
R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/COADREAD-TP/4432153/COADREAD-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/COADREAD-TP/4396210/COADREAD-TP.clin.merged.picked.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=.05", "-cQ=0.25", "-MF=ALL", "-oT=COADREAD-TP", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"             "-oT=COADREAD-TP"
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/COADREAD-TP/4396210/COADREAD-TP.clin.merged.picked.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/COADREAD-TP/4432153/COADREAD-TP.mergedcluster.txt"

nPatients in clinical file=1189, in cluster file=602, common to both=596
[1]  12 596
[1] "MRNA_CNMF"
[1] 3
 1  2  3  4 
46 62 72 42 
 1  2  3  4 
46 62 72 42 
[1] "MRNA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
45 51 66 60 
 1  2  3  4 
45 51 66 60 
[1] "CN_CNMF"
[1] 3
  1   2   3   4 
186 238 145  14 
  1   2   3   4 
186 238 145  14 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3 
156 114  91 
  1   2   3 
156 114  91 
[1] "RPPA_CNMF"
[1] 3
  1   2   3   4 
100 179  42 140 
  1   2   3   4 
100 179  42 140 
[1] "RPPA_CHIERARCHICAL"
[1] 3
  1   2   3   4 
 79 250  94  38 
  1   2   3   4 
 79 250  94  38 
[1] "MRNASEQ_CNMF"
[1] 3
  1   2   3 
 94 104 112 
  1   2   3 
 94 104 112 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 83  93 134 
  1   2   3 
 83  93 134 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
212  96 241 
  1   2   3 
212  96 241 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 38 253 258 
  1   2   3 
 38 253 258 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
  1   2   3 
101 109  85 
  1   2   3 
101 109  85 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2   3   4 
 34 105 115  41 
  1   2   3   4 
 34 105 115  41 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "PRIMARYSITEOFDESEASE"                  
 [6] "NEOPLASM.DISEASESTAGE"                 
 [7] "PATHOLOGY.T.STAGE"                     
 [8] "PATHOLOGY.N.STAGE"                     
 [9] "PATHOLOGY.M.STAGE"                     
[10] "DCCUPLOADDATE"                         
[11] "GENDER"                                
[12] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[13] "DAYSTOLASTKNOWNALIVE"                  
[14] "HISTOLOGICALTYPE"                      
[15] "RADIATIONS.RADIATION.REGIMENINDICATION"
[16] "COMPLETENESS.OF.RESECTION"             
[17] "NUMBER.OF.LYMPH.NODES"                 
[18] "BATCHNUMBER"                           

Input Data has 18 rows and 596 columns.

[1] "Batch" "18"   
[1] "Last Follow UP"
TCGA-A6-2671 TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2675 TCGA-A6-2676 TCGA-A6-2677 
        1125          696          761          846          711          541 
TCGA-A6-2678 TCGA-A6-2679 TCGA-A6-2680 TCGA-A6-2681 TCGA-A6-2682 TCGA-A6-2683 
         781          778          704          671           NA          504 
TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-2686 TCGA-A6-3807 TCGA-A6-3808 TCGA-A6-3809 
         387          464          488          332          278          313 
TCGA-A6-3810 TCGA-A6-4105 TCGA-A6-4107 TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5659 
         246           NA          231          462          367          286 
TCGA-A6-5660 TCGA-A6-5661 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5665 TCGA-A6-5666 
         342          306          453          362          404          719 
TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6141 TCGA-A6-6142 
         320          348          279          356          254          368 
TCGA-A6-6648 TCGA-A6-6649 TCGA-A6-6650 TCGA-A6-6651 TCGA-A6-6652 TCGA-A6-6653 
         344          328          277          258          455          282 
TCGA-A6-6654 TCGA-A6-6780 TCGA-A6-6781 TCGA-A6-6782 TCGA-A6-A565 TCGA-A6-A566 
         399          354          293          189           NA           NA 
TCGA-A6-A567 TCGA-A6-A56B TCGA-A6-A5ZU TCGA-AA-3488 TCGA-AA-3489 TCGA-AA-3492 
          NA         1595          116           NA           31           NA 
TCGA-AA-3494 TCGA-AA-3495 TCGA-AA-3496 TCGA-AA-3502 TCGA-AA-3506 TCGA-AA-3509 
          31           31           31           31           NA           NA 
TCGA-AA-3510 TCGA-AA-3511 TCGA-AA-3514 TCGA-AA-3516 TCGA-AA-3517 TCGA-AA-3518 
          31           NA           NA           NA           NA           31 
TCGA-AA-3519 TCGA-AA-3520 TCGA-AA-3521 TCGA-AA-3522 TCGA-AA-3524 TCGA-AA-3525 
          NA           NA           NA           NA           NA           NA 
TCGA-AA-3526 TCGA-AA-3527 TCGA-AA-3529 TCGA-AA-3530 TCGA-AA-3531 TCGA-AA-3532 
          30           NA           NA           NA           NA           NA 
TCGA-AA-3534 TCGA-AA-3538 TCGA-AA-3542 TCGA-AA-3543 TCGA-AA-3544 TCGA-AA-3548 
          NA           NA           NA           NA           NA           NA 
TCGA-AA-3549 TCGA-AA-3552 TCGA-AA-3553 TCGA-AA-3554 TCGA-AA-3555 TCGA-AA-3556 
          NA           NA           NA           NA           30           NA 
TCGA-AA-3558 TCGA-AA-3560 TCGA-AA-3561 TCGA-AA-3562 TCGA-AA-3655 TCGA-AA-3660 
          NA           NA           NA           31           NA           31 
TCGA-AA-3662 TCGA-AA-3663 TCGA-AA-3664 TCGA-AA-3666 TCGA-AA-3667 TCGA-AA-3672 
          NA           31           NA           NA           NA           NA 
TCGA-AA-3673 TCGA-AA-3675 TCGA-AA-3678 TCGA-AA-3679 TCGA-AA-3680 TCGA-AA-3681 
          NA           31           NA           30           NA           NA 
TCGA-AA-3684 TCGA-AA-3685 TCGA-AA-3688 TCGA-AA-3692 TCGA-AA-3693 TCGA-AA-3695 
          NA           30           NA           NA           NA           NA 
TCGA-AA-3696 TCGA-AA-3697 TCGA-AA-3710 TCGA-AA-3712 TCGA-AA-3713 TCGA-AA-3715 
          NA           29           31           NA           29           30 
TCGA-AA-3811 TCGA-AA-3812 TCGA-AA-3814 TCGA-AA-3815 TCGA-AA-3818 TCGA-AA-3819 
          30           NA           NA           NA           NA           NA 
TCGA-AA-3821 TCGA-AA-3831 TCGA-AA-3833 TCGA-AA-3837 TCGA-AA-3841 TCGA-AA-3842 
          NA           NA           NA           31           NA           31 
TCGA-AA-3844 TCGA-AA-3845 TCGA-AA-3846 TCGA-AA-3848 TCGA-AA-3850 TCGA-AA-3851 
          28           NA           30           30           NA           NA 
TCGA-AA-3852 TCGA-AA-3854 TCGA-AA-3855 TCGA-AA-3856 TCGA-AA-3858 TCGA-AA-3860 
          NA           31           NA           30           NA           NA 
TCGA-AA-3861 TCGA-AA-3862 TCGA-AA-3864 TCGA-AA-3866 TCGA-AA-3867 TCGA-AA-3869 
          NA           31           NA           NA           NA           NA 
TCGA-AA-3870 TCGA-AA-3872 TCGA-AA-3875 TCGA-AA-3877 TCGA-AA-3930 TCGA-AA-3939 
          NA           NA           NA           30           NA           30 
TCGA-AA-3941 TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3952 TCGA-AA-3955 
          31           30           30           31           NA           NA 
TCGA-AA-3956 TCGA-AA-3966 TCGA-AA-3968 TCGA-AA-3970 TCGA-AA-3971 TCGA-AA-3972 
          NA           61           NA           NA           NA           NA 
TCGA-AA-3973 TCGA-AA-3975 TCGA-AA-3976 TCGA-AA-3977 TCGA-AA-3979 TCGA-AA-3980 
          NA           30           NA           31           NA           NA 
TCGA-AA-3982 TCGA-AA-3984 TCGA-AA-3986 TCGA-AA-3989 TCGA-AA-3994 TCGA-AA-A004 
          NA           NA           30           NA           NA          424 
TCGA-AA-A00A TCGA-AA-A00D TCGA-AA-A00E TCGA-AA-A00F TCGA-AA-A00J TCGA-AA-A00K 
         548          578          913         1035          548          548 
TCGA-AA-A00L TCGA-AA-A00N TCGA-AA-A00O TCGA-AA-A00Q TCGA-AA-A00R TCGA-AA-A00U 
         517           NA          822          822           30          517 
TCGA-AA-A00W TCGA-AA-A00Z TCGA-AA-A010 TCGA-AA-A017 TCGA-AA-A01C TCGA-AA-A01D 
         456          669          638          457          457           30 
TCGA-AA-A01F TCGA-AA-A01G TCGA-AA-A01I TCGA-AA-A01K TCGA-AA-A01P TCGA-AA-A01Q 
         396          365          365          396           NA           31 
TCGA-AA-A01R TCGA-AA-A01S TCGA-AA-A01T TCGA-AA-A01V TCGA-AA-A01X TCGA-AA-A01Z 
        1065           31         1005         1065          791          638 
TCGA-AA-A022 TCGA-AA-A024 TCGA-AA-A029 TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H 
          NA           NA         1580           NA         1215           NA 
TCGA-AA-A02J TCGA-AA-A02K TCGA-AA-A02O TCGA-AA-A02R TCGA-AA-A02W TCGA-AA-A02Y 
          NA           NA           28           NA         1246         1215 
TCGA-AA-A03F TCGA-AA-A03J TCGA-AD-5900 TCGA-AD-6548 TCGA-AD-6888 TCGA-AD-6889 
          NA         1245            2            3          128         1719 
TCGA-AD-6890 TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6963 TCGA-AD-6964 
          24           22           47           31            3           30 
TCGA-AD-6965 TCGA-AD-A5EK TCGA-AM-5820 TCGA-AM-5821 TCGA-AU-3779 TCGA-AU-6004 
           6           13           14           28          440          203 
TCGA-AY-4070 TCGA-AY-4071 TCGA-AY-5543 TCGA-AY-6196 TCGA-AY-6197 TCGA-AY-6386 
          NA           NA          479            6          423          360 
TCGA-AY-A54L TCGA-AZ-4308 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4323 TCGA-AZ-4614 
         158         2288         1532         1776           NA           NA 
TCGA-AZ-4615 TCGA-AZ-4616 TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-5403 
        1002           NA         2549           NA         1977           NA 
TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6603 
        1868           NA           NA           NA           NA           NA 
TCGA-AZ-6605 TCGA-AZ-6606 TCGA-AZ-6607 TCGA-AZ-6608 TCGA-CA-5254 TCGA-CA-5255 
          NA           NA           NA           NA           68           93 
TCGA-CA-5256 TCGA-CA-5796 TCGA-CA-5797 TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6717 
          65           99          100            2            8           10 
TCGA-CA-6718 TCGA-CA-6719 TCGA-CK-4947 TCGA-CK-4948 TCGA-CK-4950 TCGA-CK-4951 
           3           41          533         3116         1226         2134 
TCGA-CK-4952 TCGA-CK-5912 TCGA-CK-5913 TCGA-CK-5914 TCGA-CK-5915 TCGA-CK-5916 
         474         1461          853          669           NA           NA 
TCGA-CK-6746 TCGA-CK-6747 TCGA-CK-6748 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4744 
          NA           89           61         3775          184          214 
TCGA-CM-4746 TCGA-CM-4747 TCGA-CM-4748 TCGA-CM-4750 TCGA-CM-4751 TCGA-CM-4752 
         699          244          214          244          607          123 
TCGA-CM-5341 TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-5861 
         579          488          668          579          487          457 
TCGA-CM-5862 TCGA-CM-5863 TCGA-CM-5864 TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6162 
          NA          457          457          518          457          365 
TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6167 TCGA-CM-6168 
         427          883          488          668          456          395 
TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6172 TCGA-CM-6674 TCGA-CM-6675 
         396          457          427          334          394          396 
TCGA-CM-6676 TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6679 TCGA-CM-6680 TCGA-D5-5537 
         337          337          335          306          366          456 
TCGA-D5-5538 TCGA-D5-5539 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6529 TCGA-D5-6530 
         373          596          411          350          614          621 
TCGA-D5-6531 TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6534 TCGA-D5-6535 TCGA-D5-6536 
         540          555           40          241          460          543 
TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6898 
         136          521          380          491          474          229 
TCGA-D5-6920 TCGA-D5-6922 TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6926 TCGA-D5-6927 
         377          308          377          434          275          287 
TCGA-D5-6928 TCGA-D5-6929 TCGA-D5-6930 TCGA-D5-6931 TCGA-D5-6932 TCGA-D5-7000 
         354          407           45          365           19          312 
TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D6 
        3641          743         1162         3974         2821         1518 
TCGA-DM-A1D7 TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA 
         404          383         4270          227         1348         4000 
TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A282 TCGA-DM-A285 TCGA-DM-A288 TCGA-DM-A28A 
        4126          235         4233          185          426          805 
TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28H TCGA-DM-A28K 
        2475         3648         1094         1849         3561         2988 
TCGA-DM-A28M TCGA-F4-6459 TCGA-F4-6460 TCGA-F4-6461 TCGA-F4-6463 TCGA-F4-6569 
        2895           NA          407           NA          414          408 
TCGA-F4-6570 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6806 TCGA-F4-6807 
          NA          298           46           16           20           16 
TCGA-F4-6808 TCGA-F4-6809 TCGA-F4-6854 TCGA-F4-6855 TCGA-F4-6856 TCGA-G4-6293 
          14           38           16          300           20         3275 
TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6299 TCGA-G4-6302 
          NA          254         2506           NA         2268         1309 
TCGA-G4-6303 TCGA-G4-6304 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6309 TCGA-G4-6310 
        1882         1631         1358         1674         1574         1372 
TCGA-G4-6311 TCGA-G4-6314 TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6320 TCGA-G4-6321 
        1199         1093         1117         1095          804          671 
TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6625 TCGA-G4-6626 
         792          419         1089          796         2791           NA 
TCGA-G4-6627 TCGA-G4-6628 TCGA-NH-A50T TCGA-NH-A50V TCGA-AF-2687 TCGA-AF-2689 
        1434         1611          125          154          734          546 
TCGA-AF-2690 TCGA-AF-2691 TCGA-AF-2692 TCGA-AF-2693 TCGA-AF-3400 TCGA-AF-3911 
         524          323          412          581          387          761 
TCGA-AF-3913 TCGA-AF-3914 TCGA-AF-4110 TCGA-AF-5654 TCGA-AF-6136 TCGA-AF-6655 
         316          390          441          257          467          355 
TCGA-AF-6672 TCGA-AG-3574 TCGA-AG-3575 TCGA-AG-3578 TCGA-AG-3580 TCGA-AG-3581 
         316           NA          365           NA           NA           31 
TCGA-AG-3582 TCGA-AG-3583 TCGA-AG-3584 TCGA-AG-3586 TCGA-AG-3587 TCGA-AG-3591 
          31           61           NA           31           31           NA 
TCGA-AG-3592 TCGA-AG-3593 TCGA-AG-3594 TCGA-AG-3598 TCGA-AG-3599 TCGA-AG-3600 
          NA           NA           NA           NA           30           NA 
TCGA-AG-3601 TCGA-AG-3602 TCGA-AG-3605 TCGA-AG-3608 TCGA-AG-3609 TCGA-AG-3611 
          NA           NA           30           NA           NA           NA 
TCGA-AG-3612 TCGA-AG-3725 TCGA-AG-3726 TCGA-AG-3727 TCGA-AG-3728 TCGA-AG-3731 
          NA           NA          242           29           NA           31 
TCGA-AG-3732 TCGA-AG-3742 TCGA-AG-3878 TCGA-AG-3881 TCGA-AG-3882 TCGA-AG-3883 
          NA           30           30           NA           NA           31 
TCGA-AG-3885 TCGA-AG-3887 TCGA-AG-3890 TCGA-AG-3891 TCGA-AG-3892 TCGA-AG-3893 
          NA           28           NA           30           31           30 
TCGA-AG-3894 TCGA-AG-3896 TCGA-AG-3898 TCGA-AG-3901 TCGA-AG-3902 TCGA-AG-3909 
          30           31           NA           NA           NA           NA 
TCGA-AG-3999 TCGA-AG-4001 TCGA-AG-4005 TCGA-AG-4007 TCGA-AG-4008 TCGA-AG-4015 
          31           31           NA           31           31           NA 
TCGA-AG-4021 TCGA-AG-4022 TCGA-AG-A002 TCGA-AG-A008 TCGA-AG-A00C TCGA-AG-A00H 
          NA           30          637          423          183          789 
TCGA-AG-A00Y TCGA-AG-A011 TCGA-AG-A014 TCGA-AG-A015 TCGA-AG-A016 TCGA-AG-A01J 
         700          518          484          396           31           31 
TCGA-AG-A01L TCGA-AG-A01N TCGA-AG-A01W TCGA-AG-A01Y TCGA-AG-A020 TCGA-AG-A023 
         365          365         2130         1946          334           NA 
TCGA-AG-A025 TCGA-AG-A026 TCGA-AG-A02G TCGA-AG-A02N TCGA-AG-A02X TCGA-AG-A032 
        1519           NA           NA         1884         1246         1156 
TCGA-AG-A036 TCGA-AH-6544 TCGA-AH-6547 TCGA-AH-6549 TCGA-AH-6643 TCGA-AH-6644 
        2192           15           44            6           21           22 
TCGA-AH-6897 TCGA-AH-6903 TCGA-BM-6198 TCGA-CI-6619 TCGA-CI-6620 TCGA-CI-6621 
         140           55          310          183          183           NA 
TCGA-CI-6622 TCGA-CI-6623 TCGA-CI-6624 TCGA-CL-4957 TCGA-CL-5917 TCGA-CL-5918 
         211          285          143          425         1825          243 
TCGA-DC-4745 TCGA-DC-4749 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6154 TCGA-DC-6155 
         334          335          457          395          365          426 
TCGA-DC-6156 TCGA-DC-6157 TCGA-DC-6158 TCGA-DC-6160 TCGA-DC-6681 TCGA-DC-6682 
         457         1095          212          914          394          396 
TCGA-DC-6683 TCGA-DT-5265 TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DD TCGA-DY-A1DE 
         306          161         3845         1257         1741         3932 
TCGA-DY-A1DF TCGA-DY-A1DG TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EF-5831 TCGA-EI-6506 
         734         1566          991           15           73          625 
TCGA-EI-6507 TCGA-EI-6508 TCGA-EI-6509 TCGA-EI-6510 TCGA-EI-6511 TCGA-EI-6512 
         607          636          517          556          482          538 
TCGA-EI-6513 TCGA-EI-6514 TCGA-EI-6881 TCGA-EI-6882 TCGA-EI-6883 TCGA-EI-6884 
         497          496          498          262          350          328 
TCGA-EI-6885 TCGA-EI-6917 TCGA-EI-7002 TCGA-EI-7004 TCGA-F5-6464 TCGA-F5-6465 
         414          531          364          257           NA          103 
TCGA-F5-6571 TCGA-F5-6702 TCGA-F5-6810 TCGA-F5-6811 TCGA-F5-6812 TCGA-F5-6813 
          26           66           12           31           20           21 
TCGA-F5-6814 TCGA-F5-6861 TCGA-F5-6863 TCGA-F5-6864 TCGA-G5-6233 TCGA-G5-6235 
          16           33           23           14           NA         1696 
TCGA-G5-6572 TCGA-G5-6641 
          NA          804 
Variable 1:'AGE':	nDistinctValues=59,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=74,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=276,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'NEOPLASM.DISEASESTAGE':	nDistinctValues=13,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY.T.STAGE':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY.N.STAGE':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'PATHOLOGY.M.STAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=16,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 13:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=29,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 14:'HISTOLOGICAL.TYPE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=31,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'BATCH.NUMBER':	nDistinctValues=29,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "PRIMARY.SITE.OF.DISEASE"               
 [3] "NEOPLASM.DISEASESTAGE"                 
 [4] "PATHOLOGY.T.STAGE"                     
 [5] "PATHOLOGY.N.STAGE"                     
 [6] "PATHOLOGY.M.STAGE"                     
 [7] "GENDER"                                
 [8] "HISTOLOGICAL.TYPE"                     
 [9] "RADIATIONS.RADIATION.REGIMENINDICATION"
[10] "COMPLETENESS.OF.RESECTION"             
[11] "NUMBER.OF.LYMPH.NODES"                 
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "4"          
[1] "PATHOLOGY.N" "5"          
Output Data has 596 columns, 1 survival variables, and 11 non-survival variables.
AGE, nv=59, binary=FALSE, numeric=TRUE
PRIMARY.SITE.OF.DISEASE, nv=2, binary=FALSE, numeric=FALSE
NEOPLASM.DISEASESTAGE, nv=13, binary=FALSE, numeric=FALSE
PATHOLOGY.T.STAGE, nv=5, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T0  T1  T2  T3  T4 
  1  19 105 407  62 
[1] "table(vv)"
vv
T0+T1    T2    T3    T4 
   20   105   407    62 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
 T0  T1  T2  T3  T4 
  1  19 105 407  62 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


T0+T1    T2    T3    T4 
   20   105   407    62 
PATHOLOGY.N.STAGE, nv=3, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2 
338 145 109 
[1] "table(vv)"
vv
 N0  N1  N2 
338 145 109 
$ClinVariableName
[1] "PATHOLOGY.N.STAGE"

$Table
vv
 N0  N1  N2 
338 145 109 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


 N0  N1  N2 
338 145 109 
PATHOLOGY.M.STAGE, nv=5, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL.TYPE, nv=4, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
COMPLETENESS.OF.RESECTION, nv=4, binary=FALSE, numeric=FALSE
NUMBER.OF.LYMPH.NODES, nv=31, binary=FALSE, numeric=TRUE

Clustering(1) Variable = MRNA_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 25  1
  subtype2 23 12
  subtype3 30  2
  subtype4 24  2
subtype1 subtype2 subtype3 subtype4 
      26       35       32       26 
subtype1 subtype2 subtype3 subtype4 
       1       12        2        2 
$subtype1
TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-3808 TCGA-A6-3809 TCGA-A6-3810 
       22.88        25.02        23.38         9.14        10.29         8.09 
TCGA-AA-3710 TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3842 TCGA-AA-3877 TCGA-AA-3947 
        1.02         0.99         0.99         1.02         0.99         0.99 
TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3966 TCGA-AA-3977 TCGA-AA-A00A TCGA-AA-A00D 
        0.99         1.02         2.01         1.02        18.02        19.00 
TCGA-AA-A00E TCGA-AA-A00R TCGA-AA-A01D TCGA-AA-A02R TCGA-AF-3400 TCGA-AG-3575 
       30.02         0.99         0.99        22.03        12.72        12.00 
TCGA-AG-3878 TCGA-AG-3883 
        0.99         1.02 

$subtype2
TCGA-A6-2677 TCGA-A6-2683 TCGA-A6-3807 TCGA-AA-3666 TCGA-AA-3837 TCGA-AA-3952 
       17.79        16.57        10.92         2.01         1.02         2.01 
TCGA-AA-A00L TCGA-AA-A00O TCGA-AA-A00Q TCGA-AA-A00Z TCGA-AA-A017 TCGA-AA-A01C 
       17.00        27.02        27.02        21.99        15.02        15.02 
TCGA-AA-A01K TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H TCGA-AA-A02J TCGA-AA-A02W 
       13.02         2.93        39.95         2.01         5.03        40.96 
TCGA-AY-4070 TCGA-AF-3913 TCGA-AG-3726 TCGA-AG-3893 TCGA-AG-3894 TCGA-AG-3999 
       16.31        10.39         7.96         0.99         0.99         1.02 
TCGA-AG-4001 TCGA-AG-4007 TCGA-AG-4008 TCGA-AG-A014 TCGA-AG-A016 TCGA-AG-A01J 
        1.02         1.02         1.02        15.91         1.02         1.02 
TCGA-AG-A01N TCGA-AG-A023 TCGA-AG-A026 TCGA-AG-A02G TCGA-AG-A032 
       12.00        51.98         1.94        38.93        38.01 

$subtype3
TCGA-A6-2678 TCGA-AA-3562 TCGA-AA-3679 TCGA-AA-3685 TCGA-AA-3818 TCGA-AA-3844 
       25.68         1.02         0.99         0.99         0.99         0.92 
TCGA-AA-3846 TCGA-AA-3848 TCGA-AA-3856 TCGA-AA-3862 TCGA-AA-3939 TCGA-AA-3975 
        0.99         0.99         0.99         1.02         0.99         0.99 
TCGA-AA-3986 TCGA-AA-A00F TCGA-AA-A00W TCGA-AY-4071 TCGA-AF-2691 TCGA-AF-2692 
        0.99        34.03        14.99         0.95        10.62        13.55 
TCGA-AG-3581 TCGA-AG-3582 TCGA-AG-3583 TCGA-AG-3586 TCGA-AG-3587 TCGA-AG-3599 
        1.02         1.02         2.01         1.02         1.02         0.99 
TCGA-AG-3605 TCGA-AG-3727 TCGA-AG-3896 TCGA-AG-A00C TCGA-AG-A00Y TCGA-AG-A011 
        0.99         0.95         1.02         6.02        23.01        17.03 
TCGA-AG-A01L TCGA-AG-A025 
       12.00        49.94 

$subtype4
TCGA-AA-3518 TCGA-AA-3526 TCGA-AA-3555 TCGA-AA-3675 TCGA-AA-3854 TCGA-AA-3941 
        1.02         0.99         0.99         1.02         1.02         1.02 
TCGA-AA-A004 TCGA-AA-A00J TCGA-AA-A00K TCGA-AA-A00N TCGA-AA-A00U TCGA-AA-A010 
       13.94        18.02        18.02         4.01        17.00        20.98 
TCGA-AA-A01F TCGA-AA-A01G TCGA-AA-A01I TCGA-AA-A01Q TCGA-AA-A024 TCGA-AA-A029 
       13.02        12.00        12.00         1.02        39.06        51.95 
TCGA-AF-2689 TCGA-AG-3887 TCGA-AG-3892 TCGA-AG-A002 TCGA-AG-A008 TCGA-AG-A00H 
       17.95         0.92         1.02        20.94        13.91        25.94 
TCGA-AG-A015 TCGA-AG-A02X 
       13.02        40.96 

subtype1 subtype2 subtype3 subtype4 
    0.99     0.99     0.92     0.92 
subtype1 subtype2 subtype3 subtype4 
   30.02    51.98    49.94    51.95 
subtype1 subtype2 subtype3 subtype4 
   1.515   10.920    1.020   13.020 
[1] "1.0 - 30.0 (1.5)"  "1.0 - 52.0 (10.9)" "0.9 - 49.9 (1.0)" 
[4] "0.9 - 52.0 (13.0)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype4"
 [13] "subtype4" "subtype3" "subtype2" "subtype4" "subtype3" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype4" "subtype1" "subtype1" "subtype1"
 [37] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype4"
 [43] "subtype1" "subtype1" "subtype1" "subtype3" "subtype4" "subtype4"
 [49] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype4"
 [55] "subtype3" "subtype2" "subtype4" "subtype2" "subtype2" "subtype1"
 [61] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
 [67] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [73] "subtype2" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [79] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype4" "subtype4" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype4"
[103] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype2"
[109] "subtype4" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[115] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype4"
 [13] "subtype4" "subtype3" "subtype2" "subtype4" "subtype3" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype4" "subtype1" "subtype1" "subtype1"
 [37] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype4"
 [43] "subtype1" "subtype1" "subtype1" "subtype3" "subtype4" "subtype4"
 [49] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype4"
 [55] "subtype3" "subtype2" "subtype4" "subtype2" "subtype2" "subtype1"
 [61] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
 [67] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [73] "subtype2" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [79] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype4" "subtype4" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype4"
[103] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype2"
[109] "subtype4" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[115] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype4"
 [13] "subtype4" "subtype3" "subtype2" "subtype4" "subtype3" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype4" "subtype1" "subtype1" "subtype1"
 [37] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype4"
 [43] "subtype1" "subtype1" "subtype1" "subtype3" "subtype4" "subtype4"
 [49] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype4"
 [55] "subtype3" "subtype2" "subtype4" "subtype2" "subtype2" "subtype1"
 [61] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
 [67] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [73] "subtype2" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [79] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype4" "subtype4" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype4"
[103] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype2"
[109] "subtype4" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[115] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2"
D1V2, continuous
D1V3, binary
          cls
clus        0  1
  subtype1 39  7
  subtype2 37 25
  subtype3 45 25
  subtype4 31 11
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   39    7
  subtype2   37   25
  subtype3   45   25
  subtype4   31   11
        clus
vv       subtype1 subtype2 subtype3 subtype4
  COLON        39       37       45       31
  RECTUM        7       25       25       11
          vv
clus       STAGE I STAGE II STAGE IIA STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  subtype1       8        3        15         3         3          1          4
  subtype2       9        2        14         0         2          2          5
  subtype3      19        4        23         0         4          0          7
  subtype4      11        6        13         2         1          0          6
          vv
clus       STAGE IIIC STAGE IV STAGE IVA
  subtype1          2        6         0
  subtype2         11       16         0
  subtype3          7        8         0
  subtype4          0        2         1
D1V4, multiclass
          vv
clus       T0+T1 T2 T3 T4
  subtype1     1  9 30  6
  subtype2     1 12 41  8
  subtype3     5 16 51  0
  subtype4     2  9 26  5
D1V5, multiclass
          vv
clus       N0 N1 N2
  subtype1 30  6 10
  subtype2 28 17 17
  subtype3 46 12 14
  subtype4 32  8  2
D1V6, multiclass
          vv
clus       M0 M1 M1A
  subtype1 39  6   0
  subtype2 45 17   0
  subtype3 63  8   0
  subtype4 39  2   1
D1V7, multiclass
D1V8, binary
          cls
clus        0  1
  subtype1 28 18
  subtype2 33 29
  subtype3 30 42
  subtype4 15 27
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   28   18
  subtype2   33   29
  subtype3   30   42
  subtype4   15   27
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       28       33       30       15
  MALE         18       29       42       27
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   28                            11
  subtype2                   36                             1
  subtype3                   44                             1
  subtype4                   21                             9
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                     4                              2
  subtype2                    25                              0
  subtype3                    21                              2
  subtype4                     8                              3
D1V9, multiclass
D1V10, binary
          cls
clus        0  1
  subtype1  1 45
  subtype2  0 62
  subtype3  0 72
  subtype4  0 42
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   45
  subtype2    0   62
  subtype3    0   72
  subtype4    0   42
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        0        0        0
  YES       45       62       72       42
          vv
clus       R0 R1 R2
  subtype1 38  0  4
  subtype2 45  2 15
  subtype3 62  0  8
  subtype4 40  0  2
D1V11, multiclass
D1V12, continuous

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1 12  1
  subtype2 29  3
  subtype3 35  3
  subtype4 26 10
subtype1 subtype2 subtype3 subtype4 
      13       32       38       36 
subtype1 subtype2 subtype3 subtype4 
       1        3        3       10 
$subtype1
TCGA-A6-2678 TCGA-A6-3810 TCGA-AA-3679 TCGA-AA-3685 TCGA-AA-3846 TCGA-AA-3856 
       25.68         8.09         0.99         0.99         0.99         0.99 
TCGA-AA-3862 TCGA-AA-3975 TCGA-AY-4071 TCGA-AG-3582 TCGA-AG-3605 TCGA-AG-3883 
        1.02         0.99         0.95         1.02         0.99         1.02 
TCGA-AG-A011 
       17.03 

$subtype2
TCGA-AA-3675 TCGA-AA-3818 TCGA-AA-3844 TCGA-AA-3848 TCGA-AA-3939 TCGA-AA-3986 
        1.02         0.99         0.92         0.99         0.99         0.99 
TCGA-AA-A00F TCGA-AA-A00K TCGA-AA-A00Q TCGA-AA-A00W TCGA-AA-A01F TCGA-AA-A01G 
       34.03        18.02        27.02        14.99        13.02        12.00 
TCGA-AA-A01I TCGA-AA-A024 TCGA-AA-A029 TCGA-AF-2692 TCGA-AG-3581 TCGA-AG-3583 
       12.00        39.06        51.95        13.55         1.02         2.01 
TCGA-AG-3586 TCGA-AG-3599 TCGA-AG-3726 TCGA-AG-3727 TCGA-AG-A008 TCGA-AG-A00C 
        1.02         0.99         7.96         0.95        13.91         6.02 
TCGA-AG-A00H TCGA-AG-A00Y TCGA-AG-A014 TCGA-AG-A015 TCGA-AG-A016 TCGA-AG-A01L 
       25.94        23.01        15.91        13.02         1.02        12.00 
TCGA-AG-A023 TCGA-AG-A025 
       51.98        49.94 

$subtype3
TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-3808 TCGA-A6-3809 TCGA-AA-3518 
       22.88        25.02        23.38         9.14        10.29         1.02 
TCGA-AA-3526 TCGA-AA-3555 TCGA-AA-3666 TCGA-AA-3710 TCGA-AA-3715 TCGA-AA-3811 
        0.99         0.99         2.01         1.02         0.99         0.99 
TCGA-AA-3842 TCGA-AA-3854 TCGA-AA-3877 TCGA-AA-3941 TCGA-AA-3947 TCGA-AA-3949 
        1.02         1.02         0.99         1.02         0.99         0.99 
TCGA-AA-3950 TCGA-AA-3966 TCGA-AA-3977 TCGA-AA-A004 TCGA-AA-A00A TCGA-AA-A00D 
        1.02         2.01         1.02        13.94        18.02        19.00 
TCGA-AA-A00E TCGA-AA-A00J TCGA-AA-A00N TCGA-AA-A00R TCGA-AA-A01D TCGA-AA-A01Q 
       30.02        18.02         4.01         0.99         0.99         1.02 
TCGA-AA-A02R TCGA-AF-2691 TCGA-AF-3400 TCGA-AG-3575 TCGA-AG-3587 TCGA-AG-3878 
       22.03        10.62        12.72        12.00         1.02         0.99 
TCGA-AG-A002 TCGA-AG-A02X 
       20.94        40.96 

$subtype4
TCGA-A6-2677 TCGA-A6-2683 TCGA-A6-3807 TCGA-AA-3562 TCGA-AA-3837 TCGA-AA-3952 
       17.79        16.57        10.92         1.02         1.02         2.01 
TCGA-AA-A00L TCGA-AA-A00O TCGA-AA-A00U TCGA-AA-A00Z TCGA-AA-A010 TCGA-AA-A017 
       17.00        27.02        17.00        21.99        20.98        15.02 
TCGA-AA-A01C TCGA-AA-A01K TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H TCGA-AA-A02J 
       15.02        13.02         2.93        39.95         2.01         5.03 
TCGA-AA-A02W TCGA-AY-4070 TCGA-AF-2689 TCGA-AF-3913 TCGA-AG-3887 TCGA-AG-3892 
       40.96        16.31        17.95        10.39         0.92         1.02 
TCGA-AG-3893 TCGA-AG-3894 TCGA-AG-3896 TCGA-AG-3999 TCGA-AG-4001 TCGA-AG-4007 
        0.99         0.99         1.02         1.02         1.02         1.02 
TCGA-AG-4008 TCGA-AG-A01J TCGA-AG-A01N TCGA-AG-A026 TCGA-AG-A02G TCGA-AG-A032 
        1.02         1.02        12.00         1.94        38.93        38.01 

subtype1 subtype2 subtype3 subtype4 
    0.95     0.92     0.99     0.92 
subtype1 subtype2 subtype3 subtype4 
   25.68    51.98    40.96    40.96 
subtype1 subtype2 subtype3 subtype4 
   0.990   12.000    1.515   10.655 
[1] "0.9 - 25.7 (1.0)"  "0.9 - 52.0 (12.0)" "1.0 - 41.0 (1.5)" 
[4] "0.9 - 41.0 (10.7)"
  [1] "subtype3" "subtype3" "subtype3" "subtype4" "subtype1" "subtype4"
  [7] "subtype4" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype4" "subtype3" "subtype2" "subtype1" "subtype1"
 [19] "subtype3" "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
 [25] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [31] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype4" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [43] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [49] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
 [55] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
 [61] "subtype2" "subtype2" "subtype2" "subtype4" "subtype3" "subtype2"
 [67] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
 [73] "subtype4" "subtype4" "subtype1" "subtype4" "subtype3" "subtype2"
 [79] "subtype3" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
 [97] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype2" "subtype2" "subtype4" "subtype2" "subtype4" "subtype2"
[115] "subtype2" "subtype4" "subtype4" "subtype3" "subtype4"
  [1] "subtype3" "subtype3" "subtype3" "subtype4" "subtype1" "subtype4"
  [7] "subtype4" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype4" "subtype3" "subtype2" "subtype1" "subtype1"
 [19] "subtype3" "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
 [25] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [31] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype4" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [43] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [49] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
 [55] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
 [61] "subtype2" "subtype2" "subtype2" "subtype4" "subtype3" "subtype2"
 [67] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
 [73] "subtype4" "subtype4" "subtype1" "subtype4" "subtype3" "subtype2"
 [79] "subtype3" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
 [97] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype2" "subtype2" "subtype4" "subtype2" "subtype4" "subtype2"
[115] "subtype2" "subtype4" "subtype4" "subtype3" "subtype4"
  [1] "subtype3" "subtype3" "subtype3" "subtype4" "subtype1" "subtype4"
  [7] "subtype4" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype4" "subtype3" "subtype2" "subtype1" "subtype1"
 [19] "subtype3" "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
 [25] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [31] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype4" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [43] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [49] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
 [55] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
 [61] "subtype2" "subtype2" "subtype2" "subtype4" "subtype3" "subtype2"
 [67] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
 [73] "subtype4" "subtype4" "subtype1" "subtype4" "subtype3" "subtype2"
 [79] "subtype3" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
 [97] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype2" "subtype2" "subtype4" "subtype2" "subtype4" "subtype2"
[115] "subtype2" "subtype4" "subtype4" "subtype3" "subtype4"
D2V2, continuous
D2V3, binary
          cls
clus        0  1
  subtype1 32 12
  subtype2 32 18
  subtype3 52 14
  subtype4 36 24
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   32   12
  subtype2   32   18
  subtype3   52   14
  subtype4   36   24
        clus
vv       subtype1 subtype2 subtype3 subtype4
  COLON        32       32       52       36
  RECTUM       12       18       14       24
          vv
clus       STAGE I STAGE II STAGE IIA STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  subtype1       9        3        17         0         1          0          6
  subtype2      15        5        14         0         3          1          4
  subtype3      14        5        20         4         5          1          7
  subtype4       9        2        14         1         1          1          5
          vv
clus       STAGE IIIC STAGE IV STAGE IVA
  subtype1          3        6         0
  subtype2          3        6         0
  subtype3          2        6         1
  subtype4         12       14         0
D2V4, multiclass
          vv
clus       T0+T1 T2 T3 T4
  subtype1     1  9 34  1
  subtype2     4 13 31  3
  subtype3     2 14 41  9
  subtype4     2 10 42  6
D2V5, multiclass
          vv
clus       N0 N1 N2
  subtype1 29 10  6
  subtype2 34  8  9
  subtype3 44 12 10
  subtype4 29 13 18
D2V6, multiclass
          vv
clus       M0 M1 M1A
  subtype1 38  6   0
  subtype2 45  6   0
  subtype3 58  6   1
  subtype4 45 15   0
D2V7, multiclass
D2V8, binary
          cls
clus        0  1
  subtype1 21 24
  subtype2 18 33
  subtype3 34 32
  subtype4 33 27
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   21   24
  subtype2   18   33
  subtype3   34   32
  subtype4   33   27
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       21       18       34       33
  MALE         24       33       32       27
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   31                             1
  subtype2                   30                             2
  subtype3                   33                            18
  subtype4                   35                             1
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    11                              1
  subtype2                    14                              2
  subtype3                    10                              3
  subtype4                    23                              1
D2V9, multiclass
D2V10, binary
          cls
clus        0  1
  subtype1  0 45
  subtype2  0 51
  subtype3  1 65
  subtype4  0 60
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   45
  subtype2    0   51
  subtype3    1   65
  subtype4    0   60
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         0        0        1        0
  YES       45       51       65       60
          vv
clus       R0 R1 R2
  subtype1 37  0  6
  subtype2 44  0  7
  subtype3 58  0  4
  subtype4 46  2 12
D2V11, multiclass
D2V12, continuous

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2        0   1
  subtype1 125  22
  subtype2 167  33
  subtype3  91  19
  subtype4   8   2
subtype1 subtype2 subtype3 subtype4 
     147      200      110       10 
subtype1 subtype2 subtype3 subtype4 
      22       33       19        2 
$subtype1
TCGA-A6-2671 TCGA-A6-2678 TCGA-A6-2679 TCGA-A6-2680 TCGA-A6-2681 TCGA-A6-2683 
       36.99        25.68        25.58        23.15        22.06        16.57 
TCGA-A6-3807 TCGA-A6-3810 TCGA-A6-5656 TCGA-A6-5659 TCGA-A6-5662 TCGA-A6-5666 
       10.92         8.09        15.19         9.40        14.89        23.64 
TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6142 TCGA-A6-6650 TCGA-A6-6652 TCGA-A6-6782 
        9.17        11.70        12.10         9.11        14.96         6.21 
TCGA-A6-A567 TCGA-A6-A56B TCGA-AA-3488 TCGA-AA-3562 TCGA-AA-3666 TCGA-AA-3679 
       61.84        52.44         5.00         1.02         2.01         0.99 
TCGA-AA-3685 TCGA-AA-3697 TCGA-AA-3842 TCGA-AA-3846 TCGA-AA-3975 TCGA-AA-A00F 
        0.99         0.95         1.02         0.99         0.99        34.03 
TCGA-AA-A00L TCGA-AA-A00Q TCGA-AA-A00W TCGA-AA-A00Z TCGA-AA-A017 TCGA-AA-A01C 
       17.00        27.02        14.99        21.99        15.02        15.02 
TCGA-AA-A01F TCGA-AA-A01G TCGA-AA-A01K TCGA-AA-A01T TCGA-AA-A02E TCGA-AA-A02F 
       13.02        12.00        13.02        33.04         2.93        39.95 
TCGA-AA-A02H TCGA-AA-A03J TCGA-AD-6888 TCGA-AD-6901 TCGA-AD-6963 TCGA-AD-A5EK 
        2.01        40.93         4.21         1.02         0.10         0.43 
TCGA-AU-3779 TCGA-AY-4071 TCGA-AY-5543 TCGA-AY-A54L TCGA-AZ-4308 TCGA-AZ-4682 
       14.47         0.95        15.75         5.19        75.22        22.36 
TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6608 TCGA-CA-6715 TCGA-CK-5912 TCGA-CK-5914 
       29.56         5.23         1.94         0.07        48.03        21.99 
TCGA-CK-6748 TCGA-CM-4750 TCGA-CM-4752 TCGA-CM-5860 TCGA-CM-5868 TCGA-CM-6163 
        2.01         8.02         4.04        16.01        17.03        14.04 
TCGA-CM-6164 TCGA-CM-6170 TCGA-CM-6679 TCGA-D5-5539 TCGA-D5-5540 TCGA-D5-6532 
       29.03        15.02        10.06        19.59        13.51        18.25 
TCGA-D5-6533 TCGA-D5-6535 TCGA-D5-6538 TCGA-D5-6932 TCGA-DM-A1HA TCGA-DM-A28A 
        1.32        15.12        17.13         0.62       131.51        26.47 
TCGA-DM-A28E TCGA-DM-A28F TCGA-F4-6459 TCGA-F4-6460 TCGA-F4-6808 TCGA-F4-6809 
      119.93        35.97         8.58        13.38         0.46         1.25 
TCGA-F4-6854 TCGA-G4-6294 TCGA-G4-6297 TCGA-G4-6310 TCGA-G4-6315 TCGA-G4-6625 
        0.53        28.21        82.39        45.11        36.72        91.76 
TCGA-G4-6626 TCGA-NH-A50T TCGA-AF-2689 TCGA-AF-2692 TCGA-AF-2693 TCGA-AF-3911 
       46.75         4.11        17.95        13.55        19.10        25.02 
TCGA-AF-3913 TCGA-AF-4110 TCGA-AF-6136 TCGA-AG-3581 TCGA-AG-3582 TCGA-AG-3727 
       10.39        14.50        15.35         1.02         1.02         0.95 
TCGA-AG-3742 TCGA-AG-3883 TCGA-AG-3893 TCGA-AG-3999 TCGA-AG-4001 TCGA-AG-4007 
        0.99         1.02         0.99         1.02         1.02         1.02 
TCGA-AG-4022 TCGA-AG-A00C TCGA-AG-A00H TCGA-AG-A00Y TCGA-AG-A015 TCGA-AG-A016 
        0.99         6.02        25.94        23.01        13.02         1.02 
TCGA-AG-A01L TCGA-AG-A01W TCGA-AG-A026 TCGA-AG-A02G TCGA-AG-A032 TCGA-CI-6622 
       12.00        70.03         1.94        38.93        38.01         6.94 
TCGA-CI-6623 TCGA-CI-6624 TCGA-CL-4957 TCGA-CL-5918 TCGA-DC-4745 TCGA-DC-4749 
        9.37         4.70        13.97         7.99        10.98        11.01 
TCGA-DC-5869 TCGA-DC-6154 TCGA-DC-6156 TCGA-DC-6157 TCGA-DC-6683 TCGA-DY-A1DE 
       12.99        12.00        15.02        36.00        10.06       129.27 
TCGA-DY-A1DF TCGA-DY-A1DG TCGA-EF-5831 TCGA-EI-6512 TCGA-EI-6513 TCGA-EI-6514 
       24.13        51.48         2.40        17.69        16.34        16.31 
TCGA-EI-6881 TCGA-EI-6884 TCGA-EI-7002 TCGA-F5-6571 TCGA-F5-6810 TCGA-F5-6811 
       16.37        10.78        11.97         0.85         0.39         1.02 
TCGA-F5-6812 TCGA-F5-6813 TCGA-F5-6863 
        0.66         0.69         0.76 

$subtype2
TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-2682 TCGA-A6-2684 TCGA-A6-2685 
       22.88        25.02        23.38        13.94        12.72        15.25 
TCGA-A6-2686 TCGA-A6-4105 TCGA-A6-5661 TCGA-A6-5664 TCGA-A6-5665 TCGA-A6-6141 
       16.04        14.50        10.06        11.90        13.28         8.35 
TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6653 TCGA-A6-6654 TCGA-A6-6780 TCGA-A6-6781 
       10.78         8.48         9.27        13.12        11.64         9.63 
TCGA-A6-A565 TCGA-A6-A566 TCGA-AA-3489 TCGA-AA-3510 TCGA-AA-3518 TCGA-AA-3555 
       16.21        24.92         1.02         1.02         1.02         0.99 
TCGA-AA-3663 TCGA-AA-3675 TCGA-AA-3710 TCGA-AA-3713 TCGA-AA-3715 TCGA-AA-3811 
        1.02         1.02         1.02         0.95         0.99         0.99 
TCGA-AA-3818 TCGA-AA-3837 TCGA-AA-3844 TCGA-AA-3848 TCGA-AA-3854 TCGA-AA-3877 
        0.99         1.02         0.92         0.99         1.02         0.99 
TCGA-AA-3939 TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3952 TCGA-AA-3966 
        0.99         0.99         0.99         1.02         2.01         2.01 
TCGA-AA-3977 TCGA-AA-3986 TCGA-AA-A00A TCGA-AA-A00E TCGA-AA-A00J TCGA-AA-A00N 
        1.02         0.99        18.02        30.02        18.02         4.01 
TCGA-AA-A00O TCGA-AA-A00R TCGA-AA-A010 TCGA-AA-A01D TCGA-AA-A01I TCGA-AA-A01P 
       27.02         0.99        20.98         0.99        12.00        38.07 
TCGA-AA-A01Q TCGA-AA-A01R TCGA-AA-A01V TCGA-AA-A024 TCGA-AA-A02R TCGA-AA-A02Y 
        1.02        35.01        35.01        39.06        22.03        39.95 
TCGA-AA-A03F TCGA-AD-5900 TCGA-AD-6548 TCGA-AD-6889 TCGA-AD-6890 TCGA-AD-6895 
       18.02         0.07         0.10        56.52         0.79         0.72 
TCGA-AD-6964 TCGA-AM-5820 TCGA-AM-5821 TCGA-AU-6004 TCGA-AY-6196 TCGA-AY-6197 
        0.99         0.46         0.92         6.67         0.20        13.91 
TCGA-AY-6386 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4323 TCGA-AZ-4615 TCGA-AZ-4616 
       11.84        50.37        58.39         1.41        32.94         5.13 
TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6607 TCGA-CA-5255 
       49.41         6.74        12.10        99.98         3.19         3.06 
TCGA-CA-5796 TCGA-CA-6716 TCGA-CA-6717 TCGA-CA-6718 TCGA-CK-4947 TCGA-CK-4948 
        3.25         0.26         0.33         0.10        17.52       102.44 
TCGA-CK-4950 TCGA-CK-4951 TCGA-CK-5913 TCGA-CK-5916 TCGA-CK-6747 TCGA-CK-6751 
       40.31        70.16        28.04        21.01         2.93       124.11 
TCGA-CM-4743 TCGA-CM-4744 TCGA-CM-4746 TCGA-CM-4748 TCGA-CM-5344 TCGA-CM-5861 
        6.05         7.04        22.98         7.04        16.04        15.02 
TCGA-CM-5863 TCGA-CM-6161 TCGA-CM-6162 TCGA-CM-6165 TCGA-CM-6167 TCGA-CM-6168 
       15.02        15.02        12.00        16.04        14.99        12.99 
TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6675 TCGA-CM-6678 TCGA-CM-6680 TCGA-D5-5537 
       14.04        12.95        13.02        11.01        12.03        14.99 
TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6531 TCGA-D5-6534 TCGA-D5-6536 TCGA-D5-6539 
       20.19        20.42        17.75         7.92        17.85        12.49 
TCGA-D5-6540 TCGA-D5-6920 TCGA-D5-6924 TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6929 
       16.14        12.39        14.27         9.44        11.64        13.38 
TCGA-D5-6930 TCGA-D5-6931 TCGA-D5-7000 TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A1D4 
        1.48        12.00        10.26       119.70        24.43        92.75 
TCGA-DM-A1D6 TCGA-DM-A1D7 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1HB TCGA-DM-A280 
       49.91        13.28       140.38         7.46       135.65         7.73 
TCGA-DM-A282 TCGA-DM-A288 TCGA-DM-A28C TCGA-DM-A28M TCGA-F4-6461 TCGA-F4-6569 
      139.17        14.01        81.37        95.18        11.11        13.41 
TCGA-F4-6570 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6806 TCGA-F4-6807 TCGA-F4-6855 
        6.15         9.80         1.51         0.66         0.53         9.86 
TCGA-F4-6856 TCGA-G4-6293 TCGA-G4-6298 TCGA-G4-6302 TCGA-G4-6304 TCGA-G4-6309 
        0.66       107.67        23.51        43.04        53.62        51.75 
TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 
       26.43        22.06        26.04        13.78        35.80        26.17 
TCGA-G4-6627 TCGA-G4-6628 TCGA-NH-A50V TCGA-AF-3400 TCGA-AF-5654 TCGA-AG-3575 
       47.15        52.96         5.06        12.72         8.45        12.00 
TCGA-AG-3583 TCGA-AG-3599 TCGA-AG-3731 TCGA-AG-3878 TCGA-AG-3892 TCGA-AG-3894 
        2.01         0.99         1.02         0.99         1.02         0.99 
TCGA-AG-A002 TCGA-AG-A008 TCGA-AG-A020 TCGA-AG-A025 TCGA-AG-A02N TCGA-AH-6544 
       20.94        13.91        10.98        49.94        61.94         0.49 
TCGA-AH-6547 TCGA-AH-6897 TCGA-AH-6903 TCGA-BM-6198 TCGA-CI-6620 TCGA-DC-5337 
        1.45         4.60         1.81        10.19         6.02        15.02 
TCGA-DC-6160 TCGA-DC-6681 TCGA-DT-5265 TCGA-DY-A1H8 TCGA-EI-6506 TCGA-EI-6507 
       30.05        12.95         5.29        32.58        20.55        19.96 
TCGA-EI-6508 TCGA-EI-6510 TCGA-EI-6882 TCGA-EI-6917 TCGA-EI-7004 TCGA-F5-6814 
       20.91        18.28         8.61        17.46         8.45         0.53 
TCGA-F5-6861 TCGA-G5-6235 
        1.08        55.76 

$subtype3
TCGA-A6-2675 TCGA-A6-2677 TCGA-A6-5657 TCGA-A6-5660 TCGA-A6-5667 TCGA-A6-6137 
       27.81        17.79        12.07        11.24        10.52        11.44 
TCGA-A6-6648 TCGA-A6-A5ZU TCGA-AA-3494 TCGA-AA-3495 TCGA-AA-3496 TCGA-AA-3502 
       11.31         3.81         1.02         1.02         1.02         1.02 
TCGA-AA-3526 TCGA-AA-3660 TCGA-AA-3856 TCGA-AA-3941 TCGA-AA-A004 TCGA-AA-A00D 
        0.99         1.02         0.99         1.02        13.94        19.00 
TCGA-AA-A00K TCGA-AA-A00U TCGA-AA-A01S TCGA-AA-A01Z TCGA-AA-A029 TCGA-AA-A02J 
       18.02        17.00         1.02        20.98        51.95         5.03 
TCGA-AA-A02O TCGA-AA-A02W TCGA-AD-6899 TCGA-AD-6965 TCGA-AY-4070 TCGA-AZ-4614 
        0.92        40.96         1.55         0.20        16.31         5.65 
TCGA-AZ-4681 TCGA-AZ-4684 TCGA-AZ-5403 TCGA-AZ-5407 TCGA-AZ-6606 TCGA-CA-5254 
       83.80        65.00        62.79        61.41        11.74         2.24 
TCGA-CA-5797 TCGA-CA-6719 TCGA-CK-4952 TCGA-CM-4751 TCGA-CM-5341 TCGA-CM-5348 
        3.29         1.35        15.58        19.96        19.04        21.96 
TCGA-CM-5349 TCGA-CM-5862 TCGA-CM-6166 TCGA-CM-6169 TCGA-CM-6172 TCGA-CM-6676 
       19.04         5.03        21.96        13.02        10.98        11.08 
TCGA-D5-5538 TCGA-D5-5541 TCGA-D5-6537 TCGA-D5-6541 TCGA-D5-6898 TCGA-D5-6922 
       12.26        11.51         4.47        15.58         7.53        10.13 
TCGA-D5-6923 TCGA-D5-6926 TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1DB TCGA-DM-A285 
       12.39         9.04        38.20       130.65        44.32         6.08 
TCGA-DM-A28G TCGA-DM-A28H TCGA-DM-A28K TCGA-F4-6463 TCGA-F4-6805 TCGA-G4-6295 
       60.79       117.07        98.24        13.61         0.53         8.35 
TCGA-G4-6299 TCGA-G4-6303 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6311 TCGA-G4-6314 
       74.56        61.87        44.65        55.04        39.42        35.93 
TCGA-G4-6317 TCGA-AF-2690 TCGA-AF-2691 TCGA-AF-6655 TCGA-AF-6672 TCGA-AG-3586 
       36.00        17.23        10.62        11.67        10.39         1.02 
TCGA-AG-3587 TCGA-AG-3605 TCGA-AG-3726 TCGA-AG-3887 TCGA-AG-3896 TCGA-AG-4008 
        1.02         0.99         7.96         0.92         1.02         1.02 
TCGA-AG-A011 TCGA-AG-A014 TCGA-AG-A01J TCGA-AG-A01N TCGA-AG-A01Y TCGA-AG-A023 
       17.03        15.91         1.02        12.00        63.98        51.98 
TCGA-AG-A02X TCGA-AH-6643 TCGA-AH-6644 TCGA-CI-6619 TCGA-CL-5917 TCGA-DC-6155 
       40.96         0.69         0.72         6.02        60.00        14.01 
TCGA-DC-6158 TCGA-DC-6682 TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DD TCGA-EF-5830 
        6.97        13.02       126.41        41.33        57.24         0.49 
TCGA-EI-6509 TCGA-EI-6511 TCGA-EI-6883 TCGA-EI-6885 TCGA-F5-6702 TCGA-F5-6864 
       17.00        15.85        11.51        13.61         2.17         0.46 
TCGA-G5-6233 TCGA-G5-6641 
       18.25        26.43 

$subtype4
TCGA-A6-4107 TCGA-AA-A01X TCGA-CA-5256 TCGA-CM-4747 TCGA-CM-5864 TCGA-CM-6677 
        7.59        26.01         2.14         8.02        15.02        11.08 
TCGA-DM-A1D8 TCGA-AF-2687 TCGA-F5-6465 TCGA-G5-6572 
       12.59        24.13         3.39        47.08 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.07     0.20     2.14 
subtype1 subtype2 subtype3 subtype4 
  131.51   140.38   130.65    47.08 
subtype1 subtype2 subtype3 subtype4 
  13.020   12.065   12.165   11.835 
[1] "0.1 - 131.5 (13.0)" "0.1 - 140.4 (12.1)" "0.2 - 130.7 (12.2)"
[4] "2.1 - 47.1 (11.8)" 
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [19] "subtype4" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [31] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [37] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [49] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [67] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [79] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[109] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[121] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[145] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[151] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[157] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[163] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[175] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype4"
[181] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[187] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[193] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[205] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[211] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype4"
[217] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[223] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[229] "subtype3" "subtype2" "subtype2" "subtype3" "subtype4" "subtype2"
[235] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[241] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[247] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[253] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[259] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[271] "subtype3" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[277] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[283] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[295] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[301] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[307] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[313] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[319] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[325] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[331] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype4" "subtype1" "subtype3" "subtype3" "subtype1"
[343] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[349] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[355] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[361] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[367] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[373] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[379] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[385] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[391] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[397] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[403] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[409] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[415] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[421] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[427] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[433] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[439] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[445] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[451] "subtype1" "subtype2" "subtype4" "subtype1" "subtype3" "subtype1"
[457] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[463] "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [19] "subtype4" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [31] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [37] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [49] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [67] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [79] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[109] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[121] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[145] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[151] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[157] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[163] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[175] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype4"
[181] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[187] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[193] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[205] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[211] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype4"
[217] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[223] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[229] "subtype3" "subtype2" "subtype2" "subtype3" "subtype4" "subtype2"
[235] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[241] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[247] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[253] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[259] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[271] "subtype3" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[277] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[283] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[295] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[301] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[307] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[313] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[319] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[325] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[331] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype4" "subtype1" "subtype3" "subtype3" "subtype1"
[343] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[349] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[355] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[361] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[367] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[373] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[379] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[385] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[391] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[397] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[403] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[409] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[415] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[421] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[427] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[433] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[439] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[445] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[451] "subtype1" "subtype2" "subtype4" "subtype1" "subtype3" "subtype1"
[457] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[463] "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
  [1] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [19] "subtype4" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [31] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [37] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [49] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [67] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [79] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[109] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype4"
[121] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[133] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[145] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[151] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[157] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[163] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[175] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype4"
[181] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[187] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[193] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[205] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[211] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype4"
[217] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[223] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[229] "subtype3" "subtype2" "subtype2" "subtype3" "subtype4" "subtype2"
[235] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[241] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[247] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[253] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[259] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[271] "subtype3" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[277] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[283] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[295] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[301] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[307] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[313] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[319] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[325] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[331] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype4" "subtype1" "subtype3" "subtype3" "subtype1"
[343] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[349] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[355] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[361] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[367] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[373] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[379] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[385] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
[391] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[397] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[403] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[409] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[415] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[421] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[427] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[433] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[439] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[445] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[451] "subtype1" "subtype2" "subtype4" "subtype1" "subtype3" "subtype1"
[457] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[463] "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
D3V2, continuous
D3V3, binary
          cls
clus         0   1
  subtype1 114  68
  subtype2 200  38
  subtype3  96  49
  subtype4  10   4
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  114   68
  subtype2  200   38
  subtype3   96   49
  subtype4   10    4
        clus
vv       subtype1 subtype2 subtype3 subtype4
  COLON       114      200       96       10
  RECTUM       68       38       49        4
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      27        0        7        44         3         1         9
  subtype2      48        1       21        75         6         0        10
  subtype3      23        0       12        33         1         2         7
  subtype4       2        0        1         4         0         0         1
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          9         33         14       24        11         0
  subtype2          7         26         16       14         7         1
  subtype3          6         15         18       20         6         0
  subtype4          0          1          1        1         1         0
D3V4, multiclass
          vv
clus       T0+T1  T2  T3  T4
  subtype1     8  28 131  19
  subtype2     9  45 157  26
  subtype3     3  27 101  14
  subtype4     0   3   9   1
D3V5, multiclass
          vv
clus        N0  N1  N2
  subtype1  89  62  34
  subtype2 159  45  34
  subtype3  74  34  36
  subtype4   7   4   2
D3V6, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 135  32   3   0  14
  subtype2 188  17   2   1  25
  subtype3 107  22   3   0  13
  subtype4  10   1   1   0   0
D3V7, multiclass
D3V8, binary
          cls
clus         0   1
  subtype1  82 104
  subtype2 116 122
  subtype3  63  82
  subtype4   9   5
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   82  104
  subtype2  116  122
  subtype3   63   82
  subtype4    9    5
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       82      116       63        9
  MALE        104      122       82        5
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                  111                             3
  subtype2                  155                            45
  subtype3                   88                             7
  subtype4                   10                             0
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    68                              0
  subtype2                    28                              9
  subtype3                    43                              4
  subtype4                     4                              0
D3V9, multiclass
D3V10, binary
          cls
clus         0   1
  subtype1   3 183
  subtype2   2 236
  subtype3   3 142
  subtype4   1  13
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3  183
  subtype2    2  236
  subtype3    3  142
  subtype4    1   13
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         3        2        3        1
  YES      183      236      142       13
          vv
clus        R0  R1  R2  RX
  subtype1 134   1  15   6
  subtype2 171   3   8  15
  subtype3 100   1  12   5
  subtype4  10   0   1   1
D3V11, multiclass
D3V12, continuous

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2        0   1
  subtype1 123  27
  subtype2  87  20
  subtype3  76  12
subtype1 subtype2 subtype3 
     150      107       88 
subtype1 subtype2 subtype3 
      27       20       12 
$subtype1
TCGA-A6-2671 TCGA-A6-2675 TCGA-A6-2677 TCGA-A6-2680 TCGA-A6-3810 TCGA-A6-5656 
       36.99        27.81        17.79        23.15         8.09        15.19 
TCGA-A6-5660 TCGA-A6-5662 TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6140 
       11.24        14.89        23.64        10.52        11.44        11.70 
TCGA-A6-6648 TCGA-A6-6650 TCGA-A6-6652 TCGA-A6-6782 TCGA-A6-A567 TCGA-A6-A56B 
       11.31         9.11        14.96         6.21        61.84        52.44 
TCGA-AA-3488 TCGA-AA-3494 TCGA-AA-3495 TCGA-AA-3496 TCGA-AA-3660 TCGA-AA-3697 
        5.00         1.02         1.02         1.02         1.02         0.95 
TCGA-AD-6888 TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6964 TCGA-AD-A5EK 
        4.21         0.72         1.55         1.02         0.99         0.43 
TCGA-AM-5820 TCGA-AU-3779 TCGA-AY-5543 TCGA-AZ-4308 TCGA-AZ-4681 TCGA-AZ-4682 
        0.46        14.47        15.75        75.22        83.80        22.36 
TCGA-AZ-4684 TCGA-AZ-6603 TCGA-AZ-6608 TCGA-CA-5256 TCGA-CA-5797 TCGA-CA-6715 
       65.00        29.56         1.94         2.14         3.29         0.07 
TCGA-CA-6719 TCGA-CK-5912 TCGA-CK-5914 TCGA-CK-6748 TCGA-CM-4750 TCGA-CM-4752 
        1.35        48.03        21.99         2.01         8.02         4.04 
TCGA-CM-5341 TCGA-CM-5344 TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-5868 TCGA-CM-6161 
       19.04        16.04         5.03        15.02        17.03        15.02 
TCGA-CM-6164 TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6170 TCGA-CM-6172 TCGA-CM-6676 
       29.03        16.04        21.96        15.02        10.98        11.08 
TCGA-CM-6678 TCGA-CM-6679 TCGA-D5-5537 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6532 
       11.01        10.06        14.99        13.51        11.51        18.25 
TCGA-D5-6533 TCGA-D5-6534 TCGA-D5-6537 TCGA-D5-6922 TCGA-DM-A0XF TCGA-DM-A1D0 
        1.32         7.92         4.47        10.13        38.20       130.65 
TCGA-DM-A1D6 TCGA-DM-A1D7 TCGA-DM-A1DB TCGA-DM-A282 TCGA-DM-A28A TCGA-DM-A28C 
       49.91        13.28        44.32       139.17        26.47        81.37 
TCGA-DM-A28E TCGA-DM-A28F TCGA-F4-6459 TCGA-F4-6808 TCGA-F4-6854 TCGA-F4-6855 
      119.93        35.97         8.58         0.46         0.53         9.86 
TCGA-F4-6856 TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6303 
        0.66        28.21         8.35        82.39        23.51        61.87 
TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6310 TCGA-G4-6311 TCGA-G4-6314 TCGA-G4-6315 
       44.65        55.04        45.11        39.42        35.93        36.72 
TCGA-G4-6317 TCGA-G4-6626 TCGA-NH-A50T TCGA-AF-2693 TCGA-AF-3911 TCGA-AF-6136 
       36.00        46.75         4.11        19.10        25.02        15.35 
TCGA-AG-4022 TCGA-AG-A020 TCGA-AG-A026 TCGA-AG-A036 TCGA-AH-6549 TCGA-AH-6643 
        0.99        10.98         1.94        72.07         0.20         0.69 
TCGA-AH-6644 TCGA-AH-6897 TCGA-AH-6903 TCGA-CI-6622 TCGA-CL-4957 TCGA-CL-5917 
        0.72         4.60         1.81         6.94        13.97        60.00 
TCGA-CL-5918 TCGA-DC-4745 TCGA-DC-4749 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6154 
        7.99        10.98        11.01        15.02        12.99        12.00 
TCGA-DC-6155 TCGA-DC-6156 TCGA-DC-6157 TCGA-DC-6158 TCGA-DC-6160 TCGA-DC-6683 
       14.01        15.02        36.00         6.97        30.05        10.06 
TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DD TCGA-DY-A1DE TCGA-DY-A1DG TCGA-DY-A1H8 
      126.41        41.33        57.24       129.27        51.48        32.58 
TCGA-EF-5831 TCGA-EI-6506 TCGA-EI-6511 TCGA-EI-6513 TCGA-EI-6514 TCGA-EI-6881 
        2.40        20.55        15.85        16.34        16.31        16.37 
TCGA-EI-6883 TCGA-EI-6885 TCGA-EI-7002 TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6810 
       11.51        13.61        11.97         3.39         0.85         0.39 
TCGA-F5-6811 TCGA-F5-6813 TCGA-F5-6863 TCGA-F5-6864 TCGA-G5-6572 TCGA-G5-6641 
        1.02         0.69         0.76         0.46        47.08        26.43 

$subtype2
TCGA-A6-2679 TCGA-A6-2681 TCGA-A6-2686 TCGA-A6-3809 TCGA-A6-4105 TCGA-A6-4107 
       25.58        22.06        16.04        10.29        14.50         7.59 
TCGA-A6-5659 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6138 TCGA-A6-6653 TCGA-A6-6780 
        9.40        10.06        13.28         9.17         9.27        11.64 
TCGA-A6-A566 TCGA-A6-A5ZU TCGA-AA-3502 TCGA-AA-3663 TCGA-AA-3713 TCGA-AD-5900 
       24.92         3.81         1.02         1.02         0.95         0.07 
TCGA-AD-6548 TCGA-AD-6890 TCGA-AM-5821 TCGA-AY-6197 TCGA-AY-6386 TCGA-AY-A54L 
        0.10         0.79         0.92        13.91        11.84         5.19 
TCGA-AZ-4614 TCGA-AZ-4615 TCGA-AZ-4616 TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6599 
        5.65        32.94         5.13        61.41        49.41         6.74 
TCGA-AZ-6606 TCGA-CA-5254 TCGA-CA-5796 TCGA-CA-6716 TCGA-CK-4947 TCGA-CK-4950 
       11.74         2.24         3.25         0.26        17.52        40.31 
TCGA-CK-4951 TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-5916 TCGA-CK-6747 TCGA-CK-6751 
       70.16        15.58        28.04        21.01         2.93       124.11 
TCGA-CM-4744 TCGA-CM-4746 TCGA-CM-4747 TCGA-CM-4751 TCGA-CM-5860 TCGA-CM-5861 
        7.04        22.98         8.02        19.96        16.01        15.02 
TCGA-CM-6169 TCGA-CM-6171 TCGA-CM-6675 TCGA-CM-6677 TCGA-CM-6680 TCGA-D5-5538 
       13.02        14.04        13.02        11.08        12.03        12.26 
TCGA-D5-5539 TCGA-D5-6531 TCGA-D5-6535 TCGA-D5-6538 TCGA-D5-6540 TCGA-D5-6541 
       19.59        17.75        15.12        17.13        16.14        15.58 
TCGA-D5-6920 TCGA-D5-6923 TCGA-D5-6927 TCGA-D5-6929 TCGA-D5-6931 TCGA-D5-7000 
       12.39        12.39         9.44        13.38        12.00        10.26 
TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A1D4 TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA 
      119.70        24.43        92.75        12.59       140.38         7.46 
TCGA-DM-A1HA TCGA-DM-A1HB TCGA-DM-A285 TCGA-DM-A288 TCGA-DM-A28G TCGA-DM-A28H 
      131.51       135.65         6.08        14.01        60.79       117.07 
TCGA-DM-A28K TCGA-DM-A28M TCGA-F4-6461 TCGA-F4-6570 TCGA-F4-6806 TCGA-G4-6293 
       98.24        95.18        11.11         6.15         0.66       107.67 
TCGA-G4-6299 TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 
       74.56        26.43        22.06        26.04        13.78        35.80 
TCGA-G4-6588 TCGA-G4-6628 TCGA-NH-A50V TCGA-AG-3731 TCGA-AG-3742 TCGA-AG-A01W 
       26.17        52.96         5.06         1.02         0.99        70.03 
TCGA-AG-A02N TCGA-CI-6620 TCGA-DT-5265 TCGA-DY-A1DF TCGA-EF-5830 TCGA-EI-6508 
       61.94         6.02         5.29        24.13         0.49        20.91 
TCGA-EI-6510 TCGA-EI-6512 TCGA-EI-6882 TCGA-F5-6814 TCGA-G5-6233 
       18.28        17.69         8.61         0.53        18.25 

$subtype3
TCGA-A6-2682 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-5657 TCGA-A6-5664 TCGA-A6-6141 
       13.94        12.72        15.25        12.07        11.90         8.35 
TCGA-A6-6142 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6654 TCGA-A6-6781 TCGA-A6-A565 
       12.10        10.78         8.48        13.12         9.63        16.21 
TCGA-AA-3489 TCGA-AA-3510 TCGA-AD-6889 TCGA-AD-6963 TCGA-AD-6965 TCGA-AU-6004 
        1.02         1.02        56.52         0.10         0.20         6.67 
TCGA-AY-6196 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4323 TCGA-AZ-5403 TCGA-AZ-6600 
        0.20        50.37        58.39         1.41        62.79        12.10 
TCGA-AZ-6601 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-5255 TCGA-CA-6717 TCGA-CA-6718 
       99.98         5.23         3.19         3.06         0.33         0.10 
TCGA-CK-4948 TCGA-CM-4743 TCGA-CM-4748 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5863 
      102.44         6.05         7.04        21.96        19.04        15.02 
TCGA-CM-6162 TCGA-CM-6163 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6674 TCGA-D5-6529 
       12.00        14.04        14.99        12.99        12.95        20.19 
TCGA-D5-6530 TCGA-D5-6536 TCGA-D5-6539 TCGA-D5-6898 TCGA-D5-6924 TCGA-D5-6926 
       20.42        17.85        12.49         7.53        14.27         9.04 
TCGA-D5-6928 TCGA-D5-6930 TCGA-D5-6932 TCGA-DM-A280 TCGA-F4-6460 TCGA-F4-6463 
       11.64         1.48         0.62         7.73        13.38        13.61 
TCGA-F4-6569 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6809 
       13.41         9.80         1.51         0.53         0.53         1.25 
TCGA-G4-6302 TCGA-G4-6304 TCGA-G4-6309 TCGA-G4-6625 TCGA-G4-6627 TCGA-AF-2687 
       43.04        53.62        51.75        91.76        47.15        24.13 
TCGA-AF-2690 TCGA-AF-4110 TCGA-AF-6655 TCGA-AF-6672 TCGA-AG-A01Y TCGA-AH-6544 
       17.23        14.50        11.67        10.39        63.98         0.49 
TCGA-AH-6547 TCGA-BM-6198 TCGA-CI-6619 TCGA-CI-6623 TCGA-CI-6624 TCGA-DC-6681 
        1.45        10.19         6.02         9.37         4.70        12.95 
TCGA-DC-6682 TCGA-EI-6507 TCGA-EI-6509 TCGA-EI-6884 TCGA-EI-6917 TCGA-EI-7004 
       13.02        19.96        17.00        10.78        17.46         8.45 
TCGA-F5-6702 TCGA-F5-6812 TCGA-F5-6861 TCGA-G5-6235 
        2.17         0.66         1.08        55.76 

subtype1 subtype2 subtype3 
    0.07     0.07     0.10 
subtype1 subtype2 subtype3 
  139.17   140.38   102.44 
subtype1 subtype2 subtype3 
  13.790   13.780   12.035 
[1] "0.1 - 139.2 (13.8)" "0.1 - 140.4 (13.8)" "0.1 - 102.4 (12.0)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
  [7] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [13] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [19] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [25] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [31] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [37] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [49] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [97] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[103] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[109] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[127] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[133] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[151] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[157] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[163] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[169] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[175] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[181] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[199] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[223] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[229] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[235] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[253] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[259] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[265] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[271] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[283] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[301] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[307] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[313] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[325] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[331] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[337] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[343] "subtype3" "subtype1" "subtype1"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
  [7] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [13] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [19] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [25] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [31] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [37] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [49] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [97] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[103] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[109] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[127] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[133] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[151] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[157] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[163] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[169] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[175] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[181] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[199] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[223] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[229] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[235] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[253] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[259] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[265] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[271] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[283] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[301] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[307] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[313] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[325] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[331] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[337] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[343] "subtype3" "subtype1" "subtype1"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
  [7] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [13] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [19] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [25] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [31] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [37] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [49] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [97] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[103] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[109] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[127] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[133] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[151] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[157] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[163] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[169] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[175] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[181] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[199] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[223] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[229] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[235] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[253] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[259] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[265] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[271] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[283] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[289] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[301] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[307] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[313] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[319] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[325] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[331] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[337] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[343] "subtype3" "subtype1" "subtype1"
D4V2, continuous
D4V3, binary
          cls
clus         0   1
  subtype1 104  51
  subtype2  97  17
  subtype3  65  25
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  104   51
  subtype2   97   17
  subtype3   65   25
        clus
vv       subtype1 subtype2 subtype3
  COLON       104       97       65
  RECTUM       51       17       25
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      19        0        9        40         2         2         6
  subtype2      21        1        8        33         4         1         5
  subtype3      10        0        8        24         1         0         1
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1         10         25         11       12        13         0
  subtype2          2         15          8        8         5         1
  subtype3          7         13         11        6         6         0
D4V4, multiclass
          vv
clus       T0+T1  T2  T3  T4
  subtype1     4  24 111  16
  subtype2     4  21  76  12
  subtype3     3   8  65  15
D4V5, multiclass
          vv
clus       N0 N1 N2
  subtype1 80 47 25
  subtype2 70 24 20
  subtype3 47 27 17
D4V6, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 104  20   5   0  25
  subtype2  84  10   1   1  15
  subtype3  66   8   2   0  13
D4V7, multiclass
D4V8, binary
          cls
clus        0  1
  subtype1 66 90
  subtype2 61 53
  subtype3 34 57
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   66   90
  subtype2   61   53
  subtype3   34   57
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       66       61       34
  MALE         90       53       57
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   98                             6
  subtype2                   82                            15
  subtype3                   53                            12
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    48                              3
  subtype2                    15                              2
  subtype3                    24                              1
D4V9, multiclass
D4V10, binary
          cls
clus         0   1
  subtype1   4 152
  subtype2   0 114
  subtype3   4  87
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  152
  subtype2    0  114
  subtype3    4   87
     clus
vv    subtype1 subtype2 subtype3
  NO         4        0        4
  YES      152      114       87
          vv
clus       R0 R1 R2 RX
  subtype1 99  1  2 10
  subtype2 68  2  4 13
  subtype3 62  1  0  4
D4V11, multiclass
D4V12, continuous

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2        0   1
  subtype1  67  10
  subtype2 115  27
  subtype3  32   3
  subtype4 103  23
subtype1 subtype2 subtype3 subtype4 
      77      142       35      126 
subtype1 subtype2 subtype3 subtype4 
      10       27        3       23 
$subtype1
TCGA-A6-2671 TCGA-A6-2677 TCGA-A6-2680 TCGA-A6-2685 TCGA-A6-2686 TCGA-A6-3808 
       36.99        17.79        23.15        15.25        16.04         9.14 
TCGA-A6-3809 TCGA-A6-3810 TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5659 TCGA-A6-5660 
       10.29         8.09        15.19        12.07         9.40        11.24 
TCGA-A6-5667 TCGA-A6-6141 TCGA-A6-6142 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6782 
       10.52         8.35        12.10        10.78         8.48         6.21 
TCGA-AA-3489 TCGA-AA-3502 TCGA-AA-3715 TCGA-AA-3818 TCGA-AA-3837 TCGA-AA-3856 
        1.02         1.02         0.99         0.99         1.02         0.99 
TCGA-AA-3947 TCGA-AA-3975 TCGA-AA-A00J TCGA-AA-A00K TCGA-AY-6196 TCGA-AY-6386 
        0.99         0.99        18.02        18.02         0.20        11.84 
TCGA-AZ-4308 TCGA-AZ-4615 TCGA-AZ-6607 TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-5797 
       75.22        32.94         3.19         2.24         3.06         3.29 
TCGA-CA-6717 TCGA-CA-6719 TCGA-CK-6748 TCGA-CM-4747 TCGA-CM-5341 TCGA-CM-5344 
        0.33         1.35         2.01         8.02        19.04        16.04 
TCGA-CM-5348 TCGA-CM-5868 TCGA-CM-6167 TCGA-D5-5538 TCGA-D5-6922 TCGA-D5-6926 
       21.96        17.03        14.99        12.26        10.13         9.04 
TCGA-DM-A28A TCGA-F4-6459 TCGA-F4-6463 TCGA-F4-6570 TCGA-F4-6809 TCGA-F4-6854 
       26.47         8.58        13.61         6.15         1.25         0.53 
TCGA-G4-6310 TCGA-G4-6625 TCGA-AF-2690 TCGA-AF-3400 TCGA-AF-3913 TCGA-AF-6655 
       45.11        91.76        17.23        12.72        10.39        11.67 
TCGA-AG-3581 TCGA-AG-3582 TCGA-AG-3599 TCGA-AG-3731 TCGA-AG-3878 TCGA-AG-4001 
        1.02         1.02         0.99         1.02         0.99         1.02 
TCGA-AG-4007 TCGA-AG-4008 TCGA-AG-A036 TCGA-DC-6156 TCGA-DC-6681 TCGA-DC-6683 
        1.02         1.02        72.07        15.02        12.95        10.06 
TCGA-DT-5265 TCGA-F5-6702 TCGA-F5-6812 TCGA-F5-6863 TCGA-G5-6572 
        5.29         2.17         0.66         0.76        47.08 

$subtype2
TCGA-A6-2672 TCGA-A6-2676 TCGA-A6-2678 TCGA-A6-2683 TCGA-A6-5662 TCGA-A6-5664 
       22.88        23.38        25.68        16.57        14.89        11.90 
TCGA-A6-5665 TCGA-A6-5666 TCGA-A6-6137 TCGA-A6-6138 TCGA-A6-6650 TCGA-A6-6652 
       13.28        23.64        11.44         9.17         9.11        14.96 
TCGA-A6-6654 TCGA-AA-3496 TCGA-AA-3510 TCGA-AA-3555 TCGA-AA-3697 TCGA-AA-3713 
       13.12         1.02         1.02         0.99         0.95         0.95 
TCGA-AA-3811 TCGA-AA-3844 TCGA-AA-3848 TCGA-AA-A00E TCGA-AA-A00Q TCGA-AA-A00U 
        0.99         0.92         0.99        30.02        27.02        17.00 
TCGA-AA-A00W TCGA-AA-A010 TCGA-AA-A01C TCGA-AA-A01I TCGA-AA-A01R TCGA-AA-A01S 
       14.99        20.98        15.02        12.00        35.01         1.02 
TCGA-AA-A01V TCGA-AA-A01X TCGA-AA-A024 TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H 
       35.01        26.01        39.06         2.93        39.95         2.01 
TCGA-AA-A02J TCGA-AA-A02O TCGA-AA-A02Y TCGA-AA-A03J TCGA-AD-6889 TCGA-AD-6899 
        5.03         0.92        39.95        40.93        56.52         1.55 
TCGA-AD-6965 TCGA-AY-6197 TCGA-AZ-4614 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-5407 
        0.20        13.91         5.65        22.36        65.00        61.41 
TCGA-AZ-6599 TCGA-AZ-6603 TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-5256 TCGA-CA-5796 
        6.74        29.56        11.74         1.94         2.14         3.25 
TCGA-CA-6715 TCGA-CA-6716 TCGA-CK-5914 TCGA-CK-6747 TCGA-CM-4746 TCGA-CM-5864 
        0.07         0.26        21.99         2.93        22.98        15.02 
TCGA-CM-6161 TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6172 TCGA-CM-6675 TCGA-CM-6676 
       15.02        16.04        21.96        10.98        13.02        11.08 
TCGA-CM-6679 TCGA-CM-6680 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6537 
       10.06        12.03        13.51        11.51        18.25         4.47 
TCGA-D5-6538 TCGA-D5-6920 TCGA-D5-6923 TCGA-D5-6931 TCGA-DM-A0X9 TCGA-DM-A1D6 
       17.13        12.39        12.39        12.00       119.70        49.91 
TCGA-DM-A1D7 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A282 
       13.28       140.38         7.46        44.32       131.51       139.17 
TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28M TCGA-F4-6460 
       81.37       119.93        35.97        60.79        95.18        13.38 
TCGA-F4-6806 TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6303 TCGA-G4-6309 
        0.66        28.21         8.35        82.39        61.87        51.75 
TCGA-G4-6315 TCGA-G4-6320 TCGA-G4-6322 TCGA-AF-2689 TCGA-AF-5654 TCGA-AF-6136 
       36.72        26.43        26.04        17.95         8.45        15.35 
TCGA-AF-6672 TCGA-AG-3583 TCGA-AG-3586 TCGA-AG-3587 TCGA-AG-3605 TCGA-AG-3727 
       10.39         2.01         1.02         1.02         0.99         0.95 
TCGA-AG-3742 TCGA-AG-3896 TCGA-AG-A008 TCGA-AG-A00C TCGA-AG-A00Y TCGA-AG-A015 
        0.99         1.02        13.91         6.02        23.01        13.02 
TCGA-AG-A016 TCGA-AG-A023 TCGA-AG-A026 TCGA-AG-A02G TCGA-AH-6544 TCGA-AH-6897 
        1.02        51.98         1.94        38.93         0.49         4.60 
TCGA-DC-4745 TCGA-DC-5869 TCGA-DC-6155 TCGA-DC-6157 TCGA-DY-A0XA TCGA-DY-A1DD 
       10.98        12.99        14.01        36.00       126.41        57.24 
TCGA-DY-A1DE TCGA-DY-A1DG TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EF-5831 TCGA-EI-6508 
      129.27        51.48        32.58         0.49         2.40        20.91 
TCGA-EI-6510 TCGA-EI-6512 TCGA-EI-6514 TCGA-EI-6882 TCGA-EI-6884 TCGA-EI-6885 
       18.28        17.69        16.31         8.61        10.78        13.61 
TCGA-F5-6810 TCGA-F5-6811 TCGA-F5-6861 TCGA-G5-6641 
        0.39         1.02         1.08        26.43 

$subtype3
TCGA-A6-2681 TCGA-A6-6140 TCGA-AA-3562 TCGA-AA-3854 TCGA-AA-A004 TCGA-AA-A00F 
       22.06        11.70         1.02         1.02        13.94        34.03 
TCGA-AA-A00L TCGA-AA-A00Z TCGA-AA-A017 TCGA-AA-A01D TCGA-AA-A01F TCGA-AA-A01P 
       17.00        21.99        15.02         0.99        13.02        38.07 
TCGA-AA-A01T TCGA-AA-A029 TCGA-AA-A02K TCGA-AA-A02W TCGA-AD-5900 TCGA-AY-5543 
       33.04        51.95        13.97        40.96         0.07        15.75 
TCGA-CM-5863 TCGA-CM-6164 TCGA-D5-6531 TCGA-D5-6898 TCGA-D5-6924 TCGA-DM-A280 
       15.02        29.03        17.75         7.53        14.27         7.73 
TCGA-F4-6855 TCGA-G4-6323 TCGA-AG-3891 TCGA-AG-4022 TCGA-AG-A011 TCGA-AG-A014 
        9.86        13.78         0.99         0.99        17.03        15.91 
TCGA-AG-A01J TCGA-AG-A02N TCGA-AG-A02X TCGA-AH-6549 TCGA-EI-6509 
        1.02        61.94        40.96         0.20        17.00 

$subtype4
TCGA-A6-2684 TCGA-A6-3807 TCGA-A6-5661 TCGA-A6-6648 TCGA-A6-6653 TCGA-A6-6780 
       12.72        10.92        10.06        11.31         9.27        11.64 
TCGA-A6-6781 TCGA-AA-3710 TCGA-AA-3862 TCGA-AA-3950 TCGA-AA-3986 TCGA-AA-A00A 
        9.63         1.02         1.02         1.02         0.99        18.02 
TCGA-AA-A00N TCGA-AA-A00R TCGA-AA-A01K TCGA-AA-A01Q TCGA-AA-A02R TCGA-AA-A03F 
        4.01         0.99        13.02         1.02        22.03        18.02 
TCGA-AD-6548 TCGA-AM-5820 TCGA-AM-5821 TCGA-AU-6004 TCGA-AZ-4315 TCGA-AZ-4323 
        0.10         0.46         0.92         6.67        58.39         1.41 
TCGA-AZ-4616 TCGA-AZ-6598 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6605 TCGA-CA-6718 
        5.13        49.41        12.10        99.98         5.23         0.10 
TCGA-CK-5916 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4744 TCGA-CM-4748 TCGA-CM-4750 
       21.01       124.11         6.05         7.04         7.04         8.02 
TCGA-CM-4752 TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5862 TCGA-CM-6162 
        4.04        19.04        16.01        15.02         5.03        12.00 
TCGA-CM-6163 TCGA-CM-6168 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6674 
       14.04        12.99        13.02        15.02        14.04        12.95 
TCGA-CM-6677 TCGA-CM-6678 TCGA-D5-5539 TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6533 
       11.08        11.01        19.59        20.19        20.42         1.32 
TCGA-D5-6534 TCGA-D5-6535 TCGA-D5-6536 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 
        7.92        15.12        17.85        12.49        16.14        15.58 
TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6930 TCGA-D5-6932 TCGA-DM-A0XF TCGA-DM-A1D0 
        9.44        11.64         1.48         0.62        38.20       130.65 
TCGA-DM-A1D4 TCGA-DM-A1D8 TCGA-DM-A1HB TCGA-DM-A288 TCGA-F4-6461 TCGA-F4-6569 
       92.75        12.59       135.65        14.01        11.11        13.41 
TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6808 TCGA-F4-6856 
        9.80         1.51         0.53         0.53         0.46         0.66 
TCGA-G4-6293 TCGA-G4-6298 TCGA-G4-6299 TCGA-G4-6302 TCGA-G4-6304 TCGA-G4-6306 
      107.67        23.51        74.56        43.04        53.62        44.65 
TCGA-G4-6307 TCGA-G4-6311 TCGA-G4-6314 TCGA-G4-6317 TCGA-G4-6321 TCGA-G4-6586 
       55.04        39.42        35.93        36.00        22.06        35.80 
TCGA-G4-6588 TCGA-G4-6626 TCGA-G4-6627 TCGA-G4-6628 TCGA-AF-3914 TCGA-AG-3893 
       26.17        46.75        47.15        52.96        12.82         0.99 
TCGA-AG-A002 TCGA-AG-A00H TCGA-AG-A01N TCGA-AG-A01W TCGA-AG-A01Y TCGA-AG-A020 
       20.94        25.94        12.00        70.03        63.98        10.98 
TCGA-AH-6547 TCGA-AH-6643 TCGA-AH-6644 TCGA-BM-6198 TCGA-CL-5918 TCGA-DC-4749 
        1.45         0.69         0.72        10.19         7.99        11.01 
TCGA-DC-5337 TCGA-DC-6158 TCGA-DC-6160 TCGA-DC-6682 TCGA-DY-A1DC TCGA-DY-A1DF 
       15.02         6.97        30.05        13.02        41.33        24.13 
TCGA-EI-6506 TCGA-EI-6507 TCGA-EI-6511 TCGA-EI-6513 TCGA-EI-6881 TCGA-EI-6917 
       20.55        19.96        15.85        16.34        16.37        17.46 
TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6813 TCGA-F5-6864 TCGA-G5-6233 TCGA-G5-6235 
        3.39         0.85         0.69         0.46        18.25        55.76 

subtype1 subtype2 subtype3 subtype4 
    0.20     0.07     0.07     0.10 
subtype1 subtype2 subtype3 subtype4 
   91.76   140.38    61.94   135.65 
subtype1 subtype2 subtype3 subtype4 
    9.14    13.56    15.02    12.97 
[1] "0.2 - 91.8 (9.1)"   "0.1 - 140.4 (13.6)" "0.1 - 61.9 (15.0)" 
[4] "0.1 - 135.7 (13.0)"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype4" "subtype1" "subtype1" "subtype4"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype2" "subtype1" "subtype2" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype4" "subtype1" "subtype4"
 [61] "subtype1" "subtype4" "subtype3" "subtype4" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
[103] "subtype3" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[109] "subtype4" "subtype4" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype4" "subtype4" "subtype2" "subtype1" "subtype4"
[121] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype4"
[127] "subtype4" "subtype2" "subtype4" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype1" "subtype4" "subtype1" "subtype2" "subtype4"
[145] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[151] "subtype1" "subtype4" "subtype4" "subtype4" "subtype1" "subtype1"
[157] "subtype1" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[163] "subtype2" "subtype1" "subtype2" "subtype4" "subtype4" "subtype3"
[169] "subtype2" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[175] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype4"
[181] "subtype4" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[187] "subtype2" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[193] "subtype4" "subtype4" "subtype4" "subtype2" "subtype2" "subtype4"
[199] "subtype4" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[205] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[211] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype2"
[217] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype4" "subtype3" "subtype2" "subtype4" "subtype1" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[235] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype4"
[241] "subtype4" "subtype2" "subtype4" "subtype4" "subtype1" "subtype1"
[247] "subtype3" "subtype4" "subtype4" "subtype2" "subtype2" "subtype2"
[253] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
[259] "subtype4" "subtype2" "subtype1" "subtype4" "subtype4" "subtype2"
[265] "subtype4" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
[271] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[277] "subtype1" "subtype1" "subtype1" "subtype4" "subtype2" "subtype2"
[283] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[289] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[295] "subtype1" "subtype3" "subtype4" "subtype2" "subtype1" "subtype1"
[301] "subtype1" "subtype3" "subtype4" "subtype2" "subtype2" "subtype4"
[307] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[313] "subtype4" "subtype4" "subtype4" "subtype4" "subtype2" "subtype2"
[319] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype4"
[325] "subtype3" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
[331] "subtype2" "subtype4" "subtype4" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype4" "subtype4" "subtype1" "subtype4" "subtype1"
[343] "subtype1" "subtype2" "subtype4" "subtype2" "subtype2" "subtype4"
[349] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype4"
[355] "subtype2" "subtype3" "subtype2" "subtype4" "subtype2" "subtype4"
[361] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[367] "subtype4" "subtype4" "subtype1" "subtype2" "subtype2" "subtype1"
[373] "subtype4" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[379] "subtype1" "subtype2"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype4" "subtype1" "subtype1" "subtype4"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype2" "subtype1" "subtype2" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype4" "subtype1" "subtype4"
 [61] "subtype1" "subtype4" "subtype3" "subtype4" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
[103] "subtype3" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[109] "subtype4" "subtype4" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype4" "subtype4" "subtype2" "subtype1" "subtype4"
[121] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype4"
[127] "subtype4" "subtype2" "subtype4" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype1" "subtype4" "subtype1" "subtype2" "subtype4"
[145] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[151] "subtype1" "subtype4" "subtype4" "subtype4" "subtype1" "subtype1"
[157] "subtype1" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[163] "subtype2" "subtype1" "subtype2" "subtype4" "subtype4" "subtype3"
[169] "subtype2" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[175] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype4"
[181] "subtype4" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[187] "subtype2" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[193] "subtype4" "subtype4" "subtype4" "subtype2" "subtype2" "subtype4"
[199] "subtype4" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[205] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[211] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype2"
[217] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype4" "subtype3" "subtype2" "subtype4" "subtype1" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[235] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype4"
[241] "subtype4" "subtype2" "subtype4" "subtype4" "subtype1" "subtype1"
[247] "subtype3" "subtype4" "subtype4" "subtype2" "subtype2" "subtype2"
[253] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
[259] "subtype4" "subtype2" "subtype1" "subtype4" "subtype4" "subtype2"
[265] "subtype4" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
[271] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[277] "subtype1" "subtype1" "subtype1" "subtype4" "subtype2" "subtype2"
[283] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[289] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[295] "subtype1" "subtype3" "subtype4" "subtype2" "subtype1" "subtype1"
[301] "subtype1" "subtype3" "subtype4" "subtype2" "subtype2" "subtype4"
[307] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[313] "subtype4" "subtype4" "subtype4" "subtype4" "subtype2" "subtype2"
[319] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype4"
[325] "subtype3" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
[331] "subtype2" "subtype4" "subtype4" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype4" "subtype4" "subtype1" "subtype4" "subtype1"
[343] "subtype1" "subtype2" "subtype4" "subtype2" "subtype2" "subtype4"
[349] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype4"
[355] "subtype2" "subtype3" "subtype2" "subtype4" "subtype2" "subtype4"
[361] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[367] "subtype4" "subtype4" "subtype1" "subtype2" "subtype2" "subtype1"
[373] "subtype4" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[379] "subtype1" "subtype2"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype4" "subtype1" "subtype1" "subtype4"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype2" "subtype1" "subtype2" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype4" "subtype1" "subtype4"
 [61] "subtype1" "subtype4" "subtype3" "subtype4" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
[103] "subtype3" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[109] "subtype4" "subtype4" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype4" "subtype4" "subtype2" "subtype1" "subtype4"
[121] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype4"
[127] "subtype4" "subtype2" "subtype4" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype1" "subtype4" "subtype1" "subtype2" "subtype4"
[145] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[151] "subtype1" "subtype4" "subtype4" "subtype4" "subtype1" "subtype1"
[157] "subtype1" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[163] "subtype2" "subtype1" "subtype2" "subtype4" "subtype4" "subtype3"
[169] "subtype2" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[175] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype4"
[181] "subtype4" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[187] "subtype2" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[193] "subtype4" "subtype4" "subtype4" "subtype2" "subtype2" "subtype4"
[199] "subtype4" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[205] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[211] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype2"
[217] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype4" "subtype3" "subtype2" "subtype4" "subtype1" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[235] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype4"
[241] "subtype4" "subtype2" "subtype4" "subtype4" "subtype1" "subtype1"
[247] "subtype3" "subtype4" "subtype4" "subtype2" "subtype2" "subtype2"
[253] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
[259] "subtype4" "subtype2" "subtype1" "subtype4" "subtype4" "subtype2"
[265] "subtype4" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
[271] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[277] "subtype1" "subtype1" "subtype1" "subtype4" "subtype2" "subtype2"
[283] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[289] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[295] "subtype1" "subtype3" "subtype4" "subtype2" "subtype1" "subtype1"
[301] "subtype1" "subtype3" "subtype4" "subtype2" "subtype2" "subtype4"
[307] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[313] "subtype4" "subtype4" "subtype4" "subtype4" "subtype2" "subtype2"
[319] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype4"
[325] "subtype3" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
[331] "subtype2" "subtype4" "subtype4" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype4" "subtype4" "subtype1" "subtype4" "subtype1"
[343] "subtype1" "subtype2" "subtype4" "subtype2" "subtype2" "subtype4"
[349] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype4"
[355] "subtype2" "subtype3" "subtype2" "subtype4" "subtype2" "subtype4"
[361] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[367] "subtype4" "subtype4" "subtype1" "subtype2" "subtype2" "subtype1"
[373] "subtype4" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[379] "subtype1" "subtype2"
D5V2, continuous
D5V3, binary
          cls
clus         0   1
  subtype1  70  30
  subtype2 126  53
  subtype3  32  10
  subtype4 103  37
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   70   30
  subtype2  126   53
  subtype3   32   10
  subtype4  103   37
        clus
vv       subtype1 subtype2 subtype3 subtype4
  COLON        70      126       32      103
  RECTUM       30       53       10       37
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      10        0       11        23         3         0         3
  subtype2      27        0       12        43         4         1        12
  subtype3       8        1        3        17         0         0         2
  subtype4      25        0        6        51         2         1         8
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          4         18         10        9         7         0
  subtype2          7         26         10       26         7         1
  subtype3          0          3          5        1         1         0
  subtype4          5         14         14        7         4         0
D5V4, multiclass
          vv
clus       T0+T1  T2  T3  T4
  subtype1     0  13  72  14
  subtype2     6  31 123  19
  subtype3     0   8  32   1
  subtype4     5  24  97  14
D5V5, multiclass
          vv
clus       N0 N1 N2
  subtype1 47 33 19
  subtype2 95 50 34
  subtype3 29  6  6
  subtype4 89 28 22
D5V6, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  78  12   5   0   3
  subtype2 130  32   0   1  15
  subtype3  37   2   0   0   3
  subtype4 112   8   3   0  15
D5V7, multiclass
D5V8, binary
          cls
clus        0  1
  subtype1 42 58
  subtype2 88 91
  subtype3 19 23
  subtype4 66 74
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   42   58
  subtype2   88   91
  subtype3   19   23
  subtype4   66   74
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       42       88       19       66
  MALE         58       91       23       74
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   61                             9
  subtype2                  119                             7
  subtype3                   27                             5
  subtype4                   86                            17
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    24                              4
  subtype2                    48                              4
  subtype3                     9                              1
  subtype4                    36                              1
D5V9, multiclass
D5V10, binary
          cls
clus         0   1
  subtype1   3  97
  subtype2   3 176
  subtype3   0  42
  subtype4   2 138
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   97
  subtype2    3  176
  subtype3    0   42
  subtype4    2  138
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         3        3        0        2
  YES       97      176       42      138
          vv
clus        R0  R1  R2  RX
  subtype1  73   0   7   7
  subtype2 113   1  18   6
  subtype3  38   0   1   1
  subtype4 112   1   2   5
D5V11, multiclass
D5V12, continuous

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2        0   1
  subtype1  64   8
  subtype2 164  31
  subtype3  71  14
  subtype4  18  10
subtype1 subtype2 subtype3 subtype4 
      72      195       85       28 
subtype1 subtype2 subtype3 subtype4 
       8       31       14       10 
$subtype1
TCGA-A6-2671 TCGA-A6-2677 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-3808 TCGA-A6-5656 
       36.99        17.79        12.72        15.25         9.14        15.19 
TCGA-A6-5657 TCGA-A6-5660 TCGA-A6-6138 TCGA-A6-6142 TCGA-A6-6649 TCGA-A6-6651 
       12.07        11.24         9.17        12.10        10.78         8.48 
TCGA-A6-6652 TCGA-A6-6782 TCGA-AA-3562 TCGA-AA-3818 TCGA-AA-3837 TCGA-AA-3950 
       14.96         6.21         1.02         0.99         1.02         1.02 
TCGA-AA-3986 TCGA-AA-A00J TCGA-AA-A00K TCGA-AA-A02W TCGA-AD-5900 TCGA-AM-5820 
        0.99        18.02        18.02        40.96         0.07         0.46 
TCGA-AU-6004 TCGA-AY-6196 TCGA-AZ-4308 TCGA-AZ-6607 TCGA-CA-5797 TCGA-CA-6717 
        6.67         0.20        75.22         3.19         3.29         0.33 
TCGA-CA-6719 TCGA-CM-4747 TCGA-CM-5868 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6677 
        1.35         8.02        17.03        14.99        12.99        11.08 
TCGA-D5-5538 TCGA-D5-6534 TCGA-D5-6922 TCGA-D5-6924 TCGA-D5-6926 TCGA-DM-A1D0 
       12.26         7.92        10.13        14.27         9.04       130.65 
TCGA-F4-6459 TCGA-F4-6463 TCGA-F4-6805 TCGA-F4-6809 TCGA-F4-6854 TCGA-F4-6856 
        8.58        13.61         0.53         1.25         0.53         0.66 
TCGA-G4-6302 TCGA-G4-6310 TCGA-G4-6314 TCGA-G4-6625 TCGA-AF-2690 TCGA-AF-3400 
       43.04        45.11        35.93        91.76        17.23        12.72 
TCGA-AF-3914 TCGA-AF-6655 TCGA-AG-3581 TCGA-AG-3893 TCGA-AG-A014 TCGA-AG-A036 
       12.82        11.67         1.02         0.99        15.91        72.07 
TCGA-DC-6156 TCGA-DC-6681 TCGA-DC-6683 TCGA-DT-5265 TCGA-EI-6514 TCGA-F5-6571 
       15.02        12.95        10.06         5.29        16.31         0.85 
TCGA-F5-6702 TCGA-F5-6812 TCGA-F5-6861 TCGA-F5-6863 TCGA-G5-6235 TCGA-G5-6572 
        2.17         0.66         1.08         0.76        55.76        47.08 

$subtype2
TCGA-A6-2672 TCGA-A6-2676 TCGA-A6-2678 TCGA-A6-2680 TCGA-A6-2681 TCGA-A6-2683 
       22.88        23.38        25.68        23.15        22.06        16.57 
TCGA-A6-2686 TCGA-A6-3809 TCGA-A6-3810 TCGA-A6-5659 TCGA-A6-5662 TCGA-A6-5664 
       16.04        10.29         8.09         9.40        14.89        11.90 
TCGA-A6-5665 TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6140 TCGA-A6-6141 
       13.28        23.64        10.52        11.44        11.70         8.35 
TCGA-A6-6650 TCGA-A6-6654 TCGA-AA-3489 TCGA-AA-3496 TCGA-AA-3502 TCGA-AA-3510 
        9.11        13.12         1.02         1.02         1.02         1.02 
TCGA-AA-3555 TCGA-AA-3697 TCGA-AA-3710 TCGA-AA-3713 TCGA-AA-3715 TCGA-AA-3811 
        0.99         0.95         1.02         0.95         0.99         0.99 
TCGA-AA-3844 TCGA-AA-3848 TCGA-AA-3854 TCGA-AA-3856 TCGA-AA-3947 TCGA-AA-3975 
        0.92         0.99         1.02         0.99         0.99         0.99 
TCGA-AA-A004 TCGA-AA-A00E TCGA-AA-A00F TCGA-AA-A00L TCGA-AA-A00Q TCGA-AA-A00U 
       13.94        30.02        34.03        17.00        27.02        17.00 
TCGA-AA-A00W TCGA-AA-A00Z TCGA-AA-A010 TCGA-AA-A017 TCGA-AA-A01C TCGA-AA-A01D 
       14.99        21.99        20.98        15.02        15.02         0.99 
TCGA-AA-A01F TCGA-AA-A01I TCGA-AA-A01P TCGA-AA-A01R TCGA-AA-A01S TCGA-AA-A01T 
       13.02        12.00        38.07        35.01         1.02        33.04 
TCGA-AA-A01V TCGA-AA-A01X TCGA-AA-A024 TCGA-AA-A029 TCGA-AA-A02E TCGA-AA-A02F 
       35.01        26.01        39.06        51.95         2.93        39.95 
TCGA-AA-A02J TCGA-AA-A02O TCGA-AA-A02Y TCGA-AA-A03J TCGA-AD-6889 TCGA-AD-6899 
        5.03         0.92        39.95        40.93        56.52         1.55 
TCGA-AD-6965 TCGA-AY-5543 TCGA-AY-6386 TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4682 
        0.20        15.75        11.84        58.39         5.65        22.36 
TCGA-AZ-4684 TCGA-AZ-5407 TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6603 TCGA-AZ-6606 
       65.00        61.41         6.74        12.10        29.56        11.74 
TCGA-AZ-6608 TCGA-CA-5254 TCGA-CA-5796 TCGA-CA-6715 TCGA-CA-6716 TCGA-CK-5914 
        1.94         2.24         3.25         0.07         0.26        21.99 
TCGA-CK-6747 TCGA-CK-6748 TCGA-CK-6751 TCGA-CM-4746 TCGA-CM-5341 TCGA-CM-5344 
        2.93         2.01       124.11        22.98        19.04        16.04 
TCGA-CM-5348 TCGA-CM-5860 TCGA-CM-5864 TCGA-CM-6161 TCGA-CM-6165 TCGA-CM-6166 
       21.96        16.01        15.02        15.02        16.04        21.96 
TCGA-CM-6172 TCGA-CM-6675 TCGA-CM-6676 TCGA-CM-6679 TCGA-CM-6680 TCGA-D5-5540 
       10.98        13.02        11.08        10.06        12.03        13.51 
TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6920 
       11.51        18.25        15.12         4.47        17.13        12.39 
TCGA-D5-6923 TCGA-D5-6931 TCGA-D5-6932 TCGA-DM-A0X9 TCGA-DM-A1D4 TCGA-DM-A1D6 
       12.39        12.00         0.62       119.70        92.75        49.91 
TCGA-DM-A1D7 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A282 
       13.28       140.38         7.46        44.32       131.51       139.17 
TCGA-DM-A28A TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28M 
       26.47        81.37       119.93        35.97        60.79        95.18 
TCGA-F4-6460 TCGA-F4-6806 TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6299 
       13.38         0.66        28.21         8.35        82.39        74.56 
TCGA-G4-6303 TCGA-G4-6309 TCGA-G4-6315 TCGA-G4-6320 TCGA-G4-6322 TCGA-G4-6323 
       61.87        51.75        36.72        26.43        26.04        13.78 
TCGA-AF-2689 TCGA-AF-3913 TCGA-AF-5654 TCGA-AF-6136 TCGA-AF-6672 TCGA-AG-3582 
       17.95        10.39         8.45        15.35        10.39         1.02 
TCGA-AG-3583 TCGA-AG-3586 TCGA-AG-3587 TCGA-AG-3599 TCGA-AG-3605 TCGA-AG-3727 
        2.01         1.02         1.02         0.99         0.99         0.95 
TCGA-AG-3731 TCGA-AG-3742 TCGA-AG-3878 TCGA-AG-3896 TCGA-AG-4001 TCGA-AG-4007 
        1.02         0.99         0.99         1.02         1.02         1.02 
TCGA-AG-4008 TCGA-AG-4022 TCGA-AG-A008 TCGA-AG-A00C TCGA-AG-A00Y TCGA-AG-A011 
        1.02         0.99        13.91         6.02        23.01        17.03 
TCGA-AG-A015 TCGA-AG-A016 TCGA-AG-A01J TCGA-AG-A020 TCGA-AG-A023 TCGA-AG-A026 
       13.02         1.02         1.02        10.98        51.98         1.94 
TCGA-AG-A02G TCGA-AG-A02N TCGA-AH-6544 TCGA-AH-6549 TCGA-AH-6897 TCGA-DC-4745 
       38.93        61.94         0.49         0.20         4.60        10.98 
TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6155 TCGA-DC-6157 TCGA-DY-A0XA TCGA-DY-A1DD 
       15.02        12.99        14.01        36.00       126.41        57.24 
TCGA-DY-A1DE TCGA-DY-A1DG TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EF-5831 TCGA-EI-6510 
      129.27        51.48        32.58         0.49         2.40        18.28 
TCGA-EI-6512 TCGA-EI-6882 TCGA-EI-6884 TCGA-EI-6885 TCGA-EI-6917 TCGA-F5-6810 
       17.69         8.61        10.78        13.61        17.46         0.39 
TCGA-F5-6811 TCGA-F5-6813 TCGA-G5-6641 
        1.02         0.69        26.43 

$subtype3
TCGA-A6-3807 TCGA-A6-5661 TCGA-A6-6648 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 
       10.92        10.06        11.31         9.27        11.64         9.63 
TCGA-AA-3862 TCGA-AA-A00A TCGA-AA-A00N TCGA-AA-A00R TCGA-AA-A01K TCGA-AA-A01Q 
        1.02        18.02         4.01         0.99        13.02         1.02 
TCGA-AA-A03F TCGA-AD-6548 TCGA-AM-5821 TCGA-AZ-4323 TCGA-AZ-4616 TCGA-AZ-6601 
       18.02         0.10         0.92         1.41         5.13        99.98 
TCGA-AZ-6605 TCGA-CA-6718 TCGA-CK-5916 TCGA-CM-4743 TCGA-CM-4744 TCGA-CM-4750 
        5.23         0.10        21.01         6.05         7.04         8.02 
TCGA-CM-4752 TCGA-CM-5862 TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6169 TCGA-CM-6170 
        4.04         5.03        14.04        29.03        13.02        15.02 
TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6678 TCGA-D5-5539 TCGA-D5-6529 TCGA-D5-6530 
       14.04        12.95        11.01        19.59        20.19        20.42 
TCGA-D5-6533 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6898 TCGA-D5-6927 
        1.32        12.49        16.14        15.58         7.53         9.44 
TCGA-D5-6928 TCGA-D5-6930 TCGA-DM-A0XF TCGA-DM-A1HB TCGA-F4-6569 TCGA-F4-6703 
       11.64         1.48        38.20       135.65        13.41         9.80 
TCGA-F4-6807 TCGA-F4-6808 TCGA-G4-6298 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6311 
        0.53         0.46        23.51        44.65        55.04        39.42 
TCGA-G4-6317 TCGA-G4-6321 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6626 TCGA-G4-6627 
       36.00        22.06        35.80        26.17        46.75        47.15 
TCGA-G4-6628 TCGA-AG-3891 TCGA-AG-A002 TCGA-AG-A00H TCGA-AG-A01N TCGA-AG-A01W 
       52.96         0.99        20.94        25.94        12.00        70.03 
TCGA-AG-A01Y TCGA-AG-A02X TCGA-AH-6547 TCGA-AH-6643 TCGA-AH-6644 TCGA-BM-6198 
       63.98        40.96         1.45         0.69         0.72        10.19 
TCGA-CL-5918 TCGA-DC-4749 TCGA-DC-6158 TCGA-DC-6160 TCGA-DC-6682 TCGA-DY-A1DC 
        7.99        11.01         6.97        30.05        13.02        41.33 
TCGA-EI-6506 TCGA-EI-6507 TCGA-EI-6511 TCGA-EI-6513 TCGA-EI-6881 TCGA-F5-6465 
       20.55        19.96        15.85        16.34        16.37         3.39 
TCGA-G5-6233 
       18.25 

$subtype4
TCGA-AA-A02H TCGA-AA-A02K TCGA-AA-A02R TCGA-AY-6197 TCGA-AZ-4615 TCGA-AZ-6598 
        2.01        13.97        22.03        13.91        32.94        49.41 
TCGA-CA-5255 TCGA-CA-5256 TCGA-CM-4748 TCGA-CM-5349 TCGA-CM-5861 TCGA-CM-5863 
        3.06         2.14         7.04        19.04        15.02        15.02 
TCGA-CM-6162 TCGA-D5-6531 TCGA-D5-6536 TCGA-DM-A1D8 TCGA-DM-A280 TCGA-DM-A288 
       12.00        17.75        17.85        12.59         7.73        14.01 
TCGA-F4-6461 TCGA-F4-6570 TCGA-F4-6704 TCGA-F4-6855 TCGA-G4-6293 TCGA-G4-6304 
       11.11         6.15         1.51         9.86       107.67        53.62 
TCGA-DY-A1DF TCGA-EI-6508 TCGA-EI-6509 TCGA-F5-6864 
       24.13        20.91        17.00         0.46 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.07     0.10     0.46 
subtype1 subtype2 subtype3 subtype4 
  130.65   140.38   135.65   107.67 
subtype1 subtype2 subtype3 subtype4 
   10.93    13.28    13.02    13.99 
[1] "0.1 - 130.7 (10.9)" "0.1 - 140.4 (13.3)" "0.1 - 135.7 (13.0)"
[4] "0.5 - 107.7 (14.0)"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [31] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [37] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [61] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype4"
 [97] "subtype2" "subtype4" "subtype1" "subtype2" "subtype3" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype3" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
[115] "subtype1" "subtype2" "subtype3" "subtype2" "subtype4" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[133] "subtype2" "subtype4" "subtype4" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype4" "subtype3" "subtype3" "subtype2" "subtype2"
[157] "subtype2" "subtype4" "subtype2" "subtype4" "subtype3" "subtype4"
[163] "subtype2" "subtype1" "subtype2" "subtype4" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[175] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[187] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype3"
[193] "subtype1" "subtype2" "subtype4" "subtype2" "subtype2" "subtype3"
[199] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[205] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[235] "subtype4" "subtype1" "subtype3" "subtype4" "subtype3" "subtype4"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[247] "subtype4" "subtype1" "subtype4" "subtype2" "subtype2" "subtype2"
[253] "subtype3" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[259] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[265] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[271] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[283] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[295] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[307] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[313] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[319] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[325] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[331] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[343] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype4"
[349] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[355] "subtype4" "subtype4" "subtype2" "subtype3" "subtype2" "subtype3"
[361] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[367] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[373] "subtype2" "subtype1" "subtype1" "subtype4" "subtype3" "subtype1"
[379] "subtype1" "subtype2"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [31] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [37] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [61] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype4"
 [97] "subtype2" "subtype4" "subtype1" "subtype2" "subtype3" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype3" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
[115] "subtype1" "subtype2" "subtype3" "subtype2" "subtype4" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[133] "subtype2" "subtype4" "subtype4" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype4" "subtype3" "subtype3" "subtype2" "subtype2"
[157] "subtype2" "subtype4" "subtype2" "subtype4" "subtype3" "subtype4"
[163] "subtype2" "subtype1" "subtype2" "subtype4" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[175] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[187] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype3"
[193] "subtype1" "subtype2" "subtype4" "subtype2" "subtype2" "subtype3"
[199] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[205] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[235] "subtype4" "subtype1" "subtype3" "subtype4" "subtype3" "subtype4"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[247] "subtype4" "subtype1" "subtype4" "subtype2" "subtype2" "subtype2"
[253] "subtype3" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[259] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[265] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[271] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[283] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[295] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[307] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[313] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[319] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[325] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[331] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[343] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype4"
[349] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[355] "subtype4" "subtype4" "subtype2" "subtype3" "subtype2" "subtype3"
[361] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[367] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[373] "subtype2" "subtype1" "subtype1" "subtype4" "subtype3" "subtype1"
[379] "subtype1" "subtype2"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [31] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [37] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [49] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [61] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype4"
 [97] "subtype2" "subtype4" "subtype1" "subtype2" "subtype3" "subtype2"
[103] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype3" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
[115] "subtype1" "subtype2" "subtype3" "subtype2" "subtype4" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[133] "subtype2" "subtype4" "subtype4" "subtype2" "subtype1" "subtype2"
[139] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype4" "subtype3" "subtype3" "subtype2" "subtype2"
[157] "subtype2" "subtype4" "subtype2" "subtype4" "subtype3" "subtype4"
[163] "subtype2" "subtype1" "subtype2" "subtype4" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[175] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[181] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[187] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype3"
[193] "subtype1" "subtype2" "subtype4" "subtype2" "subtype2" "subtype3"
[199] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[205] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[235] "subtype4" "subtype1" "subtype3" "subtype4" "subtype3" "subtype4"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[247] "subtype4" "subtype1" "subtype4" "subtype2" "subtype2" "subtype2"
[253] "subtype3" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[259] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[265] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[271] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[283] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[295] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[307] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[313] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[319] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[325] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[331] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[337] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[343] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype4"
[349] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[355] "subtype4" "subtype4" "subtype2" "subtype3" "subtype2" "subtype3"
[361] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[367] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[373] "subtype2" "subtype1" "subtype1" "subtype4" "subtype3" "subtype1"
[379] "subtype1" "subtype2"
D6V2, continuous
D6V3, binary
          cls
clus         0   1
  subtype1  57  22
  subtype2 177  73
  subtype3  65  29
  subtype4  32   6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   57   22
  subtype2  177   73
  subtype3   65   29
  subtype4   32    6
        clus
vv       subtype1 subtype2 subtype3 subtype4
  COLON        57      177       65       32
  RECTUM       22       73       29        6
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      12        0        2        23         1         0         1
  subtype2      34        1       22        63         6         1        19
  subtype3      22        0        5        33         1         1         4
  subtype4       2        0        3        15         1         0         1
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          4         14          8        4         9         0
  subtype2          8         33         17       33         7         1
  subtype3          4          8          7        4         3         0
  subtype4          0          6          7        2         0         0
D6V4, multiclass
          vv
clus       T0+T1  T2  T3  T4
  subtype1     0  13  54  11
  subtype2     6  40 177  26
  subtype3     4  22  61   7
  subtype4     1   1  32   4
D6V5, multiclass
          vv
clus        N0  N1  N2
  subtype1  40  20  18
  subtype2 133  73  43
  subtype3  66  16  11
  subtype4  21   8   9
D6V6, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  60   8   5   0   4
  subtype2 189  40   0   1  20
  subtype3  76   4   3   0  10
  subtype4  32   2   0   0   2
D6V7, multiclass
D6V8, binary
          cls
clus         0   1
  subtype1  37  42
  subtype2 118 132
  subtype3  38  56
  subtype4  22  16
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   37   42
  subtype2  118  132
  subtype3   38   56
  subtype4   22   16
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       37      118       38       22
  MALE         42      132       56       16
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   47                            10
  subtype2                  163                            14
  subtype3                   56                             9
  subtype4                   27                             5
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    19                              3
  subtype2                    64                              6
  subtype3                    29                              0
  subtype4                     5                              1
D6V9, multiclass
D6V10, binary
          cls
clus         0   1
  subtype1   4  75
  subtype2   3 247
  subtype3   1  93
  subtype4   0  38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   75
  subtype2    3  247
  subtype3    1   93
  subtype4    0   38
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         4        3        1        0
  YES       75      247       93       38
          vv
clus        R0  R1  R2  RX
  subtype1  62   1   1   3
  subtype2 169   1  23  11
  subtype3  77   0   1   3
  subtype4  28   0   3   2
D6V11, multiclass
D6V12, continuous

Clustering(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 80 12
  subtype2 77 22
  subtype3 86 18
subtype1 subtype2 subtype3 
      92       99      104 
subtype1 subtype2 subtype3 
      12       22       18 
$subtype1
TCGA-A6-2675 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-5664 TCGA-A6-5667 TCGA-A6-6138 
       27.81        12.72        15.25        11.90        10.52         9.17 
TCGA-A6-6142 TCGA-A6-6651 TCGA-A6-6654 TCGA-A6-6781 TCGA-A6-6782 TCGA-A6-A566 
       12.10         8.48        13.12         9.63         6.21        24.92 
TCGA-A6-A56B TCGA-A6-A5ZU TCGA-AA-3489 TCGA-AA-3496 TCGA-AA-A01P TCGA-AD-5900 
       52.44         3.81         1.02         1.02        38.07         0.07 
TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6964 TCGA-AM-5820 TCGA-AY-6196 TCGA-AZ-4323 
        1.55         1.02         0.99         0.46         0.20         1.41 
TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-6717 TCGA-CA-6718 TCGA-CA-6719 TCGA-CK-5916 
        5.23         3.19         0.33         0.10         1.35        21.01 
TCGA-CK-6748 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-6162 TCGA-CM-6165 
        2.01        21.96        19.04        16.01        12.00        16.04 
TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6677 TCGA-CM-6679 
       14.99        12.99        13.02        15.02        11.08        10.06 
TCGA-D5-5538 TCGA-D5-5541 TCGA-D5-6529 TCGA-D5-6531 TCGA-D5-6534 TCGA-D5-6541 
       12.26        11.51        20.19        17.75         7.92        15.58 
TCGA-D5-6924 TCGA-D5-6926 TCGA-D5-6928 TCGA-F4-6459 TCGA-F4-6460 TCGA-F4-6463 
       14.27         9.04        11.64         8.58        13.38        13.61 
TCGA-F4-6569 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6809 
       13.41         9.80         1.51         0.53         0.53         1.25 
TCGA-F4-6855 TCGA-G4-6297 TCGA-G4-6299 TCGA-G4-6302 TCGA-G4-6303 TCGA-G4-6311 
        9.86        82.39        74.56        43.04        61.87        39.42 
TCGA-G4-6314 TCGA-G4-6625 TCGA-G4-6627 TCGA-AF-2687 TCGA-AF-2690 TCGA-AF-3911 
       35.93        91.76        47.15        24.13        17.23        25.02 
TCGA-AF-6655 TCGA-AG-4022 TCGA-AH-6643 TCGA-AH-6644 TCGA-DC-6156 TCGA-DC-6158 
       11.67         0.99         0.69         0.72        15.02         6.97 
TCGA-DT-5265 TCGA-DY-A1DE TCGA-EF-5831 TCGA-EI-6885 TCGA-EI-6917 TCGA-EI-7004 
        5.29       129.27         2.40        13.61        17.46         8.45 
TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6702 TCGA-F5-6810 TCGA-F5-6812 TCGA-F5-6813 
        3.39         0.85         2.17         0.39         0.66         0.69 
TCGA-F5-6814 TCGA-F5-6864 
        0.53         0.46 

$subtype2
TCGA-A6-2682 TCGA-A6-5656 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5662 TCGA-A6-5666 
       13.94        15.19         9.40        11.24        14.89        23.64 
TCGA-A6-6140 TCGA-A6-6648 TCGA-A6-6650 TCGA-A6-6652 TCGA-A6-A567 TCGA-AA-3660 
       11.70        11.31         9.11        14.96        61.84         1.02 
TCGA-AA-A01X TCGA-AD-6888 TCGA-AD-6890 TCGA-AD-6965 TCGA-AD-A5EK TCGA-AU-3779 
       26.01         4.21         0.79         0.20         0.43        14.47 
TCGA-AZ-5403 TCGA-AZ-6603 TCGA-AZ-6608 TCGA-CA-5256 TCGA-CA-5797 TCGA-CA-6715 
       62.79        29.56         1.94         2.14         3.29         0.07 
TCGA-CA-6716 TCGA-CK-5912 TCGA-CK-5914 TCGA-CM-4747 TCGA-CM-5344 TCGA-CM-5862 
        0.26        48.03        21.99         8.02        16.04         5.03 
TCGA-CM-5864 TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6166 TCGA-CM-6676 TCGA-CM-6678 
       15.02        17.03        15.02        21.96        11.08        11.01 
TCGA-D5-5537 TCGA-D5-5540 TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6537 TCGA-D5-6538 
       14.99        13.51        18.25         1.32         4.47        17.13 
TCGA-D5-6929 TCGA-DM-A0X9 TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D7 
       13.38       119.70        38.20       130.65        92.75        13.28 
TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DB TCGA-DM-A282 TCGA-DM-A285 TCGA-DM-A28G 
       12.59       140.38        44.32       139.17         6.08        60.79 
TCGA-DM-A28H TCGA-F4-6808 TCGA-G4-6294 TCGA-G4-6298 TCGA-G4-6306 TCGA-G4-6310 
      117.07         0.46        28.21        23.51        44.65        45.11 
TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6626 TCGA-NH-A50T TCGA-AF-5654 TCGA-AG-3742 
       36.72        36.00        46.75         4.11         8.45         0.99 
TCGA-AH-6549 TCGA-AH-6897 TCGA-CI-6622 TCGA-CI-6623 TCGA-CL-4957 TCGA-CL-5917 
        0.20         4.60         6.94         9.37        13.97        60.00 
TCGA-CL-5918 TCGA-DC-4749 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6154 TCGA-DC-6155 
        7.99        11.01        15.02        12.99        12.00        14.01 
TCGA-DC-6157 TCGA-DC-6682 TCGA-DC-6683 TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DD 
       36.00        13.02        10.06       126.41        41.33        57.24 
TCGA-DY-A1DF TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EI-6508 TCGA-EI-6509 TCGA-EI-6511 
       24.13        32.58         0.49        20.91        17.00        15.85 
TCGA-EI-6513 TCGA-EI-6514 TCGA-EI-6883 TCGA-EI-7002 TCGA-F5-6811 TCGA-F5-6861 
       16.34        16.31        11.51        11.97         1.02         1.08 
TCGA-F5-6863 TCGA-G5-6235 TCGA-G5-6572 
        0.76        55.76        47.08 

$subtype3
TCGA-A6-4105 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6137 TCGA-A6-6141 TCGA-A6-6649 
       14.50        10.06        13.28        11.44         8.35        10.78 
TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-A565 TCGA-AA-3495 TCGA-AA-3502 TCGA-AA-3663 
        9.27        11.64        16.21         1.02         1.02         1.02 
TCGA-AA-3697 TCGA-AA-3713 TCGA-AA-A01Z TCGA-AD-6548 TCGA-AD-6889 TCGA-AD-6895 
        0.95         0.95        20.98         0.10        56.52         0.72 
TCGA-AM-5821 TCGA-AU-6004 TCGA-AY-5543 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4313 
        0.92         6.67        15.75        13.91        11.84        50.37 
TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4615 TCGA-AZ-4616 TCGA-AZ-4684 TCGA-AZ-5407 
       58.39         5.65        32.94         5.13        65.00        61.41 
TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6606 TCGA-CA-5254 
       49.41         6.74        12.10        99.98        11.74         2.24 
TCGA-CA-5255 TCGA-CA-5796 TCGA-CK-4947 TCGA-CK-4951 TCGA-CK-4952 TCGA-CK-5913 
        3.06         3.25        17.52        70.16        15.58        28.04 
TCGA-CK-6747 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 TCGA-CM-5861 TCGA-CM-5863 
        2.93       124.11         6.05        19.96        15.02        15.02 
TCGA-CM-6163 TCGA-CM-6171 TCGA-CM-6172 TCGA-CM-6674 TCGA-CM-6675 TCGA-CM-6680 
       14.04        14.04        10.98        12.95        13.02        12.03 
TCGA-D5-5539 TCGA-D5-6530 TCGA-D5-6535 TCGA-D5-6536 TCGA-D5-6539 TCGA-D5-6540 
       19.59        20.42        15.12        17.85        12.49        16.14 
TCGA-D5-6927 TCGA-D5-6930 TCGA-DM-A0XD TCGA-DM-A1D6 TCGA-DM-A1DA TCGA-DM-A1HB 
        9.44         1.48        24.43        49.91         7.46       135.65 
TCGA-DM-A280 TCGA-DM-A288 TCGA-DM-A28M TCGA-F4-6461 TCGA-F4-6570 TCGA-F4-6806 
        7.73        14.01        95.18        11.11         6.15         0.66 
TCGA-F4-6856 TCGA-G4-6293 TCGA-G4-6295 TCGA-G4-6304 TCGA-G4-6309 TCGA-G4-6320 
        0.66       107.67         8.35        53.62        51.75        26.43 
TCGA-G4-6321 TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6628 
       22.06        26.04        13.78        35.80        26.17        52.96 
TCGA-NH-A50V TCGA-AF-2693 TCGA-AF-4110 TCGA-AF-6136 TCGA-AF-6672 TCGA-AH-6544 
        5.06        19.10        14.50        15.35        10.39         0.49 
TCGA-AH-6547 TCGA-AH-6903 TCGA-BM-6198 TCGA-CI-6619 TCGA-CI-6620 TCGA-CI-6624 
        1.45         1.81        10.19         6.02         6.02         4.70 
TCGA-DC-6160 TCGA-EI-6506 TCGA-EI-6507 TCGA-EI-6510 TCGA-EI-6512 TCGA-EI-6882 
       30.05        20.55        19.96        18.28        17.69         8.61 
TCGA-EI-6884 TCGA-G5-6233 
       10.78        18.25 

subtype1 subtype2 subtype3 
    0.07     0.07     0.10 
subtype1 subtype2 subtype3 
  129.27   140.38   135.65 
subtype1 subtype2 subtype3 
   10.80    14.47    13.53 
[1] "0.1 - 129.3 (10.8)" "0.1 - 140.4 (14.5)" "0.1 - 135.7 (13.5)"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
  [7] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [13] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [19] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [55] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [67] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [79] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [97] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[115] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[133] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[163] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[175] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[181] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[193] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[199] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[217] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[229] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[235] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[265] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[271] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[283] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[295] "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
  [7] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [13] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [19] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [55] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [67] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [79] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [97] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[115] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[133] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[163] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[175] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[181] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[193] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[199] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[217] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[229] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[235] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[265] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[271] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[283] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[295] "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
  [7] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [13] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [19] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [55] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [67] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [79] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [85] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [97] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[115] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[133] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[163] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[175] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[181] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[193] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[199] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[217] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[229] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[235] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[265] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[271] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[283] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[295] "subtype2"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 69 25
  subtype2 67 37
  subtype3 90 20
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   69   25
  subtype2   67   37
  subtype3   90   20
        clus
vv       subtype1 subtype2 subtype3
  COLON        69       67       90
  RECTUM       25       37       20
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1       7        0        6        30         1         0         2
  subtype2      17        0        5        25         2         2         3
  subtype3      21        1        9        30         2         1         6
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          3         13         15        8         6         0
  subtype2          6         16          7        7         8         0
  subtype3          3         17          4        7         7         1
D7V4, multiclass
          vv
clus       T0+T1 T2 T3 T4
  subtype1     1  8 70 15
  subtype2     5 20 65 13
  subtype3     3 20 77 11
D7V5, multiclass
          vv
clus       N0 N1 N2
  subtype1 45 24 24
  subtype2 57 31 13
  subtype3 68 28 16
D7V6, multiclass
          vv
clus       M0 M1 M1A M1B MX
  subtype1 66 11   2   0 13
  subtype2 69 10   5   0 18
  subtype3 78 11   0   1 20
D7V7, multiclass
D7V8, binary
          cls
clus        0  1
  subtype1 41 53
  subtype2 44 60
  subtype3 53 59
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   41   53
  subtype2   44   60
  subtype3   53   59
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       41       44       53
  MALE         53       60       59
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   56                            13
  subtype2                   65                             2
  subtype3                   75                            15
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    23                              2
  subtype2                    37                              0
  subtype3                    18                              2
D7V9, multiclass
D7V10, binary
          cls
clus         0   1
  subtype1   3  91
  subtype2   1 103
  subtype3   4 108
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   91
  subtype2    1  103
  subtype3    4  108
     clus
vv    subtype1 subtype2 subtype3
  NO         3        1        4
  YES       91      103      108
          vv
clus       R0 R1 R2 RX
  subtype1 71  0  1  7
  subtype2 55  1  0 10
  subtype3 64  1  2 11
D7V11, multiclass
D7V12, continuous

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1  67  15
  subtype2  74  15
  subtype3 102  22
subtype1 subtype2 subtype3 
      82       89      124 
subtype1 subtype2 subtype3 
      15       15       22 
$subtype1
TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-5659 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5667 
       12.72        15.25         9.40        14.89        11.90        10.52 
TCGA-A6-6138 TCGA-A6-6142 TCGA-A6-6651 TCGA-A6-6654 TCGA-A6-6782 TCGA-A6-A567 
        9.17        12.10         8.48        13.12         6.21        61.84 
TCGA-A6-A56B TCGA-AA-3489 TCGA-AA-A01X TCGA-AD-6901 TCGA-AM-5820 TCGA-AZ-4323 
       52.44         1.02        26.01         1.02         0.46         1.41 
TCGA-AZ-5403 TCGA-AZ-6603 TCGA-AZ-6607 TCGA-CA-5797 TCGA-CA-6716 TCGA-CA-6717 
       62.79        29.56         3.19         3.29         0.26         0.33 
TCGA-CA-6719 TCGA-CK-6748 TCGA-CM-4747 TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 
        1.35         2.01         8.02        16.04        21.96        19.04 
TCGA-CM-5868 TCGA-CM-6162 TCGA-CM-6165 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6169 
       17.03        12.00        16.04        14.99        12.99        13.02 
TCGA-CM-6170 TCGA-CM-6676 TCGA-CM-6679 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6924 
       15.02        11.08        10.06        13.51        11.51        14.27 
TCGA-D5-6926 TCGA-F4-6459 TCGA-F4-6460 TCGA-F4-6463 TCGA-F4-6704 TCGA-F4-6805 
        9.04         8.58        13.38        13.61         1.51         0.53 
TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6855 TCGA-G4-6298 TCGA-G4-6302 TCGA-G4-6303 
        0.53         1.25         9.86        23.51        43.04        61.87 
TCGA-G4-6310 TCGA-G4-6314 TCGA-AF-2687 TCGA-AF-2690 TCGA-AF-3911 TCGA-AF-6655 
       45.11        35.93        24.13        17.23        25.02        11.67 
TCGA-AH-6644 TCGA-DC-6156 TCGA-DC-6158 TCGA-DC-6683 TCGA-DT-5265 TCGA-DY-A1DD 
        0.72        15.02         6.97        10.06         5.29        57.24 
TCGA-DY-A1DE TCGA-DY-A1DF TCGA-EF-5831 TCGA-EI-6514 TCGA-EI-6885 TCGA-EI-7002 
      129.27        24.13         2.40        16.31        13.61        11.97 
TCGA-EI-7004 TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6702 TCGA-F5-6810 TCGA-F5-6812 
        8.45         3.39         0.85         2.17         0.39         0.66 
TCGA-F5-6813 TCGA-F5-6863 TCGA-F5-6864 TCGA-G5-6572 
        0.69         0.76         0.46        47.08 

$subtype2
TCGA-A6-4105 TCGA-A6-5656 TCGA-A6-5660 TCGA-A6-5666 TCGA-A6-6137 TCGA-A6-6140 
       14.50        15.19        11.24        23.64        11.44        11.70 
TCGA-A6-6648 TCGA-A6-6650 TCGA-A6-6652 TCGA-A6-A5ZU TCGA-AA-3495 TCGA-AA-3697 
       11.31         9.11        14.96         3.81         1.02         0.95 
TCGA-AA-A01Z TCGA-AD-6888 TCGA-AD-6965 TCGA-AD-A5EK TCGA-AU-3779 TCGA-AY-5543 
       20.98         4.21         0.20         0.43        14.47        15.75 
TCGA-AZ-6608 TCGA-CA-5256 TCGA-CA-6715 TCGA-CK-5912 TCGA-CK-5914 TCGA-CM-5860 
        1.94         2.14         0.07        48.03        21.99        16.01 
TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-6161 TCGA-CM-6166 TCGA-CM-6678 TCGA-D5-5537 
        5.03        15.02        15.02        21.96        11.01        14.99 
TCGA-D5-6531 TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6929 
       17.75        18.25         1.32         4.47        17.13        13.38 
TCGA-DM-A0X9 TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D7 TCGA-DM-A1D8 
      119.70        38.20       130.65        92.75        13.28        12.59 
TCGA-DM-A1D9 TCGA-DM-A1DB TCGA-DM-A282 TCGA-DM-A285 TCGA-DM-A28G TCGA-DM-A28H 
      140.38        44.32       139.17         6.08        60.79       117.07 
TCGA-DM-A28M TCGA-F4-6808 TCGA-G4-6293 TCGA-G4-6294 TCGA-G4-6306 TCGA-G4-6315 
       95.18         0.46       107.67        28.21        44.65        36.72 
TCGA-G4-6317 TCGA-G4-6626 TCGA-NH-A50T TCGA-AF-5654 TCGA-AG-3742 TCGA-AH-6544 
       36.00        46.75         4.11         8.45         0.99         0.49 
TCGA-AH-6549 TCGA-AH-6897 TCGA-AH-6903 TCGA-CI-6622 TCGA-CI-6623 TCGA-CL-4957 
        0.20         4.60         1.81         6.94         9.37        13.97 
TCGA-CL-5917 TCGA-CL-5918 TCGA-DC-4749 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6154 
       60.00         7.99        11.01        15.02        12.99        12.00 
TCGA-DC-6155 TCGA-DC-6157 TCGA-DC-6160 TCGA-DC-6682 TCGA-DY-A0XA TCGA-DY-A1DC 
       14.01        36.00        30.05        13.02       126.41        41.33 
TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EI-6509 TCGA-EI-6511 TCGA-EI-6512 TCGA-EI-6513 
       32.58         0.49        17.00        15.85        17.69        16.34 
TCGA-EI-6883 TCGA-F5-6811 TCGA-F5-6814 TCGA-F5-6861 TCGA-G5-6235 
       11.51         1.02         0.53         1.08        55.76 

$subtype3
TCGA-A6-2675 TCGA-A6-2682 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6141 TCGA-A6-6649 
       27.81        13.94        10.06        13.28         8.35        10.78 
TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 TCGA-A6-A565 TCGA-A6-A566 TCGA-AA-3496 
        9.27        11.64         9.63        16.21        24.92         1.02 
TCGA-AA-3502 TCGA-AA-3660 TCGA-AA-3663 TCGA-AA-3713 TCGA-AA-A01P TCGA-AD-5900 
        1.02         1.02         1.02         0.95        38.07         0.07 
TCGA-AD-6548 TCGA-AD-6889 TCGA-AD-6890 TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6964 
        0.10        56.52         0.79         0.72         1.55         0.99 
TCGA-AM-5821 TCGA-AU-6004 TCGA-AY-6196 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4313 
        0.92         6.67         0.20        13.91        11.84        50.37 
TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4615 TCGA-AZ-4616 TCGA-AZ-4684 TCGA-AZ-5407 
       58.39         5.65        32.94         5.13        65.00        61.41 
TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6605 TCGA-AZ-6606 
       49.41         6.74        12.10        99.98         5.23        11.74 
TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-5796 TCGA-CA-6718 TCGA-CK-4947 TCGA-CK-4951 
        2.24         3.06         3.25         0.10        17.52        70.16 
TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-5916 TCGA-CK-6747 TCGA-CK-6751 TCGA-CM-4743 
       15.58        28.04        21.01         2.93       124.11         6.05 
TCGA-CM-4751 TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-6163 TCGA-CM-6171 TCGA-CM-6172 
       19.96        15.02        15.02        14.04        14.04        10.98 
TCGA-CM-6674 TCGA-CM-6675 TCGA-CM-6677 TCGA-CM-6680 TCGA-D5-5538 TCGA-D5-5539 
       12.95        13.02        11.08        12.03        12.26        19.59 
TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6534 TCGA-D5-6535 TCGA-D5-6536 TCGA-D5-6539 
       20.19        20.42         7.92        15.12        17.85        12.49 
TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6930 TCGA-DM-A0XD 
       16.14        15.58         9.44        11.64         1.48        24.43 
TCGA-DM-A1D6 TCGA-DM-A1DA TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A288 TCGA-F4-6461 
       49.91         7.46       135.65         7.73        14.01        11.11 
TCGA-F4-6569 TCGA-F4-6570 TCGA-F4-6703 TCGA-F4-6806 TCGA-F4-6856 TCGA-G4-6295 
       13.41         6.15         9.80         0.66         0.66         8.35 
TCGA-G4-6297 TCGA-G4-6299 TCGA-G4-6304 TCGA-G4-6309 TCGA-G4-6311 TCGA-G4-6320 
       82.39        74.56        53.62        51.75        39.42        26.43 
TCGA-G4-6321 TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6625 
       22.06        26.04        13.78        35.80        26.17        91.76 
TCGA-G4-6627 TCGA-G4-6628 TCGA-NH-A50V TCGA-AF-2693 TCGA-AF-4110 TCGA-AF-6136 
       47.15        52.96         5.06        19.10        14.50        15.35 
TCGA-AF-6672 TCGA-AG-4022 TCGA-AH-6547 TCGA-AH-6643 TCGA-BM-6198 TCGA-CI-6619 
       10.39         0.99         1.45         0.69        10.19         6.02 
TCGA-CI-6620 TCGA-CI-6624 TCGA-EI-6506 TCGA-EI-6507 TCGA-EI-6508 TCGA-EI-6510 
        6.02         4.70        20.55        19.96        20.91        18.28 
TCGA-EI-6882 TCGA-EI-6884 TCGA-EI-6917 TCGA-G5-6233 
        8.61        10.78        17.46        18.25 

subtype1 subtype2 subtype3 
    0.26     0.07     0.07 
subtype1 subtype2 subtype3 
  129.27   140.38   135.65 
subtype1 subtype2 subtype3 
  11.785   14.470   12.985 
[1] "0.3 - 129.3 (11.8)" "0.1 - 140.4 (14.5)" "0.1 - 135.7 (13.0)"
  [1] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
  [7] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [13] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [19] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [43] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [55] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
 [61] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [67] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [85] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [91] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [97] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[109] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[115] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[145] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[163] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[181] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[193] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[199] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[217] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[229] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[259] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[265] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[271] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[277] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[283] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[295] "subtype1"
  [1] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
  [7] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [13] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [19] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [43] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [55] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
 [61] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [67] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [85] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [91] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [97] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[109] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[115] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[145] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[163] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[181] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[193] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[199] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[217] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[229] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[259] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[265] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[271] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[277] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[283] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[295] "subtype1"
  [1] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
  [7] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [13] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [19] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [43] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [55] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
 [61] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [67] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
 [85] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [91] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [97] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[109] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[115] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[145] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[163] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[175] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[181] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
[193] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[199] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[217] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[229] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[253] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[259] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[265] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[271] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[277] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[283] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[289] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[295] "subtype1"
D8V2, continuous
D8V3, binary
          cls
clus         0   1
  subtype1  56  27
  subtype2  60  33
  subtype3 110  22
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   56   27
  subtype2   60   33
  subtype3  110   22
        clus
vv       subtype1 subtype2 subtype3
  COLON        56       60      110
  RECTUM       27       33       22
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1       6        0        5        21         1         0         1
  subtype2      18        0        2        27         2         2         3
  subtype3      21        1       13        37         2         1         7
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          2         15         11        8         9         0
  subtype2          6         13          6        4         6         0
  subtype3          4         18          9       10         6         1
D8V4, multiclass
          vv
clus       T0+T1 T2 T3 T4
  subtype1     0  9 59 14
  subtype2     4 20 62  7
  subtype3     5 19 91 18
D8V5, multiclass
          vv
clus       N0 N1 N2
  subtype1 34 27 20
  subtype2 57 24 10
  subtype3 79 32 23
D8V6, multiclass
          vv
clus       M0 M1 M1A M1B MX
  subtype1 55 12   4   0 11
  subtype2 68  8   3   0 13
  subtype3 90 12   0   1 27
D8V7, multiclass
D8V8, binary
          cls
clus        0  1
  subtype1 38 45
  subtype2 37 56
  subtype3 63 71
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   38   45
  subtype2   37   56
  subtype3   63   71
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       38       37       63
  MALE         45       56       71
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   50                             6
  subtype2                   58                             2
  subtype3                   88                            22
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    25                              2
  subtype2                    32                              1
  subtype3                    21                              1
D8V9, multiclass
D8V10, binary
          cls
clus         0   1
  subtype1   4  79
  subtype2   0  93
  subtype3   4 130
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   79
  subtype2    0   93
  subtype3    4  130
     clus
vv    subtype1 subtype2 subtype3
  NO         4        0        4
  YES       79       93      130
          vv
clus       R0 R1 R2 RX
  subtype1 57  0  0  6
  subtype2 51  1  0  9
  subtype3 82  1  3 13
D8V11, multiclass
D8V12, continuous

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2        0   1
  subtype1 164  37
  subtype2  77  16
  subtype3 116  19
subtype1 subtype2 subtype3 
     201       93      135 
subtype1 subtype2 subtype3 
      37       16       19 
$subtype1
TCGA-A6-2675 TCGA-A6-4105 TCGA-A6-5656 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5661 
       27.81        14.50        15.19         9.40        11.24        10.06 
TCGA-A6-5665 TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6138 TCGA-A6-6140 
       13.28        23.64        10.52        11.44         9.17        11.70 
TCGA-A6-6142 TCGA-A6-6648 TCGA-A6-6650 TCGA-A6-6782 TCGA-AA-3496 TCGA-AA-3660 
       12.10        11.31         9.11         6.21         1.02         1.02 
TCGA-AA-3663 TCGA-AA-3697 TCGA-AA-3713 TCGA-AA-A02F TCGA-AA-A02H TCGA-AD-6548 
        1.02         0.95         0.95        39.95         2.01         0.10 
TCGA-AD-6888 TCGA-AD-6889 TCGA-AD-6890 TCGA-AD-6963 TCGA-AD-6965 TCGA-AM-5821 
        4.21        56.52         0.79         0.10         0.20         0.92 
TCGA-AU-3779 TCGA-AY-5543 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4616 TCGA-AZ-5407 
       14.47        15.75        13.91        11.84         5.13        61.41 
TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-5254 
       49.41         6.74        12.10        11.74         1.94         2.24 
TCGA-CA-5796 TCGA-CA-5797 TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6719 TCGA-CK-4947 
        3.25         3.29         0.07         0.26         1.35        17.52 
TCGA-CK-4948 TCGA-CK-4950 TCGA-CK-4952 TCGA-CK-5912 TCGA-CK-5913 TCGA-CK-5914 
      102.44        40.31        15.58        48.03        28.04        21.99 
TCGA-CK-6747 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 TCGA-CM-5344 TCGA-CM-5349 
        2.93       124.11         6.05        19.96        16.04        19.04 
TCGA-CM-5860 TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6163 
       16.01         5.03        15.02        17.03        15.02        14.04 
TCGA-CM-6164 TCGA-CM-6166 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6172 
       29.03        21.96        13.02        15.02        14.04        10.98 
TCGA-CM-6675 TCGA-CM-6676 TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6680 TCGA-D5-5537 
       13.02        11.08        11.08        11.01        12.03        14.99 
TCGA-D5-5538 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6529 TCGA-D5-6531 TCGA-D5-6532 
       12.26        13.51        11.51        20.19        17.75        18.25 
TCGA-D5-6533 TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6539 TCGA-D5-6540 
        1.32        15.12         4.47        17.13        12.49        16.14 
TCGA-D5-6541 TCGA-D5-6920 TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6929 TCGA-D5-6932 
       15.58        12.39        12.39        14.27        13.38         0.62 
TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D7 
      119.70        24.43        38.20       130.65        92.75        13.28 
TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A1HB 
       12.59       140.38         7.46        44.32       131.51       135.65 
TCGA-DM-A280 TCGA-DM-A282 TCGA-DM-A285 TCGA-DM-A288 TCGA-DM-A28A TCGA-DM-A28C 
        7.73       139.17         6.08        14.01        26.47        81.37 
TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28H TCGA-DM-A28K TCGA-DM-A28M 
      119.93        35.97        60.79       117.07        98.24        95.18 
TCGA-F4-6570 TCGA-F4-6806 TCGA-F4-6808 TCGA-F4-6855 TCGA-G4-6293 TCGA-G4-6294 
        6.15         0.66         0.46         9.86       107.67        28.21 
TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6299 TCGA-G4-6303 TCGA-G4-6304 
        8.35        82.39        23.51        74.56        61.87        53.62 
TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6309 TCGA-G4-6311 TCGA-G4-6315 TCGA-G4-6317 
       44.65        55.04        51.75        39.42        36.72        36.00 
TCGA-G4-6320 TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6625 TCGA-G4-6626 
       26.43        26.04        13.78        35.80        91.76        46.75 
TCGA-G4-6628 TCGA-AF-2693 TCGA-AF-5654 TCGA-AF-6136 TCGA-AF-6655 TCGA-AF-6672 
       52.96        19.10         8.45        15.35        11.67        10.39 
TCGA-AG-3742 TCGA-AG-4001 TCGA-AG-4022 TCGA-AH-6544 TCGA-AH-6549 TCGA-AH-6643 
        0.99         1.02         0.99         0.49         0.20         0.69 
TCGA-BM-6198 TCGA-CI-6619 TCGA-CI-6620 TCGA-CI-6622 TCGA-CI-6623 TCGA-CI-6624 
       10.19         6.02         6.02         6.94         9.37         4.70 
TCGA-CL-4957 TCGA-CL-5917 TCGA-CL-5918 TCGA-DC-4745 TCGA-DC-4749 TCGA-DC-5337 
       13.97        60.00         7.99        10.98        11.01        15.02 
TCGA-DC-5869 TCGA-DC-6155 TCGA-DC-6156 TCGA-DC-6157 TCGA-DC-6158 TCGA-DC-6160 
       12.99        14.01        15.02        36.00         6.97        30.05 
TCGA-DC-6682 TCGA-DC-6683 TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DD TCGA-DY-A1DE 
       13.02        10.06       126.41        41.33        57.24       129.27 
TCGA-DY-A1DF TCGA-DY-A1DG TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EF-5831 TCGA-EI-6506 
       24.13        51.48        32.58         0.49         2.40        20.55 
TCGA-EI-6508 TCGA-EI-6509 TCGA-EI-6510 TCGA-EI-6511 TCGA-EI-6512 TCGA-EI-6513 
       20.91        17.00        18.28        15.85        17.69        16.34 
TCGA-EI-6514 TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6810 TCGA-F5-6811 TCGA-G5-6233 
       16.31         3.39         0.85         0.39         1.02        18.25 
TCGA-G5-6235 TCGA-G5-6572 TCGA-G5-6641 
       55.76        47.08        26.43 

$subtype2
TCGA-A6-2671 TCGA-A6-2681 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-3808 TCGA-A6-5657 
       36.99        22.06        12.72        15.25         9.14        12.07 
TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-6141 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6652 
       14.89        11.90         8.35        10.78         8.48        14.96 
TCGA-A6-6654 TCGA-A6-6781 TCGA-AA-3489 TCGA-AA-3818 TCGA-AA-A00O TCGA-AA-A01P 
       13.12         9.63         1.02         0.99        27.02        38.07 
TCGA-AA-A01X TCGA-AA-A02E TCGA-AD-5900 TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 
       26.01         2.93         0.07         0.72         1.55         1.02 
TCGA-AD-6964 TCGA-AM-5820 TCGA-AU-6004 TCGA-AY-6196 TCGA-AZ-4308 TCGA-AZ-4323 
        0.99         0.46         6.67         0.20        75.22         1.41 
TCGA-AZ-5403 TCGA-AZ-6601 TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-5255 
       62.79        99.98        29.56         5.23         3.19         3.06 
TCGA-CA-6717 TCGA-CA-6718 TCGA-CK-5916 TCGA-CK-6748 TCGA-CM-4747 TCGA-CM-4748 
        0.33         0.10        21.01         2.01         8.02         7.04 
TCGA-CM-5348 TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-6162 TCGA-CM-6165 TCGA-CM-6167 
       21.96        15.02        15.02        12.00        16.04        14.99 
TCGA-CM-6168 TCGA-CM-6674 TCGA-CM-6679 TCGA-D5-5539 TCGA-D5-6534 TCGA-D5-6536 
       12.99        12.95        10.06        19.59         7.92        17.85 
TCGA-D5-6898 TCGA-D5-6922 TCGA-D5-6926 TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6930 
        7.53        10.13         9.04         9.44        11.64         1.48 
TCGA-D5-7000 TCGA-DM-A1D6 TCGA-F4-6459 TCGA-F4-6460 TCGA-F4-6461 TCGA-F4-6463 
       10.26        49.91         8.58        13.38        11.11        13.61 
TCGA-F4-6569 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6809 
       13.41         9.80         1.51         0.53         0.53         1.25 
TCGA-F4-6854 TCGA-F4-6856 TCGA-G4-6302 TCGA-G4-6310 TCGA-G4-6314 TCGA-G4-6321 
        0.53         0.66        43.04        45.11        35.93        22.06 
TCGA-G4-6627 TCGA-AF-2687 TCGA-AF-2690 TCGA-AF-3911 TCGA-AF-4110 TCGA-AG-3575 
       47.15        24.13        17.23        25.02        14.50        12.00 
TCGA-AG-3731 TCGA-AG-A015 TCGA-AH-6547 TCGA-AH-6644 TCGA-DC-6681 TCGA-DT-5265 
        1.02        13.02         1.45         0.72        12.95         5.29 
TCGA-F5-6702 TCGA-F5-6812 TCGA-F5-6813 
        2.17         0.66         0.69 

$subtype3
TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-2677 TCGA-A6-2678 TCGA-A6-2679 
       22.88        25.02        23.38        17.79        25.68        25.58 
TCGA-A6-2680 TCGA-A6-2682 TCGA-A6-2683 TCGA-A6-2686 TCGA-A6-3807 TCGA-A6-3809 
       23.15        13.94        16.57        16.04        10.92        10.29 
TCGA-A6-3810 TCGA-A6-4107 TCGA-A6-6653 TCGA-A6-6780 TCGA-AA-3488 TCGA-AA-3494 
        8.09         7.59         9.27        11.64         5.00         1.02 
TCGA-AA-3495 TCGA-AA-3502 TCGA-AA-3510 TCGA-AA-3518 TCGA-AA-3526 TCGA-AA-3555 
        1.02         1.02         1.02         1.02         0.99         0.99 
TCGA-AA-3562 TCGA-AA-3666 TCGA-AA-3675 TCGA-AA-3679 TCGA-AA-3685 TCGA-AA-3710 
        1.02         2.01         1.02         0.99         0.99         1.02 
TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3837 TCGA-AA-3842 TCGA-AA-3844 TCGA-AA-3846 
        0.99         0.99         1.02         1.02         0.92         0.99 
TCGA-AA-3848 TCGA-AA-3854 TCGA-AA-3856 TCGA-AA-3862 TCGA-AA-3877 TCGA-AA-3939 
        0.99         1.02         0.99         1.02         0.99         0.99 
TCGA-AA-3941 TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3952 TCGA-AA-3966 
        1.02         0.99         0.99         1.02         2.01         2.01 
TCGA-AA-3975 TCGA-AA-3977 TCGA-AA-3986 TCGA-AA-A00D TCGA-AA-A00J TCGA-AA-A00L 
        0.99         1.02         0.99        19.00        18.02        17.00 
TCGA-AA-A00Q TCGA-AA-A00U TCGA-AA-A00W TCGA-AA-A010 TCGA-AA-A01D TCGA-AA-A01F 
       27.02        17.00        14.99        20.98         0.99        13.02 
TCGA-AA-A01G TCGA-AA-A01R TCGA-AA-A01S TCGA-AA-A01T TCGA-AA-A01V TCGA-AA-A01Z 
       12.00        35.01         1.02        33.04        35.01        20.98 
TCGA-AA-A024 TCGA-AA-A029 TCGA-AA-A02J TCGA-AA-A02K TCGA-AA-A02O TCGA-AA-A02R 
       39.06        51.95         5.03        13.97         0.92        22.03 
TCGA-AA-A02Y TCGA-AA-A03F TCGA-AA-A03J TCGA-AY-4070 TCGA-AY-4071 TCGA-AZ-4313 
       39.95        18.02        40.93        16.31         0.95        50.37 
TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4615 TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 
       58.39         5.65        32.94        83.80        22.36        65.00 
TCGA-CA-5256 TCGA-CK-4951 TCGA-CM-4744 TCGA-CM-4746 TCGA-CM-4750 TCGA-CM-4752 
        2.14        70.16         7.04        22.98         8.02         4.04 
TCGA-CM-5341 TCGA-D5-6530 TCGA-D5-6931 TCGA-G4-6588 TCGA-AF-2689 TCGA-AF-2691 
       19.04        20.42        12.00        26.17        17.95        10.62 
TCGA-AF-2692 TCGA-AF-3400 TCGA-AF-3913 TCGA-AG-3581 TCGA-AG-3582 TCGA-AG-3583 
       13.55        12.72        10.39         1.02         1.02         2.01 
TCGA-AG-3586 TCGA-AG-3587 TCGA-AG-3599 TCGA-AG-3605 TCGA-AG-3726 TCGA-AG-3727 
        1.02         1.02         0.99         0.99         7.96         0.95 
TCGA-AG-3878 TCGA-AG-3883 TCGA-AG-3887 TCGA-AG-3892 TCGA-AG-3893 TCGA-AG-3894 
        0.99         1.02         0.92         1.02         0.99         0.99 
TCGA-AG-3896 TCGA-AG-3999 TCGA-AG-4007 TCGA-AG-4008 TCGA-AG-A002 TCGA-AG-A008 
        1.02         1.02         1.02         1.02        20.94        13.91 
TCGA-AG-A00C TCGA-AG-A011 TCGA-AG-A016 TCGA-AG-A01L TCGA-AG-A01N TCGA-AG-A01W 
        6.02        17.03         1.02        12.00        12.00        70.03 
TCGA-AG-A01Y TCGA-AG-A020 TCGA-AG-A025 TCGA-AG-A026 TCGA-AG-A02G TCGA-AG-A02N 
       63.98        10.98        49.94         1.94        38.93        61.94 
TCGA-AG-A02X TCGA-AG-A036 TCGA-EI-6507 
       40.96        72.07        19.96 

subtype1 subtype2 subtype3 
    0.07     0.07     0.92 
subtype1 subtype2 subtype3 
  140.38    99.98    83.80 
subtype1 subtype2 subtype3 
   14.04    10.26     8.02 
[1] "0.1 - 140.4 (14.0)" "0.1 - 100.0 (10.3)" "0.9 - 83.8 (8.0)"  
  [1] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [19] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [25] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [37] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[133] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[139] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[145] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[163] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[175] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[181] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[187] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[193] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[199] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[205] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[211] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[223] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[229] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[241] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[247] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[253] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[259] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[265] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[283] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[289] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[301] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[307] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[319] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[325] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[331] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[337] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[343] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[349] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[355] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[361] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[367] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[373] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[379] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[385] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[391] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[397] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[403] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[409] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[415] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[421] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[427] "subtype1" "subtype1" "subtype1"
  [1] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [19] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [25] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [37] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[133] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[139] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[145] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[163] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[175] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[181] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[187] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[193] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[199] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[205] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[211] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[223] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[229] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[241] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[247] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[253] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[259] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[265] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[283] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[289] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[301] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[307] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[319] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[325] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[331] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[337] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[343] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[349] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[355] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[361] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[367] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[373] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[379] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[385] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[391] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[397] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[403] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[409] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[415] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[421] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[427] "subtype1" "subtype1" "subtype1"
  [1] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [19] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [25] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [37] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[133] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[139] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[145] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[157] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[163] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[175] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[181] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[187] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[193] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[199] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[205] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[211] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[223] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[229] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[241] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[247] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[253] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[259] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[265] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[283] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[289] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[301] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[307] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[319] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[325] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[331] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[337] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[343] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[349] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[355] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[361] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[367] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[373] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[379] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[385] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[391] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[397] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[403] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[409] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[415] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[421] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[427] "subtype1" "subtype1" "subtype1"
D9V2, continuous
D9V3, binary
          cls
clus         0   1
  subtype1 150  61
  subtype2  80  15
  subtype3 175  64
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  150   61
  subtype2   80   15
  subtype3  175   64
        clus
vv       subtype1 subtype2 subtype3
  COLON       150       80      175
  RECTUM       61       15       64
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      32        1       10        64         4         2         9
  subtype2       9        0        8        23         0         0         3
  subtype3      53        0       23        61         6         0        16
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1         10         32         13       16        11         1
  subtype2          3         15         14        7         8         0
  subtype3          4         21         18       33         4         0
D9V4, multiclass
          vv
clus       T0+T1  T2  T3  T4
  subtype1     8  33 151  18
  subtype2     2  10  69  15
  subtype3    10  52 156  23
D9V5, multiclass
          vv
clus        N0  N1  N2
  subtype1 121  58  30
  subtype2  43  29  23
  subtype3 149  46  46
D9V6, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 149  19   6   1  33
  subtype2  65  12   2   0  15
  subtype3 198  37   1   0   2
D9V7, multiclass
D9V8, binary
          cls
clus         0   1
  subtype1 102 110
  subtype2  40  56
  subtype3 115 126
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  102  110
  subtype2   40   56
  subtype3  115  126
        clus
vv       subtype1 subtype2 subtype3
  FEMALE      102       40      115
  MALE        110       56      126
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                  140                            10
  subtype2                   61                            19
  subtype3                  150                            24
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    60                              1
  subtype2                    13                              2
  subtype3                    54                              7
D9V9, multiclass
D9V10, binary
          cls
clus         0   1
  subtype1   3 209
  subtype2   4  92
  subtype3   2 239
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3  209
  subtype2    4   92
  subtype3    2  239
     clus
vv    subtype1 subtype2 subtype3
  NO         3        4        2
  YES      209       92      239
          vv
clus        R0  R1  R2  RX
  subtype1 119   2   5  17
  subtype2  66   0   2   7
  subtype3 197   3  29   2
D9V11, multiclass
D9V12, continuous

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1  28   5
  subtype2 198  43
  subtype3 131  24
subtype1 subtype2 subtype3 
      33      241      155 
subtype1 subtype2 subtype3 
       5       43       24 
$subtype1
TCGA-A6-6142 TCGA-AA-3494 TCGA-AA-3496 TCGA-AD-6548 TCGA-AD-6964 TCGA-AD-6965 
       12.10         1.02         1.02         0.10         0.99         0.20 
TCGA-AY-4070 TCGA-AZ-4323 TCGA-AZ-6599 TCGA-CA-5797 TCGA-CK-4948 TCGA-CM-4752 
       16.31         1.41         6.74         3.29       102.44         4.04 
TCGA-D5-5538 TCGA-DM-A1HA TCGA-DM-A285 TCGA-DM-A28F TCGA-F4-6807 TCGA-G4-6307 
       12.26       131.51         6.08        35.97         0.53        55.04 
TCGA-G4-6323 TCGA-AF-2687 TCGA-AG-3731 TCGA-AG-3893 TCGA-AG-4001 TCGA-AG-A01Y 
       13.78        24.13         1.02         0.99         1.02        63.98 
TCGA-AH-6549 TCGA-CI-6619 TCGA-CI-6620 TCGA-CI-6624 TCGA-EI-6508 TCGA-EI-6513 
        0.20         6.02         6.02         4.70        20.91        16.34 
TCGA-F5-6702 TCGA-F5-6810 TCGA-G5-6641 
        2.17         0.39        26.43 

$subtype2
TCGA-A6-2675 TCGA-A6-4105 TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5659 TCGA-A6-5660 
       27.81        14.50        15.19        12.07         9.40        11.24 
TCGA-A6-5661 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5665 TCGA-A6-5666 TCGA-A6-5667 
       10.06        14.89        11.90        13.28        23.64        10.52 
TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6141 TCGA-A6-6648 TCGA-A6-6649 TCGA-A6-6650 
        9.17        11.70         8.35        11.31        10.78         9.11 
TCGA-A6-6651 TCGA-A6-6652 TCGA-A6-6653 TCGA-A6-6654 TCGA-A6-6781 TCGA-A6-6782 
        8.48        14.96         9.27        13.12         9.63         6.21 
TCGA-AA-3489 TCGA-AA-3663 TCGA-AA-3697 TCGA-AA-3713 TCGA-AA-A01X TCGA-AA-A01Z 
        1.02         1.02         0.95         0.95        26.01        20.98 
TCGA-AA-A02E TCGA-AD-5900 TCGA-AD-6888 TCGA-AD-6889 TCGA-AD-6890 TCGA-AD-6895 
        2.93         0.07         4.21        56.52         0.79         0.72 
TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6963 TCGA-AM-5820 TCGA-AM-5821 TCGA-AU-3779 
        1.55         1.02         0.10         0.46         0.92        14.47 
TCGA-AU-6004 TCGA-AY-5543 TCGA-AY-6196 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4616 
        6.67        15.75         0.20        13.91        11.84         5.13 
TCGA-AZ-5403 TCGA-AZ-6598 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6603 TCGA-AZ-6605 
       62.79        49.41        12.10        99.98        29.56         5.23 
TCGA-AZ-6607 TCGA-AZ-6608 TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-5796 TCGA-CA-6715 
        3.19         1.94         2.24         3.06         3.25         0.07 
TCGA-CA-6716 TCGA-CA-6717 TCGA-CA-6718 TCGA-CA-6719 TCGA-CK-4947 TCGA-CK-4950 
        0.26         0.33         0.10         1.35        17.52        40.31 
TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-5914 TCGA-CK-5916 TCGA-CK-6747 TCGA-CK-6748 
       15.58        28.04        21.99        21.01         2.93         2.01 
TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 
      124.11         6.05        19.96        16.04        21.96        19.04 
TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5862 TCGA-CM-5863 TCGA-CM-5864 TCGA-CM-5868 
       16.01        15.02         5.03        15.02        15.02        17.03 
TCGA-CM-6161 TCGA-CM-6162 TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 TCGA-CM-6166 
       15.02        12.00        14.04        29.03        16.04        21.96 
TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6674 
       14.99        12.99        13.02        15.02        14.04        12.95 
TCGA-CM-6675 TCGA-CM-6676 TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6679 TCGA-CM-6680 
       13.02        11.08        11.08        11.01        10.06        12.03 
TCGA-D5-5537 TCGA-D5-5539 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6529 TCGA-D5-6530 
       14.99        19.59        13.51        11.51        20.19        20.42 
TCGA-D5-6531 TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6534 TCGA-D5-6535 TCGA-D5-6536 
       17.75        18.25         1.32         7.92        15.12        17.85 
TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6898 
        4.47        17.13        12.49        16.14        15.58         7.53 
TCGA-D5-6920 TCGA-D5-6922 TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6926 TCGA-D5-6927 
       12.39        10.13        12.39        14.27         9.04         9.44 
TCGA-D5-6928 TCGA-D5-6929 TCGA-D5-6930 TCGA-D5-6931 TCGA-D5-7000 TCGA-DM-A0XF 
       11.64        13.38         1.48        12.00        10.26        38.20 
TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D6 TCGA-DM-A1D7 TCGA-DM-A1D8 TCGA-DM-A1D9 
      130.65        92.75        49.91        13.28        12.59       140.38 
TCGA-DM-A1DA TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A282 TCGA-DM-A288 TCGA-DM-A28A 
        7.46       135.65         7.73       139.17        14.01        26.47 
TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28G TCGA-DM-A28H TCGA-DM-A28M TCGA-F4-6459 
       81.37       119.93        60.79       117.07        95.18         8.58 
TCGA-F4-6460 TCGA-F4-6461 TCGA-F4-6463 TCGA-F4-6569 TCGA-F4-6570 TCGA-F4-6703 
       13.38        11.11        13.61        13.41         6.15         9.80 
TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6806 TCGA-F4-6809 TCGA-F4-6854 TCGA-F4-6855 
        1.51         0.53         0.66         1.25         0.53         9.86 
TCGA-F4-6856 TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6299 
        0.66        28.21         8.35        82.39        23.51        74.56 
TCGA-G4-6302 TCGA-G4-6303 TCGA-G4-6306 TCGA-G4-6309 TCGA-G4-6310 TCGA-G4-6311 
       43.04        61.87        44.65        51.75        45.11        39.42 
TCGA-G4-6314 TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6586 
       35.93        36.72        36.00        26.43        22.06        35.80 
TCGA-G4-6588 TCGA-G4-6625 TCGA-G4-6626 TCGA-G4-6627 TCGA-G4-6628 TCGA-AF-2690 
       26.17        91.76        46.75        47.15        52.96        17.23 
TCGA-AF-2693 TCGA-AF-3911 TCGA-AF-4110 TCGA-AF-5654 TCGA-AF-6136 TCGA-AF-6655 
       19.10        25.02        14.50         8.45        15.35        11.67 
TCGA-AF-6672 TCGA-AG-4022 TCGA-AH-6544 TCGA-AH-6547 TCGA-AH-6643 TCGA-AH-6644 
       10.39         0.99         0.49         1.45         0.69         0.72 
TCGA-BM-6198 TCGA-CI-6622 TCGA-CI-6623 TCGA-CL-4957 TCGA-CL-5917 TCGA-CL-5918 
       10.19         6.94         9.37        13.97        60.00         7.99 
TCGA-DC-4745 TCGA-DC-4749 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6155 TCGA-DC-6156 
       10.98        11.01        15.02        12.99        14.01        15.02 
TCGA-DC-6157 TCGA-DC-6158 TCGA-DC-6160 TCGA-DC-6681 TCGA-DC-6682 TCGA-DC-6683 
       36.00         6.97        30.05        12.95        13.02        10.06 
TCGA-DT-5265 TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DD TCGA-DY-A1DE TCGA-DY-A1DF 
        5.29       126.41        41.33        57.24       129.27        24.13 
TCGA-DY-A1DG TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EF-5831 TCGA-EI-6506 TCGA-EI-6507 
       51.48        32.58         0.49         2.40        20.55        19.96 
TCGA-EI-6509 TCGA-EI-6510 TCGA-EI-6511 TCGA-EI-6512 TCGA-EI-6514 TCGA-F5-6465 
       17.00        18.28        15.85        17.69        16.31         3.39 
TCGA-F5-6571 TCGA-F5-6811 TCGA-F5-6812 TCGA-F5-6813 TCGA-G5-6233 TCGA-G5-6235 
        0.85         1.02         0.66         0.69        18.25        55.76 
TCGA-G5-6572 
       47.08 

$subtype3
TCGA-A6-2671 TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-2677 TCGA-A6-2678 
       36.99        22.88        25.02        23.38        17.79        25.68 
TCGA-A6-2679 TCGA-A6-2680 TCGA-A6-2681 TCGA-A6-2682 TCGA-A6-2683 TCGA-A6-2684 
       25.58        23.15        22.06        13.94        16.57        12.72 
TCGA-A6-2685 TCGA-A6-2686 TCGA-A6-3807 TCGA-A6-3808 TCGA-A6-3809 TCGA-A6-3810 
       15.25        16.04        10.92         9.14        10.29         8.09 
TCGA-A6-4107 TCGA-A6-6137 TCGA-A6-6780 TCGA-AA-3488 TCGA-AA-3495 TCGA-AA-3502 
        7.59        11.44        11.64         5.00         1.02         1.02 
TCGA-AA-3510 TCGA-AA-3518 TCGA-AA-3526 TCGA-AA-3555 TCGA-AA-3562 TCGA-AA-3660 
        1.02         1.02         0.99         0.99         1.02         1.02 
TCGA-AA-3666 TCGA-AA-3675 TCGA-AA-3679 TCGA-AA-3685 TCGA-AA-3710 TCGA-AA-3715 
        2.01         1.02         0.99         0.99         1.02         0.99 
TCGA-AA-3811 TCGA-AA-3818 TCGA-AA-3837 TCGA-AA-3842 TCGA-AA-3844 TCGA-AA-3846 
        0.99         0.99         1.02         1.02         0.92         0.99 
TCGA-AA-3848 TCGA-AA-3854 TCGA-AA-3856 TCGA-AA-3862 TCGA-AA-3877 TCGA-AA-3939 
        0.99         1.02         0.99         1.02         0.99         0.99 
TCGA-AA-3941 TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3952 TCGA-AA-3966 
        1.02         0.99         0.99         1.02         2.01         2.01 
TCGA-AA-3975 TCGA-AA-3977 TCGA-AA-3986 TCGA-AA-A00D TCGA-AA-A00J TCGA-AA-A00L 
        0.99         1.02         0.99        19.00        18.02        17.00 
TCGA-AA-A00O TCGA-AA-A00Q TCGA-AA-A00U TCGA-AA-A00W TCGA-AA-A010 TCGA-AA-A01D 
       27.02        27.02        17.00        14.99        20.98         0.99 
TCGA-AA-A01F TCGA-AA-A01G TCGA-AA-A01P TCGA-AA-A01R TCGA-AA-A01S TCGA-AA-A01T 
       13.02        12.00        38.07        35.01         1.02        33.04 
TCGA-AA-A01V TCGA-AA-A024 TCGA-AA-A029 TCGA-AA-A02F TCGA-AA-A02H TCGA-AA-A02J 
       35.01        39.06        51.95        39.95         2.01         5.03 
TCGA-AA-A02K TCGA-AA-A02O TCGA-AA-A02R TCGA-AA-A02Y TCGA-AA-A03F TCGA-AA-A03J 
       13.97         0.92        22.03        39.95        18.02        40.93 
TCGA-AY-4071 TCGA-AZ-4308 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4615 
        0.95        75.22        50.37        58.39         5.65        32.94 
TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-5407 TCGA-AZ-6606 TCGA-CA-5256 
       83.80        22.36        65.00        61.41        11.74         2.14 
TCGA-CK-4951 TCGA-CK-5912 TCGA-CM-4744 TCGA-CM-4746 TCGA-CM-4747 TCGA-CM-4748 
       70.16        48.03         7.04        22.98         8.02         7.04 
TCGA-CM-4750 TCGA-CM-5341 TCGA-CM-6172 TCGA-D5-6932 TCGA-DM-A0X9 TCGA-DM-A0XD 
        8.02        19.04        10.98         0.62       119.70        24.43 
TCGA-DM-A1DB TCGA-DM-A28K TCGA-F4-6808 TCGA-G4-6293 TCGA-G4-6304 TCGA-G4-6322 
       44.32        98.24         0.46       107.67        53.62        26.04 
TCGA-AF-2689 TCGA-AF-2691 TCGA-AF-2692 TCGA-AF-3400 TCGA-AF-3913 TCGA-AG-3575 
       17.95        10.62        13.55        12.72        10.39        12.00 
TCGA-AG-3581 TCGA-AG-3582 TCGA-AG-3583 TCGA-AG-3586 TCGA-AG-3587 TCGA-AG-3599 
        1.02         1.02         2.01         1.02         1.02         0.99 
TCGA-AG-3605 TCGA-AG-3726 TCGA-AG-3727 TCGA-AG-3742 TCGA-AG-3878 TCGA-AG-3883 
        0.99         7.96         0.95         0.99         0.99         1.02 
TCGA-AG-3887 TCGA-AG-3892 TCGA-AG-3894 TCGA-AG-3896 TCGA-AG-3999 TCGA-AG-4007 
        0.92         1.02         0.99         1.02         1.02         1.02 
TCGA-AG-4008 TCGA-AG-A002 TCGA-AG-A008 TCGA-AG-A00C TCGA-AG-A011 TCGA-AG-A015 
        1.02        20.94        13.91         6.02        17.03        13.02 
TCGA-AG-A016 TCGA-AG-A01L TCGA-AG-A01N TCGA-AG-A01W TCGA-AG-A020 TCGA-AG-A025 
        1.02        12.00        12.00        70.03        10.98        49.94 
TCGA-AG-A026 TCGA-AG-A02G TCGA-AG-A02N TCGA-AG-A02X TCGA-AG-A036 
        1.94        38.93        61.94        40.96        72.07 

subtype1 subtype2 subtype3 
    0.10     0.07     0.46 
subtype1 subtype2 subtype3 
  131.51   140.38   119.70 
subtype1 subtype2 subtype3 
    6.02    13.38    10.62 
[1] "0.1 - 131.5 (6.0)"  "0.1 - 140.4 (13.4)" "0.5 - 119.7 (10.6)"
  [1] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [19] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [49] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [67] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[151] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[187] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[223] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[265] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[289] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[295] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[301] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[319] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[325] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[331] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[337] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[343] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[349] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[355] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[361] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[367] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[373] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[379] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[385] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[391] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[403] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[409] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[415] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[421] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[427] "subtype2" "subtype2" "subtype1"
  [1] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [19] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [49] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [67] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[151] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[187] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[223] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[265] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[289] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[295] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[301] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[319] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[325] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[331] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[337] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[343] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[349] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[355] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[361] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[367] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[373] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[379] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[385] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[391] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[403] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[409] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[415] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[421] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[427] "subtype2" "subtype2" "subtype1"
  [1] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [19] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [49] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [67] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[151] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[187] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[223] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[265] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[277] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[289] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[295] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[301] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[319] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[325] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[331] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[337] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[343] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[349] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[355] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[361] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[367] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[373] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[379] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[385] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[391] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[403] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[409] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[415] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[421] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[427] "subtype2" "subtype2" "subtype1"
D10V2, continuous
D10V3, binary
          cls
clus         0   1
  subtype1  22  16
  subtype2 191  60
  subtype3 192  64
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   22   16
  subtype2  191   60
  subtype3  192   64
        clus
vv       subtype1 subtype2 subtype3
  COLON        22      191      192
  RECTUM       16       60       64
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1       3        1        2         6         0         0         0
  subtype2      34        0       16        77         4         2        10
  subtype3      57        0       23        65         6         0        18
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          2          6          4        8         3         0
  subtype2         11         35         24       14        15         1
  subtype3          4         27         17       34         5         0
D10V4, multiclass
          vv
clus       T0+T1  T2  T3  T4
  subtype1     1   3  29   4
  subtype2     5  40 179  28
  subtype3    14  52 168  24
D10V5, multiclass
          vv
clus        N0  N1  N2
  subtype1  13  13  11
  subtype2 144  64  42
  subtype3 156  56  46
D10V6, multiclass
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  21  10   1   0   5
  subtype2 179  20   6   1  42
  subtype3 212  38   2   0   3
D10V7, multiclass
D10V8, binary
          cls
clus         0   1
  subtype1  18  20
  subtype2 112 141
  subtype3 127 131
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   18   20
  subtype2  112  141
  subtype3  127  131
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       18      112      127
  MALE         20      141      131
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   20                             2
  subtype2                  166                            25
  subtype3                  165                            26
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    15                              1
  subtype2                    59                              1
  subtype3                    53                              8
D10V9, multiclass
D10V10, binary
          cls
clus         0   1
  subtype1   1  37
  subtype2   6 247
  subtype3   2 256
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   37
  subtype2    6  247
  subtype3    2  256
     clus
vv    subtype1 subtype2 subtype3
  NO         1        6        2
  YES       37      247      256
          vv
clus        R0  R1  R2  RX
  subtype1  19   1   5   1
  subtype2 153   2   3  23
  subtype3 210   2  28   2
D10V11, multiclass
D10V12, continuous

Clustering(11) Variable = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2       0  1
  subtype1 75 18
  subtype2 88 17
  subtype3 70 14
subtype1 subtype2 subtype3 
      93      105       84 
subtype1 subtype2 subtype3 
      18       17       14 
$subtype1
TCGA-A6-2675 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-6137 TCGA-A6-6140 TCGA-A6-6650 
       27.81         9.40        11.24        11.44        11.70         9.11 
TCGA-AA-3660 TCGA-AA-3697 TCGA-AD-6890 TCGA-AD-6965 TCGA-AU-3779 TCGA-AZ-6603 
        1.02         0.95         0.79         0.20        14.47        29.56 
TCGA-AZ-6608 TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6719 TCGA-CK-5912 TCGA-CM-5860 
        1.94         0.07         0.26         1.35        48.03        16.01 
TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-6161 TCGA-CM-6170 TCGA-CM-6676 TCGA-CM-6678 
        5.03        15.02        15.02        15.02        11.08        11.01 
TCGA-D5-5537 TCGA-D5-5538 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6533 
       14.99        12.26        13.51        11.51        18.25         1.32 
TCGA-D5-6538 TCGA-D5-6541 TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6926 TCGA-D5-6929 
       17.13        15.58        12.39        14.27         9.04        13.38 
TCGA-D5-6932 TCGA-DM-A0X9 TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D7 TCGA-DM-A1D8 
        0.62       119.70        38.20       130.65        13.28        12.59 
TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A282 TCGA-DM-A28A 
      140.38         7.46        44.32       131.51       139.17        26.47 
TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28H TCGA-F4-6808 
       81.37       119.93        35.97        60.79       117.07         0.46 
TCGA-G4-6293 TCGA-G4-6294 TCGA-G4-6307 TCGA-G4-6317 TCGA-AF-3911 TCGA-AF-5654 
      107.67        28.21        55.04        36.00        25.02         8.45 
TCGA-AF-6655 TCGA-AF-6672 TCGA-AG-3742 TCGA-AH-6549 TCGA-AH-6643 TCGA-CI-6619 
       11.67        10.39         0.99         0.20         0.69         6.02 
TCGA-CI-6620 TCGA-CI-6622 TCGA-CI-6623 TCGA-CL-4957 TCGA-CL-5917 TCGA-CL-5918 
        6.02         6.94         9.37        13.97        60.00         7.99 
TCGA-DC-4745 TCGA-DC-4749 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6156 TCGA-DC-6157 
       10.98        11.01        15.02        12.99        15.02        36.00 
TCGA-DC-6158 TCGA-DC-6682 TCGA-DC-6683 TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DD 
        6.97        13.02        10.06       126.41        41.33        57.24 
TCGA-DY-A1DG TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EF-5831 TCGA-EI-6506 TCGA-EI-6508 
       51.48        32.58         0.49         2.40        20.55        20.91 
TCGA-EI-6509 TCGA-EI-6513 TCGA-G5-6641 
       17.00        16.34        26.43 

$subtype2
TCGA-A6-4105 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-5666 TCGA-A6-6141 TCGA-A6-6648 
       14.50        10.06        13.28        23.64         8.35        11.31 
TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 TCGA-AA-3496 TCGA-AA-3663 TCGA-AA-3713 
        9.27        11.64         9.63         1.02         1.02         0.95 
TCGA-AD-5900 TCGA-AD-6548 TCGA-AD-6888 TCGA-AD-6889 TCGA-AD-6895 TCGA-AD-6963 
        0.07         0.10         4.21        56.52         0.72         0.10 
TCGA-AM-5821 TCGA-AU-6004 TCGA-AY-5543 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4616 
        0.92         6.67        15.75        13.91        11.84         5.13 
TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6606 
       61.41        49.41         6.74        12.10        99.98        11.74 
TCGA-CA-5254 TCGA-CA-5796 TCGA-CA-6718 TCGA-CK-4947 TCGA-CK-4948 TCGA-CK-4950 
        2.24         3.25         0.10        17.52       102.44        40.31 
TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-5914 TCGA-CK-5916 TCGA-CK-6747 TCGA-CK-6751 
       15.58        28.04        21.99        21.01         2.93       124.11 
TCGA-CM-4743 TCGA-CM-4751 TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-6162 TCGA-CM-6171 
        6.05        19.96        15.02        15.02        12.00        14.04 
TCGA-CM-6172 TCGA-CM-6674 TCGA-CM-6675 TCGA-CM-6680 TCGA-D5-6529 TCGA-D5-6530 
       10.98        12.95        13.02        12.03        20.19        20.42 
TCGA-D5-6531 TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6920 
       17.75        15.12         4.47        12.49        16.14        12.39 
TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6931 TCGA-D5-7000 TCGA-DM-A0XD TCGA-DM-A1D4 
        9.44        11.64        12.00        10.26        24.43        92.75 
TCGA-DM-A1D6 TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A288 TCGA-DM-A28K TCGA-DM-A28M 
       49.91       135.65         7.73        14.01        98.24        95.18 
TCGA-F4-6570 TCGA-F4-6806 TCGA-F4-6856 TCGA-G4-6295 TCGA-G4-6299 TCGA-G4-6304 
        6.15         0.66         0.66         8.35        74.56        53.62 
TCGA-G4-6306 TCGA-G4-6309 TCGA-G4-6311 TCGA-G4-6315 TCGA-G4-6320 TCGA-G4-6321 
       44.65        51.75        39.42        36.72        26.43        22.06 
TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6625 TCGA-G4-6626 
       26.04        13.78        35.80        26.17        91.76        46.75 
TCGA-G4-6628 TCGA-AF-2693 TCGA-AF-6136 TCGA-AH-6544 TCGA-AH-6547 TCGA-BM-6198 
       52.96        19.10        15.35         0.49         1.45        10.19 
TCGA-CI-6624 TCGA-DC-6155 TCGA-DC-6160 TCGA-EI-6507 TCGA-EI-6510 TCGA-EI-6511 
        4.70        14.01        30.05        19.96        18.28        15.85 
TCGA-EI-6512 TCGA-G5-6233 TCGA-G5-6235 
       17.69        18.25        55.76 

$subtype3
TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5667 TCGA-A6-6138 
       15.19        12.07        14.89        11.90        10.52         9.17 
TCGA-A6-6142 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6652 TCGA-A6-6654 TCGA-A6-6782 
       12.10        10.78         8.48        14.96        13.12         6.21 
TCGA-AA-3489 TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6964 TCGA-AM-5820 TCGA-AY-6196 
        1.02         1.55         1.02         0.99         0.46         0.20 
TCGA-AZ-4323 TCGA-AZ-5403 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-5255 TCGA-CA-5797 
        1.41        62.79         5.23         3.19         3.06         3.29 
TCGA-CA-6717 TCGA-CK-6748 TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5868 
        0.33         2.01        16.04        21.96        19.04        17.03 
TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6167 TCGA-CM-6168 
       14.04        29.03        16.04        21.96        14.99        12.99 
TCGA-CM-6169 TCGA-CM-6677 TCGA-CM-6679 TCGA-D5-5539 TCGA-D5-6534 TCGA-D5-6536 
       13.02        11.08        10.06        19.59         7.92        17.85 
TCGA-D5-6898 TCGA-D5-6922 TCGA-D5-6930 TCGA-DM-A285 TCGA-F4-6459 TCGA-F4-6460 
        7.53        10.13         1.48         6.08         8.58        13.38 
TCGA-F4-6461 TCGA-F4-6463 TCGA-F4-6569 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 
       11.11        13.61        13.41         9.80         1.51         0.53 
TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6854 TCGA-F4-6855 TCGA-G4-6297 TCGA-G4-6298 
        0.53         1.25         0.53         9.86        82.39        23.51 
TCGA-G4-6302 TCGA-G4-6303 TCGA-G4-6310 TCGA-G4-6314 TCGA-G4-6627 TCGA-AF-2687 
       43.04        61.87        45.11        35.93        47.15        24.13 
TCGA-AF-2690 TCGA-AF-4110 TCGA-AG-3731 TCGA-AG-4022 TCGA-AH-6644 TCGA-DC-6681 
       17.23        14.50         1.02         0.99         0.72        12.95 
TCGA-DT-5265 TCGA-DY-A1DE TCGA-DY-A1DF TCGA-EI-6514 TCGA-F5-6465 TCGA-F5-6571 
        5.29       129.27        24.13        16.31         3.39         0.85 
TCGA-F5-6702 TCGA-F5-6810 TCGA-F5-6811 TCGA-F5-6812 TCGA-F5-6813 TCGA-G5-6572 
        2.17         0.39         1.02         0.66         0.69        47.08 

subtype1 subtype2 subtype3 
    0.07     0.07     0.20 
subtype1 subtype2 subtype3 
  140.38   135.65   129.27 
subtype1 subtype2 subtype3 
   13.51    14.04    10.65 
[1] "0.1 - 140.4 (13.5)" "0.1 - 135.7 (14.0)" "0.2 - 129.3 (10.6)"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
  [7] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [13] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [19] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [31] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [55] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [73] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [91] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[115] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[121] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[127] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[133] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[163] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[175] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[193] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[199] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[205] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[217] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[223] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[229] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[247] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[253] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[259] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[271] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
  [7] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [13] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [19] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [31] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [55] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [73] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [91] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[115] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[121] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[127] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[133] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[163] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[175] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[193] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[199] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[205] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[217] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[223] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[229] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[247] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[253] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[259] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[271] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
  [7] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [13] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [19] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [31] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [55] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [73] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [91] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
[115] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[121] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[127] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[133] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[163] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[175] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[181] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[193] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
[199] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[205] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[217] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[223] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[229] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[247] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[253] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[259] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[271] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
D11V2, continuous
D11V3, binary
          cls
clus        0  1
  subtype1 62 39
  subtype2 93 15
  subtype3 65 19
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   62   39
  subtype2   93   15
  subtype3   65   19
        clus
vv       subtype1 subtype2 subtype3
  COLON        62       93       65
  RECTUM       39       15       19
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      16        0        3        28         2         0         5
  subtype2      19        1        8        32         2         2         5
  subtype3       6        0        6        25         1         0         0
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          7         13         11        6         5         0
  subtype2          4         18          4        5         4         1
  subtype3          2         12         12        8         9         0
D11V4, multiclass
          vv
clus       T0+T1 T2 T3 T4
  subtype1     6 16 69 10
  subtype2     2 22 75  9
  subtype3     1  5 64 14
D11V5, multiclass
          vv
clus       N0 N1 N2
  subtype1 53 28 19
  subtype2 69 30  9
  subtype3 40 20 23
D11V6, multiclass
          vv
clus       M0 M1 M1A M1B MX
  subtype1 76  7   3   0 14
  subtype2 73  7   1   1 25
  subtype3 55 13   3   0 11
D11V7, multiclass
D11V8, binary
          cls
clus        0  1
  subtype1 42 59
  subtype2 49 60
  subtype3 39 46
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   42   59
  subtype2   49   60
  subtype3   39   46
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       42       49       39
  MALE         59       60       46
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   61                             1
  subtype2                   76                            17
  subtype3                   54                            11
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    38                              1
  subtype2                    15                              0
  subtype3                    18                              1
D11V9, multiclass
D11V10, binary
          cls
clus         0   1
  subtype1   3  98
  subtype2   2 107
  subtype3   2  83
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   98
  subtype2    2  107
  subtype3    2   83
     clus
vv    subtype1 subtype2 subtype3
  NO         3        2        2
  YES       98      107       83
          vv
clus       R0 R1 R2 RX
  subtype1 54  0  2  9
  subtype2 63  2  1 11
  subtype3 56  0  1  4
D11V11, multiclass
D11V12, continuous

Clustering(12) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D12V1, survival
          sevent
clus2       0  1
  subtype1 29  3
  subtype2 87 16
  subtype3 85 23
  subtype4 32  7
subtype1 subtype2 subtype3 subtype4 
      32      103      108       39 
subtype1 subtype2 subtype3 subtype4 
       3       16       23        7 
$subtype1
TCGA-A6-5664 TCGA-CA-6715 TCGA-CA-6716 TCGA-CK-5914 TCGA-CM-6161 TCGA-CM-6166 
       11.90         0.07         0.26        21.99        15.02        21.96 
TCGA-D5-5540 TCGA-D5-6533 TCGA-D5-6538 TCGA-D5-6924 TCGA-D5-6929 TCGA-DM-A0XF 
       13.51         1.32        17.13        14.27        13.38        38.20 
TCGA-DM-A282 TCGA-DM-A28G TCGA-F4-6460 TCGA-F4-6463 TCGA-G4-6295 TCGA-G4-6298 
      139.17        60.79        13.38        13.61         8.35        23.51 
TCGA-G4-6314 TCGA-G4-6315 TCGA-AF-2687 TCGA-AF-5654 TCGA-AH-6549 TCGA-CI-6619 
       35.93        36.72        24.13         8.45         0.20         6.02 
TCGA-CL-4957 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6682 TCGA-EF-5830 TCGA-EI-6506 
       13.97        15.02        12.99        13.02         0.49        20.55 
TCGA-EI-6510 TCGA-F5-6810 
       18.28         0.39 

$subtype2
TCGA-A6-2675 TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5659 TCGA-A6-5662 TCGA-A6-5667 
       27.81        15.19        12.07         9.40        14.89        10.52 
TCGA-A6-6138 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6652 TCGA-A6-6654 TCGA-A6-6781 
        9.17        10.78         8.48        14.96        13.12         9.63 
TCGA-A6-6782 TCGA-AA-3489 TCGA-AD-5900 TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 
        6.21         1.02         0.07         0.72         1.55         1.02 
TCGA-AM-5820 TCGA-AU-3779 TCGA-AU-6004 TCGA-AY-6196 TCGA-AZ-4616 TCGA-AZ-5403 
        0.46        14.47         6.67         0.20         5.13        62.79 
TCGA-AZ-6599 TCGA-AZ-6601 TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-5254 
        6.74        99.98        29.56         5.23         3.19         2.24 
TCGA-CA-5255 TCGA-CA-6717 TCGA-CA-6718 TCGA-CA-6719 TCGA-CK-5916 TCGA-CK-6748 
        3.06         0.33         0.10         1.35        21.01         2.01 
TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-5868 
       16.04        21.96        19.04        15.02        15.02        17.03 
TCGA-CM-6162 TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 TCGA-CM-6167 TCGA-CM-6168 
       12.00        14.04        29.03        16.04        14.99        12.99 
TCGA-CM-6170 TCGA-CM-6674 TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6679 TCGA-CM-6680 
       15.02        12.95        11.08        11.01        10.06        12.03 
TCGA-D5-5539 TCGA-D5-5541 TCGA-D5-6531 TCGA-D5-6534 TCGA-D5-6536 TCGA-D5-6898 
       19.59        11.51        17.75         7.92        17.85         7.53 
TCGA-D5-6922 TCGA-D5-6926 TCGA-D5-6930 TCGA-D5-6932 TCGA-DM-A1D6 TCGA-F4-6459 
       10.13         9.04         1.48         0.62        49.91         8.58 
TCGA-F4-6461 TCGA-F4-6569 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6806 
       11.11        13.41         9.80         1.51         0.53         0.66 
TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6854 TCGA-F4-6855 TCGA-F4-6856 TCGA-G4-6302 
        0.53         1.25         0.53         9.86         0.66        43.04 
TCGA-G4-6303 TCGA-G4-6310 TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6323 TCGA-G4-6627 
       61.87        45.11        26.43        22.06        13.78        47.15 
TCGA-G4-6628 TCGA-AF-2690 TCGA-AF-3911 TCGA-AF-4110 TCGA-AG-4022 TCGA-AH-6547 
       52.96        17.23        25.02        14.50         0.99         1.45 
TCGA-AH-6644 TCGA-DC-4745 TCGA-DC-6681 TCGA-DC-6683 TCGA-DT-5265 TCGA-DY-A1DE 
        0.72        10.98        12.95        10.06         5.29       129.27 
TCGA-DY-A1DF TCGA-EI-6509 TCGA-EI-6514 TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6812 
       24.13        17.00        16.31         3.39         0.85         0.66 
TCGA-F5-6813 
        0.69 

$subtype3
TCGA-A6-4105 TCGA-A6-5660 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6137 TCGA-A6-6140 
       14.50        11.24        10.06        13.28        11.44        11.70 
TCGA-A6-6141 TCGA-A6-6648 TCGA-A6-6650 TCGA-A6-6653 TCGA-A6-6780 TCGA-AA-3663 
        8.35        11.31         9.11         9.27        11.64         1.02 
TCGA-AA-3697 TCGA-AA-3713 TCGA-AD-6548 TCGA-AD-6888 TCGA-AD-6889 TCGA-AD-6890 
        0.95         0.95         0.10         4.21        56.52         0.79 
TCGA-AD-6963 TCGA-AM-5821 TCGA-AY-5543 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-5407 
        0.10         0.92        15.75        13.91        11.84        61.41 
TCGA-AZ-6598 TCGA-AZ-6600 TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-5796 TCGA-CK-4947 
       49.41        12.10        11.74         1.94         3.25        17.52 
TCGA-CK-4950 TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-6747 TCGA-CK-6751 TCGA-CM-4743 
       40.31        15.58        28.04         2.93       124.11         6.05 
TCGA-CM-4751 TCGA-CM-6171 TCGA-CM-6675 TCGA-CM-6676 TCGA-D5-5537 TCGA-D5-6529 
       19.96        14.04        13.02        11.08        14.99        20.19 
TCGA-D5-6530 TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 
       20.42        15.12         4.47        12.49        16.14        15.58 
TCGA-D5-6920 TCGA-D5-6923 TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6931 TCGA-D5-7000 
       12.39        12.39         9.44        11.64        12.00        10.26 
TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A1D4 TCGA-DM-A1D7 TCGA-DM-A1D8 TCGA-DM-A1D9 
      119.70        24.43        92.75        13.28        12.59       140.38 
TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A288 TCGA-DM-A28C 
        7.46        44.32       135.65         7.73        14.01        81.37 
TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28H TCGA-DM-A28K TCGA-DM-A28M TCGA-F4-6570 
      119.93        35.97       117.07        98.24        95.18         6.15 
TCGA-F4-6808 TCGA-G4-6293 TCGA-G4-6294 TCGA-G4-6304 TCGA-G4-6306 TCGA-G4-6307 
        0.46       107.67        28.21        53.62        44.65        55.04 
TCGA-G4-6309 TCGA-G4-6311 TCGA-G4-6317 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6625 
       51.75        39.42        36.00        35.80        26.17        91.76 
TCGA-G4-6626 TCGA-AF-2693 TCGA-AF-6136 TCGA-AF-6655 TCGA-AF-6672 TCGA-AH-6544 
       46.75        19.10        15.35        11.67        10.39         0.49 
TCGA-AH-6643 TCGA-BM-6198 TCGA-CI-6622 TCGA-CI-6623 TCGA-CL-5918 TCGA-DC-4749 
        0.69        10.19         6.94         9.37         7.99        11.01 
TCGA-DC-6155 TCGA-DC-6160 TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DG TCGA-DY-A1H8 
       14.01        30.05       126.41        41.33        51.48        32.58 
TCGA-EF-5831 TCGA-EI-6507 TCGA-EI-6511 TCGA-EI-6512 TCGA-G5-6233 TCGA-G5-6235 
        2.40        19.96        15.85        17.69        18.25        55.76 

$subtype4
TCGA-A6-5666 TCGA-A6-6142 TCGA-AA-3496 TCGA-AA-3660 TCGA-AD-6964 TCGA-AD-6965 
       23.64        12.10         1.02         1.02         0.99         0.20 
TCGA-AZ-4323 TCGA-CA-5797 TCGA-CK-4948 TCGA-CK-5912 TCGA-CM-5860 TCGA-CM-5862 
        1.41         3.29       102.44        48.03        16.01         5.03 
TCGA-CM-5864 TCGA-CM-6169 TCGA-CM-6172 TCGA-D5-5538 TCGA-D5-6532 TCGA-DM-A1D0 
       15.02        13.02        10.98        12.26        18.25       130.65 
TCGA-DM-A1HA TCGA-DM-A285 TCGA-DM-A28A TCGA-G4-6297 TCGA-G4-6299 TCGA-G4-6322 
      131.51         6.08        26.47        82.39        74.56        26.04 
TCGA-AG-3731 TCGA-AG-3742 TCGA-CI-6620 TCGA-CI-6624 TCGA-CL-5917 TCGA-DC-6156 
        1.02         0.99         6.02         4.70        60.00        15.02 
TCGA-DC-6157 TCGA-DC-6158 TCGA-DY-A1DD TCGA-EI-6508 TCGA-EI-6513 TCGA-F5-6702 
       36.00         6.97        57.24        20.91        16.34         2.17 
TCGA-F5-6811 TCGA-G5-6572 TCGA-G5-6641 
        1.02        47.08        26.43 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.07     0.10     0.20 
subtype1 subtype2 subtype3 subtype4 
  139.17   129.27   140.38   131.51 
subtype1 subtype2 subtype3 subtype4 
  13.790   10.980   14.025   15.020 
[1] "0.1 - 139.2 (13.8)" "0.1 - 129.3 (11.0)" "0.1 - 140.4 (14.0)"
[4] "0.2 - 131.5 (15.0)"
  [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
  [7] "subtype3" "subtype2" "subtype1" "subtype3" "subtype4" "subtype2"
 [13] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype3"
 [19] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [25] "subtype3" "subtype2" "subtype2" "subtype2" "subtype4" "subtype4"
 [31] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [43] "subtype4" "subtype4" "subtype2" "subtype3" "subtype2" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype2"
 [55] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [61] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [67] "subtype2" "subtype3" "subtype4" "subtype1" "subtype1" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [79] "subtype4" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype4" "subtype2" "subtype4" "subtype2" "subtype4" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
[109] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype3" "subtype4" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype3" "subtype2" "subtype4" "subtype1" "subtype2"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[139] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype4"
[151] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype4" "subtype3" "subtype3" "subtype1" "subtype4"
[163] "subtype3" "subtype4" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[175] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype4" "subtype1"
[193] "subtype4" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[199] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[205] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[217] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[223] "subtype3" "subtype4" "subtype4" "subtype2" "subtype3" "subtype2"
[229] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype4"
[235] "subtype3" "subtype3" "subtype4" "subtype1" "subtype4" "subtype3"
[241] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype4"
[247] "subtype4" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[253] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[259] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[265] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype4"
[271] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[277] "subtype2" "subtype2" "subtype3" "subtype3" "subtype4" "subtype4"
  [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
  [7] "subtype3" "subtype2" "subtype1" "subtype3" "subtype4" "subtype2"
 [13] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype3"
 [19] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [25] "subtype3" "subtype2" "subtype2" "subtype2" "subtype4" "subtype4"
 [31] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [43] "subtype4" "subtype4" "subtype2" "subtype3" "subtype2" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype2"
 [55] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [61] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [67] "subtype2" "subtype3" "subtype4" "subtype1" "subtype1" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [79] "subtype4" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype4" "subtype2" "subtype4" "subtype2" "subtype4" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
[109] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype3" "subtype4" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype3" "subtype2" "subtype4" "subtype1" "subtype2"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[139] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype4"
[151] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype4" "subtype3" "subtype3" "subtype1" "subtype4"
[163] "subtype3" "subtype4" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[175] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype4" "subtype1"
[193] "subtype4" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[199] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[205] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[217] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[223] "subtype3" "subtype4" "subtype4" "subtype2" "subtype3" "subtype2"
[229] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype4"
[235] "subtype3" "subtype3" "subtype4" "subtype1" "subtype4" "subtype3"
[241] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype4"
[247] "subtype4" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[253] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[259] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[265] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype4"
[271] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[277] "subtype2" "subtype2" "subtype3" "subtype3" "subtype4" "subtype4"
  [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
  [7] "subtype3" "subtype2" "subtype1" "subtype3" "subtype4" "subtype2"
 [13] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype3"
 [19] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [25] "subtype3" "subtype2" "subtype2" "subtype2" "subtype4" "subtype4"
 [31] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [43] "subtype4" "subtype4" "subtype2" "subtype3" "subtype2" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype2"
 [55] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [61] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [67] "subtype2" "subtype3" "subtype4" "subtype1" "subtype1" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [79] "subtype4" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype4" "subtype2" "subtype4" "subtype2" "subtype4" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
[109] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype3" "subtype4" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype3" "subtype2" "subtype4" "subtype1" "subtype2"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[139] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype4"
[151] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype4" "subtype3" "subtype3" "subtype1" "subtype4"
[163] "subtype3" "subtype4" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[175] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype4" "subtype1"
[193] "subtype4" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[199] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[205] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[217] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[223] "subtype3" "subtype4" "subtype4" "subtype2" "subtype3" "subtype2"
[229] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype4"
[235] "subtype3" "subtype3" "subtype4" "subtype1" "subtype4" "subtype3"
[241] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype4"
[247] "subtype4" "subtype4" "subtype3" "subtype2" "subtype1" "subtype2"
[253] "subtype2" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[259] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
[265] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype4"
[271] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[277] "subtype2" "subtype2" "subtype3" "subtype3" "subtype4" "subtype4"
D12V2, continuous
D12V3, binary
          cls
clus        0  1
  subtype1 21 13
  subtype2 85 19
  subtype3 89 25
  subtype4 25 16
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   21   13
  subtype2   85   19
  subtype3   89   25
  subtype4   25   16
        clus
vv       subtype1 subtype2 subtype3 subtype4
  COLON        21       85       89       25
  RECTUM       13       19       25       16
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1       5        0        2         8         1         0         2
  subtype2      15        1        9        28         1         0         2
  subtype3      15        0        4        43         3         1         6
  subtype4       6        0        2         6         0         1         0
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          1          6          3        4         1         0
  subtype2          3         16         13        4         8         0
  subtype3          7         15          7        5         4         1
  subtype4          2          6          4        6         5         0
D12V4, multiclass
          vv
clus       T0+T1 T2 T3 T4
  subtype1     1  5 24  4
  subtype2     2 15 74 13
  subtype3     4 18 83 10
  subtype4     2  5 27  6
D12V5, multiclass
          vv
clus       N0 N1 N2
  subtype1 18 10  5
  subtype2 57 27 20
  subtype3 72 28 14
  subtype4 15 13 12
D12V6, multiclass
          vv
clus       M0 M1 M1A M1B MX
  subtype1 23  4   0   0  7
  subtype2 73  8   3   0 20
  subtype3 85  7   1   1 18
  subtype4 23  8   3   0  5
D12V7, multiclass
D12V8, binary
          cls
clus        0  1
  subtype1 15 19
  subtype2 49 56
  subtype3 48 67
  subtype4 18 23
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15   19
  subtype2   49   56
  subtype3   48   67
  subtype4   18   23
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       15       49       48       18
  MALE         19       56       67       23
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   19                             2
  subtype2                   70                            15
  subtype3                   79                            10
  subtype4                   23                             2
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    13                              0
  subtype2                    18                              1
  subtype3                    25                              0
  subtype4                    15                              1
D12V9, multiclass
D12V10, binary
          cls
clus         0   1
  subtype1   1  33
  subtype2   3 102
  subtype3   3 112
  subtype4   0  41
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   33
  subtype2    3  102
  subtype3    3  112
  subtype4    0   41
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        3        3        0
  YES       33      102      112       41
          vv
clus       R0 R1 R2 RX
  subtype1 21  0  0  5
  subtype2 73  0  0  8
  subtype3 58  2  1  9
  subtype4 21  0  3  2
D12V11, multiclass
D12V12, continuous
> q(save="no")
