984 1 0.5815 -0.0261 0.492 0.124 0.000 0.368 0.000 0.016
#> SRR1026985 1 0.5817 -0.0672 0.484 0.112 0.000 0.384 0.000 0.020
#> SRR1026986 1 0.3828 0.6332 0.800 0.024 0.000 0.024 0.140 0.012
#> SRR1026987 1 0.2940 0.6620 0.860 0.008 0.000 0.024 0.100 0.008
#> SRR1026988 1 0.5753 0.5581 0.676 0.036 0.112 0.144 0.028 0.004
#> SRR1026989 3 0.4689 0.6769 0.040 0.092 0.776 0.016 0.012 0.064
#> SRR1026990 1 0.4014 0.4141 0.640 0.004 0.000 0.348 0.004 0.004
#> SRR1026991 3 0.5397 0.5605 0.100 0.008 0.696 0.068 0.000 0.128
#> SRR1026992 1 0.0551 0.6734 0.984 0.008 0.000 0.004 0.004 0.000
#> SRR1026993 1 0.4367 0.6145 0.800 0.060 0.020 0.072 0.040 0.008
#> SRR1026994 5 0.4274 0.4465 0.004 0.336 0.000 0.000 0.636 0.024
#> SRR1026995 2 0.6176 0.0503 0.076 0.536 0.004 0.032 0.332 0.020
#> SRR1026996 1 0.6093 -0.2929 0.436 0.036 0.000 0.416 0.000 0.112
#> SRR1026997 1 0.5809 -0.1740 0.464 0.028 0.000 0.416 0.000 0.092
#> SRR1026998 6 0.4212 0.5836 0.000 0.068 0.124 0.016 0.012 0.780
#> SRR1026999 6 0.4331 0.5807 0.000 0.068 0.136 0.016 0.012 0.768
#> SRR1027000 5 0.3351 0.5848 0.152 0.036 0.000 0.000 0.808 0.004
#> SRR1027001 3 0.5811 0.4114 0.296 0.032 0.584 0.076 0.004 0.008
#> SRR1027002 5 0.6652 0.2817 0.204 0.380 0.000 0.016 0.384 0.016
#> SRR1027003 2 0.5074 0.1629 0.016 0.588 0.000 0.032 0.352 0.012
#> SRR1027004 1 0.6675 0.5033 0.628 0.064 0.088 0.144 0.060 0.016
#> SRR1027005 3 0.6116 0.5004 0.000 0.036 0.572 0.004 0.176 0.212
#> SRR1027006 1 0.3735 0.6554 0.824 0.020 0.048 0.092 0.016 0.000
#> SRR1027007 1 0.6250 0.1283 0.492 0.376 0.008 0.084 0.020 0.020
#> SRR1027008 1 0.3729 0.4813 0.692 0.000 0.000 0.012 0.296 0.000
#> SRR1027009 3 0.0806 0.7139 0.000 0.000 0.972 0.008 0.000 0.020
#> SRR1027010 1 0.6757 0.2345 0.484 0.000 0.240 0.012 0.224 0.040
#> SRR1027011 3 0.3276 0.6838 0.000 0.000 0.816 0.000 0.132 0.052
#> SRR1177668 1 0.5411 0.4854 0.672 0.004 0.208 0.052 0.056 0.008
#> SRR1177667 1 0.2920 0.6472 0.864 0.000 0.008 0.028 0.092 0.008
#> SRR1177669 1 0.6580 0.2584 0.500 0.000 0.148 0.032 0.300 0.020
#> SRR1177670 3 0.5060 0.5630 0.204 0.000 0.696 0.052 0.032 0.016
#> SRR1177671 5 0.4381 0.2133 0.000 0.456 0.000 0.004 0.524 0.016
#> SRR1177672 3 0.4740 0.5684 0.208 0.000 0.708 0.056 0.020 0.008
#> SRR1177673 5 0.5081 0.3096 0.408 0.004 0.020 0.024 0.540 0.004
#> SRR1177674 3 0.2740 0.6874 0.056 0.000 0.884 0.040 0.012 0.008
#> SRR1177675 1 0.1819 0.6660 0.932 0.000 0.008 0.024 0.032 0.004
#> SRR1177676 1 0.7142 0.0287 0.444 0.000 0.276 0.056 0.204 0.020
#> SRR1177677 5 0.4667 0.4930 0.328 0.032 0.000 0.016 0.624 0.000
#> SRR1177678 1 0.2973 0.6475 0.868 0.000 0.012 0.040 0.072 0.008
#> SRR1177679 5 0.3916 0.5243 0.008 0.276 0.000 0.004 0.704 0.008
#> SRR1177680 5 0.3817 0.5674 0.016 0.228 0.000 0.008 0.744 0.004
#> SRR1177681 5 0.4474 0.3378 0.412 0.024 0.000 0.004 0.560 0.000
#> SRR1177682 5 0.3752 0.5939 0.168 0.052 0.000 0.000 0.776 0.004
#> SRR1177683 5 0.4352 0.3492 0.004 0.400 0.000 0.004 0.580 0.012
#> SRR1177684 5 0.4462 0.3363 0.004 0.404 0.000 0.008 0.572 0.012
#> SRR1177685 1 0.3069 0.6437 0.856 0.000 0.012 0.028 0.096 0.008
#> SRR1177686 3 0.6607 0.2815 0.000 0.024 0.408 0.004 0.236 0.328
#> SRR1177687 5 0.3973 0.5735 0.016 0.208 0.000 0.008 0.752 0.016
#> SRR1177688 5 0.4572 0.4485 0.348 0.012 0.000 0.020 0.616 0.004
#> SRR1177689 5 0.4140 0.6227 0.152 0.104 0.000 0.000 0.744 0.000
#> SRR1177690 1 0.4005 0.5262 0.732 0.008 0.004 0.024 0.232 0.000
#> SRR1177691 5 0.3753 0.5103 0.004 0.292 0.000 0.000 0.696 0.008
#> SRR1177692 5 0.4115 0.4198 0.004 0.360 0.000 0.000 0.624 0.012
#> SRR1177693 2 0.1952 0.6722 0.000 0.920 0.000 0.052 0.016 0.012
#> SRR1177694 2 0.3700 0.6615 0.004 0.796 0.004 0.152 0.004 0.040
#> SRR1177695 5 0.3481 0.5777 0.192 0.032 0.000 0.000 0.776 0.000
#> SRR1177697 1 0.0862 0.6738 0.972 0.008 0.004 0.016 0.000 0.000
#> SRR1177696 5 0.6490 0.5540 0.140 0.120 0.056 0.040 0.632 0.012
#> SRR1177698 3 0.4193 0.6368 0.008 0.000 0.724 0.000 0.220 0.048
#> SRR1177700 1 0.3383 0.5349 0.728 0.000 0.000 0.268 0.004 0.000
#> SRR1177701 1 0.3265 0.5505 0.748 0.000 0.000 0.248 0.000 0.004
#> SRR1177702 2 0.6176 0.3723 0.000 0.540 0.000 0.292 0.072 0.096
#> SRR1177703 1 0.3023 0.5821 0.784 0.004 0.000 0.212 0.000 0.000
#> SRR1177704 2 0.4042 0.6145 0.000 0.784 0.000 0.132 0.040 0.044
#> SRR1177705 1 0.1655 0.6696 0.932 0.000 0.000 0.052 0.008 0.008
#> SRR1177706 5 0.4335 0.2726 0.004 0.448 0.000 0.008 0.536 0.004
#> SRR1177707 1 0.3370 0.5780 0.772 0.000 0.000 0.212 0.004 0.012
#> SRR1177708 1 0.3262 0.6010 0.788 0.000 0.000 0.196 0.008 0.008
#> SRR1177709 1 0.3014 0.6135 0.804 0.000 0.000 0.012 0.184 0.000
#> SRR1177710 1 0.6164 0.4529 0.608 0.000 0.128 0.012 0.192 0.060
#> SRR1177711 1 0.1856 0.6711 0.932 0.000 0.008 0.028 0.024 0.008
#> SRR1177712 2 0.3827 0.6259 0.012 0.812 0.000 0.112 0.040 0.024
#> SRR1177714 2 0.3626 0.5642 0.000 0.784 0.000 0.012 0.176 0.028
#> SRR1177713 2 0.5427 0.5385 0.000 0.660 0.000 0.188 0.052 0.100
#> SRR1177715 5 0.3044 0.6066 0.048 0.116 0.000 0.000 0.836 0.000
#> SRR1177716 3 0.3728 0.6766 0.000 0.080 0.812 0.008 0.008 0.092
#> SRR1177717 1 0.0692 0.6736 0.976 0.000 0.000 0.004 0.020 0.000
#> SRR1177718 1 0.2119 0.6661 0.920 0.008 0.016 0.044 0.008 0.004
#> SRR1177719 1 0.2969 0.5746 0.776 0.000 0.000 0.224 0.000 0.000
#> SRR1177720 6 0.5829 0.1474 0.000 0.168 0.000 0.008 0.312 0.512
#> SRR1177721 2 0.4113 0.3755 0.000 0.668 0.000 0.008 0.308 0.016
#> SRR1177722 2 0.1952 0.6616 0.000 0.920 0.000 0.012 0.052 0.016
#> SRR1177723 1 0.2913 0.6427 0.848 0.000 0.000 0.032 0.116 0.004
#> SRR1177725 1 0.1204 0.6692 0.944 0.000 0.000 0.056 0.000 0.000
#> SRR1177724 1 0.1694 0.6691 0.940 0.004 0.004 0.024 0.024 0.004
#> SRR1177726 3 0.0767 0.7094 0.008 0.000 0.976 0.012 0.000 0.004
#> SRR1177727 1 0.2956 0.6637 0.860 0.000 0.052 0.080 0.004 0.004
#> SRR1177728 3 0.0806 0.7139 0.000 0.000 0.972 0.008 0.000 0.020
#> SRR1177729 1 0.0622 0.6739 0.980 0.000 0.000 0.012 0.008 0.000
#> SRR1177730 1 0.6060 -0.0597 0.460 0.004 0.428 0.056 0.040 0.012
#> SRR1177731 1 0.4659 0.5901 0.752 0.000 0.060 0.048 0.132 0.008
#> SRR1177732 1 0.4769 0.4649 0.656 0.000 0.284 0.040 0.012 0.008
#> SRR1177733 1 0.2356 0.6661 0.884 0.000 0.000 0.016 0.096 0.004
#> SRR1177734 1 0.1149 0.6740 0.960 0.000 0.000 0.024 0.008 0.008
#> SRR1177735 1 0.3346 0.6557 0.856 0.040 0.000 0.056 0.032 0.016
#> SRR1177736 1 0.1720 0.6752 0.928 0.000 0.000 0.032 0.040 0.000
#> SRR1177737 2 0.3922 0.6515 0.040 0.808 0.000 0.112 0.020 0.020
#> SRR1177738 2 0.6933 0.2292 0.000 0.512 0.064 0.216 0.020 0.188
#> SRR1177739 1 0.2152 0.6705 0.904 0.000 0.000 0.024 0.068 0.004
#> SRR1177740 1 0.2145 0.6730 0.920 0.012 0.000 0.020 0.032 0.016
#> SRR1177741 1 0.1749 0.6658 0.936 0.000 0.016 0.032 0.012 0.004
#> SRR1177742 3 0.1812 0.7043 0.000 0.000 0.912 0.008 0.000 0.080
#> SRR1177743 1 0.5791 0.4593 0.636 0.000 0.168 0.040 0.148 0.008
#> SRR1177744 1 0.3588 0.6247 0.800 0.000 0.148 0.044 0.004 0.004
#> SRR1177745 2 0.4533 0.1618 0.000 0.588 0.000 0.016 0.380 0.016
#> SRR1177746 5 0.3739 0.5820 0.020 0.192 0.000 0.004 0.772 0.012
#> SRR1177747 1 0.7266 -0.1999 0.336 0.000 0.312 0.076 0.004 0.272
#> SRR1177748 3 0.1007 0.7118 0.000 0.000 0.956 0.000 0.000 0.044
#> SRR1177749 1 0.1579 0.6683 0.944 0.000 0.008 0.024 0.020 0.004
#> SRR1177750 1 0.4483 0.3933 0.652 0.008 0.004 0.020 0.312 0.004
#> SRR1177751 5 0.4947 0.3824 0.396 0.048 0.000 0.004 0.548 0.004
#> SRR1177752 1 0.2292 0.6612 0.908 0.008 0.008 0.028 0.048 0.000
#> SRR1177753 1 0.2531 0.6497 0.860 0.000 0.004 0.008 0.128 0.000
#> SRR1177754 1 0.3419 0.6302 0.812 0.000 0.008 0.028 0.148 0.004
#> SRR1177755 1 0.1799 0.6737 0.936 0.012 0.004 0.032 0.004 0.012
#> SRR1177756 1 0.4500 0.5779 0.768 0.136 0.004 0.020 0.052 0.020
Heatmaps for the consensus matrix. It visualizes the probability of two samples to be in a same group.
consensus_heatmap(res, k = 2)
consensus_heatmap(res, k = 3)
consensus_heatmap(res, k = 4)
consensus_heatmap(res, k = 5)
consensus_heatmap(res, k = 6)
Heatmaps for the membership of samples in all partitions to see how consistent they are:
membership_heatmap(res, k = 2)
membership_heatmap(res, k = 3)
membership_heatmap(res, k = 4)
membership_heatmap(res, k = 5)
membership_heatmap(res, k = 6)
As soon as we have had the classes for columns, we can look for signatures which are significantly different between classes which can be candidate marks for certain classes. Following are the heatmaps for signatures.
Signature heatmaps where rows are scaled:
get_signatures(res, k = 2)
get_signatures(res, k = 3)
get_signatures(res, k = 4)
get_signatures(res, k = 5)
get_signatures(res, k = 6)
Signature heatmaps where rows are not scaled:
get_signatures(res, k = 2, scale_rows = FALSE)
get_signatures(res, k = 3, scale_rows = FALSE)
get_signatures(res, k = 4, scale_rows = FALSE)
get_signatures(res, k = 5, scale_rows = FALSE)
get_signatures(res, k = 6, scale_rows = FALSE)
Compare the overlap of signatures from different k:
compare_signatures(res)
get_signature() returns a data frame invisibly. TO get the list of signatures, the function
call should be assigned to a variable explicitly. In following code, if plot argument is set
to FALSE, no heatmap is plotted while only the differential analysis is performed.
# code only for demonstration
tb = get_signature(res, k = ..., plot = FALSE)
An example of the output of tb is:
#> which_row fdr mean_1 mean_2 scaled_mean_1 scaled_mean_2 km
#> 1 38 0.042760348 8.373488 9.131774 -0.5533452 0.5164555 1
#> 2 40 0.018707592 7.106213 8.469186 -0.6173731 0.5762149 1
#> 3 55 0.019134737 10.221463 11.207825 -0.6159697 0.5749050 1
#> 4 59 0.006059896 5.921854 7.869574 -0.6899429 0.6439467 1
#> 5 60 0.018055526 8.928898 10.211722 -0.6204761 0.5791110 1
#> 6 98 0.009384629 15.714769 14.887706 0.6635654 -0.6193277 2
...
The columns in tb are:
which_row: row indices corresponding to the input matrix.fdr: FDR for the differential test. mean_x: The mean value in group x.scaled_mean_x: The mean value in group x after rows are scaled.km: Row groups if k-means clustering is applied to rows.UMAP plot which shows how samples are separated.
dimension_reduction(res, k = 2, method = "UMAP")
dimension_reduction(res, k = 3, method = "UMAP")
dimension_reduction(res, k = 4, method = "UMAP")
dimension_reduction(res, k = 5, method = "UMAP")
dimension_reduction(res, k = 6, method = "UMAP")
Following heatmap shows how subgroups are split when increasing k:
collect_classes(res)
If matrix rows can be associated to genes, consider to use functional_enrichment(res,
...) to perform function enrichment for the signature genes. See this vignette for more detailed explanations.
sessionInfo()
#> R version 3.6.0 (2019-04-26)
#> Platform: x86_64-pc-linux-gnu (64-bit)
#> Running under: CentOS Linux 7 (Core)
#>
#> Matrix products: default
#> BLAS: /usr/lib64/libblas.so.3.4.2
#> LAPACK: /usr/lib64/liblapack.so.3.4.2
#>
#> locale:
#> [1] LC_CTYPE=en_GB.UTF-8 LC_NUMERIC=C LC_TIME=en_GB.UTF-8
#> [4] LC_COLLATE=en_GB.UTF-8 LC_MONETARY=en_GB.UTF-8 LC_MESSAGES=en_GB.UTF-8
#> [7] LC_PAPER=en_GB.UTF-8 LC_NAME=C LC_ADDRESS=C
#> [10] LC_TELEPHONE=C LC_MEASUREMENT=en_GB.UTF-8 LC_IDENTIFICATION=C
#>
#> attached base packages:
#> [1] grid stats graphics grDevices utils datasets methods base
#>
#> other attached packages:
#> [1] genefilter_1.66.0 ComplexHeatmap_2.3.1 markdown_1.1 knitr_1.26
#> [5] GetoptLong_0.1.7 cola_1.3.2
#>
#> loaded via a namespace (and not attached):
#> [1] circlize_0.4.8 shape_1.4.4 xfun_0.11 slam_0.1-46
#> [5] lattice_0.20-38 splines_3.6.0 colorspace_1.4-1 vctrs_0.2.0
#> [9] stats4_3.6.0 blob_1.2.0 XML_3.98-1.20 survival_2.44-1.1
#> [13] rlang_0.4.2 pillar_1.4.2 DBI_1.0.0 BiocGenerics_0.30.0
#> [17] bit64_0.9-7 RColorBrewer_1.1-2 matrixStats_0.55.0 stringr_1.4.0
#> [21] GlobalOptions_0.1.1 evaluate_0.14 memoise_1.1.0 Biobase_2.44.0
#> [25] IRanges_2.18.3 parallel_3.6.0 AnnotationDbi_1.46.1 highr_0.8
#> [29] Rcpp_1.0.3 xtable_1.8-4 backports_1.1.5 S4Vectors_0.22.1
#> [33] annotate_1.62.0 skmeans_0.2-11 bit_1.1-14 microbenchmark_1.4-7
#> [37] brew_1.0-6 impute_1.58.0 rjson_0.2.20 png_0.1-7
#> [41] digest_0.6.23 stringi_1.4.3 polyclip_1.10-0 clue_0.3-57
#> [45] tools_3.6.0 bitops_1.0-6 magrittr_1.5 eulerr_6.0.0
#> [49] RCurl_1.95-4.12 RSQLite_2.1.4 tibble_2.1.3 cluster_2.1.0
#> [53] crayon_1.3.4 pkgconfig_2.0.3 zeallot_0.1.0 Matrix_1.2-17
#> [57] xml2_1.2.2 httr_1.4.1 R6_2.4.1 mclust_5.4.5
#> [61] compiler_3.6.0