
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/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.85.4149/Clusters2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.85.4149/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/COADREAD-TP/3537691/COADREAD-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/COADREAD-TP/3350932/COADREAD-TP.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"  "-oT="
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  

nPatients in clinical file=1182, in cluster file=591, common to both=588
[1]  12 588
[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 
200 234 100  41 
  1   2   3   4 
200 234 100  41 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3 
145 114  91 
  1   2   3 
145 114  91 
[1] "RPPA_CNMF"
[1] 3
  1   2   3   4 
118 186  35 122 
  1   2   3   4 
118 186  35 122 
[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  4 
38 83 56 66 
 1  2  3  4 
38 83 56 66 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
95 67 81 
 1  2  3 
95 67 81 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
245 222  83 
  1   2   3 
245 222  83 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
236  33 281 
  1   2   3 
236  33 281 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
  1   2   3 
105 106  85 
  1   2   3 
105 106  85 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
 1  2  3  4  5  6 
30 24 62 65 46 69 
 1  2  3  4  5  6 
30 24 62 65 46 69 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "DAYSTOLASTKNOWNALIVE"                  
[10] "HISTOLOGICALTYPE"                      
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "DISTANT.METASTASIS"                    
[13] "LYMPH.NODE.METASTASIS"                 
[14] "COMPLETENESS.OF.RESECTION"             
[15] "NUMBER.OF.LYMPH.NODES"                 
[16] "TUMOR.STAGECODE"                       
[17] "NEOPLASM.DISEASESTAGE"                 
[18] "BATCHNUMBER"                           

Input Data has 18 rows and 588 columns.

[1] "Batch" "18"   
[1] "Last Follow UP"
TCGA-A6-2670 TCGA-A6-2671 TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2675 TCGA-A6-2676 
         423          648          503          523          515          447 
TCGA-A6-2677 TCGA-A6-2678 TCGA-A6-2679 TCGA-A6-2680 TCGA-A6-2681 TCGA-A6-2682 
         541          437          595          522          552           NA 
TCGA-A6-2683 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-2686 TCGA-A6-3807 TCGA-A6-3808 
         472          387          464          488          332          278 
TCGA-A6-3809 TCGA-A6-3810 TCGA-A6-4105 TCGA-A6-4107 TCGA-A6-5656 TCGA-A6-5657 
         313          246           NA          231          462          367 
TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5661 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5665 
         286          342          306          297          362          286 
TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6141 
         244          320          195          181          124          129 
TCGA-A6-6142 TCGA-A6-6648 TCGA-A6-6649 TCGA-A6-6650 TCGA-A6-6651 TCGA-A6-6652 
         133          253          146          172          248          134 
TCGA-A6-6653 TCGA-A6-6654 TCGA-A6-6780 TCGA-A6-6781 TCGA-A6-6782 TCGA-AA-3488 
          90          177           86          158          164           NA 
TCGA-AA-3489 TCGA-AA-3492 TCGA-AA-3494 TCGA-AA-3495 TCGA-AA-3496 TCGA-AA-3502 
          31           NA           31           31           31           31 
TCGA-AA-3506 TCGA-AA-3509 TCGA-AA-3510 TCGA-AA-3511 TCGA-AA-3514 TCGA-AA-3516 
          NA           NA           31           NA           NA           NA 
TCGA-AA-3517 TCGA-AA-3518 TCGA-AA-3519 TCGA-AA-3520 TCGA-AA-3521 TCGA-AA-3522 
          NA           31           NA           NA           NA           NA 
TCGA-AA-3524 TCGA-AA-3525 TCGA-AA-3526 TCGA-AA-3527 TCGA-AA-3529 TCGA-AA-3530 
          NA           NA           30           NA           NA           NA 
TCGA-AA-3531 TCGA-AA-3532 TCGA-AA-3534 TCGA-AA-3538 TCGA-AA-3542 TCGA-AA-3543 
          NA           NA           NA           NA           NA           NA 
TCGA-AA-3544 TCGA-AA-3548 TCGA-AA-3549 TCGA-AA-3552 TCGA-AA-3553 TCGA-AA-3554 
          NA           NA           NA           NA           NA           NA 
TCGA-AA-3555 TCGA-AA-3556 TCGA-AA-3558 TCGA-AA-3560 TCGA-AA-3561 TCGA-AA-3562 
          30           NA           NA           NA           NA           31 
TCGA-AA-3655 TCGA-AA-3660 TCGA-AA-3662 TCGA-AA-3663 TCGA-AA-3664 TCGA-AA-3666 
          NA           31           NA           31           NA           NA 
TCGA-AA-3667 TCGA-AA-3672 TCGA-AA-3673 TCGA-AA-3675 TCGA-AA-3678 TCGA-AA-3679 
          NA           NA           NA           31           NA           30 
TCGA-AA-3680 TCGA-AA-3681 TCGA-AA-3684 TCGA-AA-3685 TCGA-AA-3688 TCGA-AA-3692 
          NA           NA           NA           30           NA           NA 
TCGA-AA-3693 TCGA-AA-3695 TCGA-AA-3696 TCGA-AA-3697 TCGA-AA-3710 TCGA-AA-3712 
          NA           NA           NA           29           31           NA 
TCGA-AA-3713 TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3812 TCGA-AA-3814 TCGA-AA-3815 
          29           30           30           NA           NA           NA 
TCGA-AA-3818 TCGA-AA-3819 TCGA-AA-3821 TCGA-AA-3831 TCGA-AA-3833 TCGA-AA-3837 
          NA           NA           NA           NA           NA           31 
TCGA-AA-3841 TCGA-AA-3842 TCGA-AA-3844 TCGA-AA-3845 TCGA-AA-3846 TCGA-AA-3848 
          NA           31           28           NA           30           30 
TCGA-AA-3850 TCGA-AA-3851 TCGA-AA-3852 TCGA-AA-3854 TCGA-AA-3855 TCGA-AA-3856 
          NA           NA           NA           31           NA           30 
TCGA-AA-3858 TCGA-AA-3860 TCGA-AA-3861 TCGA-AA-3862 TCGA-AA-3864 TCGA-AA-3866 
          NA           NA           NA           31           NA           NA 
TCGA-AA-3867 TCGA-AA-3869 TCGA-AA-3870 TCGA-AA-3872 TCGA-AA-3875 TCGA-AA-3877 
          NA           NA           NA           NA           NA           30 
TCGA-AA-3930 TCGA-AA-3939 TCGA-AA-3941 TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 
          NA           30           31           30           30           31 
TCGA-AA-3952 TCGA-AA-3955 TCGA-AA-3956 TCGA-AA-3966 TCGA-AA-3968 TCGA-AA-3970 
          NA           NA           NA           61           NA           NA 
TCGA-AA-3971 TCGA-AA-3972 TCGA-AA-3973 TCGA-AA-3975 TCGA-AA-3976 TCGA-AA-3977 
          NA           NA           NA           30           NA           31 
TCGA-AA-3979 TCGA-AA-3980 TCGA-AA-3982 TCGA-AA-3984 TCGA-AA-3986 TCGA-AA-3989 
          NA           NA           NA           NA           30           NA 
TCGA-AA-3994 TCGA-AA-A004 TCGA-AA-A00A TCGA-AA-A00D TCGA-AA-A00E TCGA-AA-A00F 
          NA          424          548          578          913         1035 
TCGA-AA-A00J TCGA-AA-A00K TCGA-AA-A00L TCGA-AA-A00N TCGA-AA-A00O TCGA-AA-A00Q 
         548          548          517           NA          822          822 
TCGA-AA-A00R TCGA-AA-A00U TCGA-AA-A00W TCGA-AA-A00Z TCGA-AA-A010 TCGA-AA-A017 
          30          517          456          669          638          457 
TCGA-AA-A01C TCGA-AA-A01D TCGA-AA-A01F TCGA-AA-A01G TCGA-AA-A01I TCGA-AA-A01K 
         457           30          396          365          365          396 
TCGA-AA-A01P TCGA-AA-A01Q TCGA-AA-A01R TCGA-AA-A01S TCGA-AA-A01T TCGA-AA-A01V 
          NA           31         1065           31         1005         1065 
TCGA-AA-A01X TCGA-AA-A01Z TCGA-AA-A022 TCGA-AA-A024 TCGA-AA-A029 TCGA-AA-A02E 
         791          638           NA           NA         1580           NA 
TCGA-AA-A02F TCGA-AA-A02H TCGA-AA-A02J TCGA-AA-A02K TCGA-AA-A02O TCGA-AA-A02R 
        1215           NA           NA           NA           28           NA 
TCGA-AA-A02W TCGA-AA-A02Y TCGA-AA-A03F TCGA-AA-A03J TCGA-AD-5900 TCGA-AD-6548 
        1246         1215           NA         1245            2            3 
TCGA-AD-6888 TCGA-AD-6889 TCGA-AD-6890 TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 
         128         1719           24           22           47           31 
TCGA-AD-6963 TCGA-AD-6964 TCGA-AD-6965 TCGA-AM-5820 TCGA-AM-5821 TCGA-AU-3779 
           3           30            6           14           28          440 
TCGA-AU-6004 TCGA-AY-4070 TCGA-AY-4071 TCGA-AY-5543 TCGA-AY-6196 TCGA-AY-6197 
         203           NA           NA          230            6          112 
TCGA-AY-6386 TCGA-AZ-4308 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4323 TCGA-AZ-4614 
         168         1714          957         1334           NA           NA 
TCGA-AZ-4615 TCGA-AZ-4616 TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-5403 
         505           NA         2180           NA         1705           NA 
TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6603 
        1395           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            5            2 
TCGA-CA-5256 TCGA-CA-5796 TCGA-CA-5797 TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6717 
          NA           12            8            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         1491 
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         3134          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 
         183          304          393          335          304          335 
TCGA-CM-5862 TCGA-CM-5863 TCGA-CM-5864 TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6162 
          NA          304           61          304          212          212 
TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6167 TCGA-CM-6168 
          90          487          212          424          122          181 
TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6172 TCGA-CM-6674 TCGA-CM-6675 
         243          242          181          211          149          152 
TCGA-CM-6676 TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6679 TCGA-CM-6680 TCGA-D5-5537 
         152          152          122          122           91          456 
TCGA-D5-5538 TCGA-D5-5539 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6529 TCGA-D5-6530 
         204           30          198          202          260          271 
TCGA-D5-6531 TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6534 TCGA-D5-6535 TCGA-D5-6536 
          17          107           40          241           10          287 
TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6898 
         136          246          144          186          108           45 
TCGA-D5-6920 TCGA-D5-6922 TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6926 TCGA-D5-6927 
         111          133           42           88           95           67 
TCGA-D5-6928 TCGA-D5-6929 TCGA-D5-6930 TCGA-D5-6931 TCGA-D5-6932 TCGA-D5-7000 
          20          145           45           43           19           41 
TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D6 
        3429          743         1162         3621         2821         1518 
TCGA-DM-A1D7 TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA 
          NA          383         3927          227         1348         3927 
TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A282 TCGA-DM-A285 TCGA-DM-A288 TCGA-DM-A28A 
        3774          235         4122          185          426          805 
TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28H TCGA-DM-A28K 
        2475         3529         1094         1849         3422         2835 
TCGA-DM-A28M TCGA-F4-6459 TCGA-F4-6460 TCGA-F4-6461 TCGA-F4-6463 TCGA-F4-6569 
        2774           NA           NA           NA           NA           NA 
TCGA-F4-6570 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6806 TCGA-F4-6807 
          NA           56           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           42           20         3203 
TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6299 TCGA-G4-6302 
          NA          254         2288           NA         2077         1309 
TCGA-G4-6303 TCGA-G4-6304 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6309 TCGA-G4-6310 
        1882         1631         1358         1485         1386         1204 
TCGA-G4-6311 TCGA-G4-6314 TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6320 TCGA-G4-6321 
        1112         1031          937          893          678          571 
TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6625 TCGA-G4-6626 
         546          201          741          644         2672           NA 
TCGA-G4-6627 TCGA-G4-6628 TCGA-AF-2687 TCGA-AF-2689 TCGA-AF-2690 TCGA-AF-2691 
        1434         1611          594          482          358          323 
TCGA-AF-2692 TCGA-AF-2693 TCGA-AF-3400 TCGA-AF-3911 TCGA-AF-3913 TCGA-AF-3914 
         412          581          387          536          316          264 
TCGA-AF-4110 TCGA-AF-5654 TCGA-AF-6136 TCGA-AF-6655 TCGA-AF-6672 TCGA-AG-3574 
         441          257          231          193          223           NA 
TCGA-AG-3575 TCGA-AG-3578 TCGA-AG-3580 TCGA-AG-3581 TCGA-AG-3582 TCGA-AG-3583 
         365           NA           NA           31           31           61 
TCGA-AG-3584 TCGA-AG-3586 TCGA-AG-3587 TCGA-AG-3591 TCGA-AG-3592 TCGA-AG-3593 
          NA           31           31           NA           NA           NA 
TCGA-AG-3594 TCGA-AG-3598 TCGA-AG-3599 TCGA-AG-3600 TCGA-AG-3601 TCGA-AG-3602 
          NA           NA           30           NA           NA           NA 
TCGA-AG-3605 TCGA-AG-3608 TCGA-AG-3609 TCGA-AG-3611 TCGA-AG-3612 TCGA-AG-3725 
          30           NA           NA           NA           NA           NA 
TCGA-AG-3726 TCGA-AG-3727 TCGA-AG-3728 TCGA-AG-3731 TCGA-AG-3732 TCGA-AG-3742 
         242           29           NA           31           NA           30 
TCGA-AG-3878 TCGA-AG-3881 TCGA-AG-3882 TCGA-AG-3883 TCGA-AG-3885 TCGA-AG-3887 
          30           NA           NA           31           NA           28 
TCGA-AG-3890 TCGA-AG-3891 TCGA-AG-3892 TCGA-AG-3893 TCGA-AG-3894 TCGA-AG-3896 
          NA           30           31           30           30           31 
TCGA-AG-3898 TCGA-AG-3901 TCGA-AG-3902 TCGA-AG-3909 TCGA-AG-3999 TCGA-AG-4001 
          NA           NA           NA           NA           31           31 
TCGA-AG-4005 TCGA-AG-4007 TCGA-AG-4008 TCGA-AG-4015 TCGA-AG-4021 TCGA-AG-4022 
          NA           31           31           NA           NA           30 
TCGA-AG-A002 TCGA-AG-A008 TCGA-AG-A00C TCGA-AG-A00H TCGA-AG-A00Y TCGA-AG-A011 
         637          423          183          789          700          518 
TCGA-AG-A014 TCGA-AG-A015 TCGA-AG-A016 TCGA-AG-A01J TCGA-AG-A01L TCGA-AG-A01N 
         484          396           31           31          365          365 
TCGA-AG-A01W TCGA-AG-A01Y TCGA-AG-A020 TCGA-AG-A023 TCGA-AG-A025 TCGA-AG-A026 
        2130         1946          334           NA         1519           NA 
TCGA-AG-A02G TCGA-AG-A02N TCGA-AG-A02X TCGA-AG-A032 TCGA-AG-A036 TCGA-AH-6544 
          NA         1884         1246         1156         2192           15 
TCGA-AH-6547 TCGA-AH-6549 TCGA-AH-6643 TCGA-AH-6644 TCGA-AH-6897 TCGA-AH-6903 
          44            6           21           22          140           55 
TCGA-BM-6198 TCGA-CI-6619 TCGA-CI-6620 TCGA-CI-6621 TCGA-CI-6622 TCGA-CI-6623 
         310          183          183           NA          211          285 
TCGA-CI-6624 TCGA-CL-4957 TCGA-CL-5917 TCGA-CL-5918 TCGA-DC-4745 TCGA-DC-4749 
         143          425         1825          243          334          335 
TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6154 TCGA-DC-6155 TCGA-DC-6156 TCGA-DC-6157 
         304          153          273          224          212          849 
TCGA-DC-6158 TCGA-DC-6160 TCGA-DC-6681 TCGA-DC-6682 TCGA-DC-6683 TCGA-DT-5265 
         212          608          180          121          152            8 
TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DD TCGA-DY-A1DE TCGA-DY-A1DF TCGA-DY-A1DG 
        3635         1257         1741         3683          734         1566 
TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EF-5831 TCGA-EI-6506 TCGA-EI-6507 TCGA-EI-6508 
         991           15           73          232            5           66 
TCGA-EI-6509 TCGA-EI-6510 TCGA-EI-6511 TCGA-EI-6512 TCGA-EI-6513 TCGA-EI-6514 
         250           14          121           20          210          216 
TCGA-EI-6881 TCGA-EI-6882 TCGA-EI-6883 TCGA-EI-6884 TCGA-EI-6885 TCGA-EI-6917 
         187          108          121           83          159          237 
TCGA-EI-7002 TCGA-EI-7004 TCGA-F5-6464 TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6702 
          84           62           NA          103           26           66 
TCGA-F5-6810 TCGA-F5-6811 TCGA-F5-6812 TCGA-F5-6813 TCGA-F5-6814 TCGA-F5-6861 
          12           31           20           21           16           33 
TCGA-F5-6863 TCGA-F5-6864 TCGA-G5-6233 TCGA-G5-6235 TCGA-G5-6572 TCGA-G5-6641 
          23           14           NA         1451           NA          636 
Variable 1:'AGE':	nDistinctValues=59,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=58,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=265,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=14,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=30,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'HISTOLOGICAL.TYPE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'DISTANT.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'LYMPH.NODE.METASTASIS':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=32,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 16:'TUMOR.STAGECODE':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NEOPLASM.DISEASESTAGE':	nDistinctValues=13,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 18:'BATCH.NUMBER':	nDistinctValues=26,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "PRIMARY.SITE.OF.DISEASE"               
 [3] "GENDER"                                
 [4] "HISTOLOGICAL.TYPE"                     
 [5] "RADIATIONS.RADIATION.REGIMENINDICATION"
 [6] "DISTANT.METASTASIS"                    
 [7] "LYMPH.NODE.METASTASIS"                 
 [8] "COMPLETENESS.OF.RESECTION"             
 [9] "NUMBER.OF.LYMPH.NODES"                 
[10] "TUMOR.STAGECODE"                       
[11] "NEOPLASM.DISEASESTAGE"                 
[1] "TUMOR.?STAGE" "10"          
[1] "stage2"
vv
 T0  T1  T2  T3  T4 T4A T4B TIS 
  1  19 103 402  31  22   8   1 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 588 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
GENDER, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL.TYPE, nv=4, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
DISTANT.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=9, binary=FALSE, numeric=FALSE
COMPLETENESS.OF.RESECTION, nv=4, binary=FALSE, numeric=FALSE
NUMBER.OF.LYMPH.NODES, nv=32, binary=FALSE, numeric=TRUE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=13, binary=FALSE, numeric=FALSE

Clustering(1) Variable = MRNA_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 25  1
  subtype2 25 10
  subtype3 30  2
  subtype4 24  2
subtype1 subtype2 subtype3 subtype4 
      26       35       32       26 
subtype1 subtype2 subtype3 subtype4 
       1       10        2        2 
$subtype1
TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-3808 TCGA-A6-3809 TCGA-A6-3810 
       16.54        17.19        14.70         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        15.52        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 
       14.37         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 
       15.85         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
D1V4, 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                   26                            13
  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
D1V5, multiclass
D1V6, 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       M0 M1 M1A
  subtype1 39  6   0
  subtype2 45 17   0
  subtype3 63  8   0
  subtype4 39  2   1
D1V7, multiclass
          vv
clus       N0 N1 N1A N1B N2 N2A
  subtype1 30  6   0   0 10   0
  subtype2 28 16   1   0 17   0
  subtype3 46 12   0   0 13   1
  subtype4 32  7   0   1  2   0
D1V8, multiclass
          vv
clus       R0 R1 R2
  subtype1 38  0  4
  subtype2 45  2 15
  subtype3 62  0  8
  subtype4 40  0  2
D1V9, multiclass
D1V10, continuous
D1V11, continuous
          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
D1V12, multiclass

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1 12  1
  subtype2 29  3
  subtype3 35  3
  subtype4 28  8
subtype1 subtype2 subtype3 subtype4 
      13       32       38       36 
subtype1 subtype2 subtype3 subtype4 
       1        3        3        8 
$subtype1
TCGA-A6-2678 TCGA-A6-3810 TCGA-AA-3679 TCGA-AA-3685 TCGA-AA-3846 TCGA-AA-3856 
       14.37         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 
       16.54        17.19        14.70         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        15.52        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        15.85        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 
   17.03    51.98    40.96    40.96 
subtype1 subtype2 subtype3 subtype4 
   0.990   12.000    1.515   10.655 
[1] "0.9 - 17.0 (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
D2V4, 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                   31                            20
  subtype4                   35                             1
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    11                              1
  subtype2                    14                              2
  subtype3                    10                              3
  subtype4                    23                              1
D2V5, multiclass
D2V6, 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       M0 M1 M1A
  subtype1 38  6   0
  subtype2 45  6   0
  subtype3 58  6   1
  subtype4 45 15   0
D2V7, multiclass
          vv
clus       N0 N1 N1A N1B N2 N2A
  subtype1 29 10   0   0  5   1
  subtype2 34  8   0   0  9   0
  subtype3 44 11   0   1 10   0
  subtype4 29 12   1   0 18   0
D2V8, multiclass
          vv
clus       R0 R1 R2
  subtype1 37  0  6
  subtype2 44  0  7
  subtype3 58  0  4
  subtype4 46  2 12
D2V9, multiclass
D2V10, continuous
D2V11, continuous
          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
D2V12, multiclass

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2        0   1
  subtype1 131  22
  subtype2 170  22
  subtype3  63  12
  subtype4  27   4
subtype1 subtype2 subtype3 subtype4 
     153      192       75       31 
subtype1 subtype2 subtype3 subtype4 
      22       22       12        4 
$subtype1
TCGA-A6-2670 TCGA-A6-2671 TCGA-A6-2679 TCGA-A6-2680 TCGA-A6-2683 TCGA-A6-3807 
       13.91        21.30        19.56        17.16        15.52        10.92 
TCGA-A6-3810 TCGA-A6-4105 TCGA-A6-5656 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5662 
        8.09        14.50        15.19         9.40        11.24         9.76 
TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6142 TCGA-A6-6650 
        8.02        10.52         5.95         4.08         4.37         5.65 
TCGA-A6-6652 TCGA-A6-6782 TCGA-AA-3488 TCGA-AA-3562 TCGA-AA-3666 TCGA-AA-3679 
        4.41         5.39         5.00         1.02         2.01         0.99 
TCGA-AA-3685 TCGA-AA-3697 TCGA-AA-3842 TCGA-AA-3846 TCGA-AA-3848 TCGA-AA-3975 
        0.99         0.95         1.02         0.99         0.99         0.99 
TCGA-AA-A00F TCGA-AA-A00L TCGA-AA-A00Q TCGA-AA-A00U TCGA-AA-A00W TCGA-AA-A017 
       34.03        17.00        27.02        17.00        14.99        15.02 
TCGA-AA-A01C TCGA-AA-A01F TCGA-AA-A01G TCGA-AA-A01T TCGA-AA-A02E TCGA-AA-A02F 
       15.02        13.02        12.00        33.04         2.93        39.95 
TCGA-AA-A02H TCGA-AA-A03J TCGA-AD-6888 TCGA-AD-6901 TCGA-AD-6963 TCGA-AD-6965 
        2.01        40.93         4.21         1.02         0.10         0.20 
TCGA-AU-3779 TCGA-AY-4071 TCGA-AY-5543 TCGA-AZ-4308 TCGA-AZ-4682 TCGA-AZ-6603 
       14.47         0.95         7.56        56.35        22.36        29.56 
TCGA-AZ-6605 TCGA-AZ-6608 TCGA-CA-6715 TCGA-CK-5912 TCGA-CK-5914 TCGA-CK-6748 
        5.23         1.94         0.07        48.03        21.99         2.01 
TCGA-CM-4750 TCGA-CM-4752 TCGA-CM-5860 TCGA-CM-5862 TCGA-CM-5868 TCGA-CM-6163 
        8.02         4.04         9.99         5.03         9.99         2.96 
TCGA-CM-6164 TCGA-CM-6170 TCGA-CM-6679 TCGA-D5-5538 TCGA-D5-5539 TCGA-D5-5540 
       16.01         7.96         4.01         6.71         0.99         6.51 
TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6535 TCGA-D5-6932 TCGA-DM-A1D0 TCGA-DM-A1D4 
        3.52         1.32         0.33         0.62       119.05        92.75 
TCGA-DM-A1HA TCGA-DM-A28A TCGA-DM-A28E TCGA-DM-A28F TCGA-F4-6808 TCGA-F4-6809 
      129.11        26.47       116.02        35.97         0.46         1.25 
TCGA-F4-6854 TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6303 TCGA-G4-6306 
        0.53        28.21         8.35        75.22        61.87        44.65 
TCGA-G4-6310 TCGA-G4-6314 TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6626 TCGA-AF-2689 
       39.58        33.90        30.81        29.36        46.75        15.85 
TCGA-AF-2692 TCGA-AF-2693 TCGA-AF-3911 TCGA-AF-3913 TCGA-AF-4110 TCGA-AF-6136 
       13.55        19.10        17.62        10.39        14.50         7.59 
TCGA-AG-3581 TCGA-AG-3582 TCGA-AG-3587 TCGA-AG-3727 TCGA-AG-3742 TCGA-AG-3883 
        1.02         1.02         1.02         0.95         0.99         1.02 
TCGA-AG-3893 TCGA-AG-3896 TCGA-AG-3999 TCGA-AG-4001 TCGA-AG-4007 TCGA-AG-4008 
        0.99         1.02         1.02         1.02         1.02         1.02 
TCGA-AG-4022 TCGA-AG-A00C TCGA-AG-A00H TCGA-AG-A00Y TCGA-AG-A014 TCGA-AG-A015 
        0.99         6.02        25.94        23.01        15.91        13.02 
TCGA-AG-A016 TCGA-AG-A01L TCGA-AG-A01N TCGA-AG-A01W TCGA-AG-A026 TCGA-AG-A02G 
        1.02        12.00        12.00        70.03         1.94        38.93 
TCGA-AG-A032 TCGA-CI-6622 TCGA-CL-4957 TCGA-CL-5918 TCGA-DC-4745 TCGA-DC-4749 
       38.01         6.94        13.97         7.99        10.98        11.01 
TCGA-DC-5869 TCGA-DC-6154 TCGA-DC-6156 TCGA-DC-6683 TCGA-DY-A0XA TCGA-DY-A1DC 
        5.03         8.98         6.97         5.00       119.51        41.33 
TCGA-DY-A1DE TCGA-DY-A1DF TCGA-DY-A1DG TCGA-EF-5831 TCGA-EI-6512 TCGA-EI-6513 
      121.08        24.13        51.48         2.40         0.66         6.90 
TCGA-EI-6514 TCGA-EI-6881 TCGA-EI-7002 TCGA-F5-6571 TCGA-F5-6810 TCGA-F5-6811 
        7.10         6.15         2.76         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-A6-2678 TCGA-A6-2682 TCGA-A6-2684 
       16.54        17.19        14.70        14.37        13.94        12.72 
TCGA-A6-2685 TCGA-A6-2686 TCGA-A6-5657 TCGA-A6-5661 TCGA-A6-5664 TCGA-A6-5665 
       15.25        16.04        12.07        10.06        11.90         9.40 
TCGA-A6-6141 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6653 TCGA-A6-6654 TCGA-A6-6780 
        4.24         4.80         8.15         2.96         5.82         2.83 
TCGA-A6-6781 TCGA-AA-3489 TCGA-AA-3510 TCGA-AA-3518 TCGA-AA-3555 TCGA-AA-3663 
        5.19         1.02         1.02         1.02         0.99         1.02 
TCGA-AA-3675 TCGA-AA-3710 TCGA-AA-3713 TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3818 
        1.02         1.02         0.95         0.99         0.99         0.99 
TCGA-AA-3837 TCGA-AA-3844 TCGA-AA-3854 TCGA-AA-3877 TCGA-AA-3939 TCGA-AA-3947 
        1.02         0.92         1.02         0.99         0.99         0.99 
TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3952 TCGA-AA-3966 TCGA-AA-3977 TCGA-AA-3986 
        0.99         1.02         2.01         2.01         1.02         0.99 
TCGA-AA-A00A TCGA-AA-A00E TCGA-AA-A00J TCGA-AA-A00N TCGA-AA-A00O TCGA-AA-A00R 
       18.02        30.02        18.02         4.01        27.02         0.99 
TCGA-AA-A010 TCGA-AA-A01D TCGA-AA-A01I TCGA-AA-A01K TCGA-AA-A01P TCGA-AA-A01Q 
       20.98         0.99        12.00        13.02        38.07         1.02 
TCGA-AA-A01R TCGA-AA-A01V TCGA-AA-A024 TCGA-AA-A02R TCGA-AA-A02Y TCGA-AA-A03F 
       35.01        35.01        39.06        22.03        39.95        18.02 
TCGA-AD-5900 TCGA-AD-6548 TCGA-AD-6889 TCGA-AD-6890 TCGA-AD-6895 TCGA-AD-6964 
        0.07         0.10        56.52         0.79         0.72         0.99 
TCGA-AM-5820 TCGA-AM-5821 TCGA-AU-6004 TCGA-AY-6196 TCGA-AY-6197 TCGA-AY-6386 
        0.46         0.92         6.67         0.20         3.68         5.52 
TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4323 TCGA-AZ-4615 TCGA-AZ-4616 TCGA-AZ-6599 
       31.46        43.86         1.41        16.60         5.13         6.74 
TCGA-AZ-6600 TCGA-AZ-6601 TCGA-CA-5255 TCGA-CA-5796 TCGA-CA-6716 TCGA-CA-6717 
       12.10        99.98         0.07         0.39         0.26         0.33 
TCGA-CA-6718 TCGA-CK-4947 TCGA-CK-4948 TCGA-CK-4950 TCGA-CK-4951 TCGA-CK-5913 
        0.10        17.52       102.44        40.31        49.02        28.04 
TCGA-CK-5916 TCGA-CK-6747 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4744 TCGA-CM-4746 
       21.01         2.93       103.04         6.05         7.04        22.98 
TCGA-CM-4748 TCGA-CM-5344 TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-6161 TCGA-CM-6162 
        7.04         9.99        11.01         9.99         6.97         6.97 
TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6675 TCGA-CM-6678 
        4.01         5.95         5.95         4.90         5.00         4.01 
TCGA-CM-6680 TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6531 TCGA-D5-6534 TCGA-D5-6536 
        2.99         8.55         8.91         0.56         7.92         9.44 
TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6920 TCGA-D5-6924 TCGA-D5-6927 TCGA-D5-6928 
        4.73         6.12         3.65         2.89         2.20         0.66 
TCGA-D5-6929 TCGA-D5-6930 TCGA-D5-6931 TCGA-D5-7000 TCGA-DM-A0XD TCGA-DM-A1D6 
        4.77         1.48         1.41         1.35        24.43        49.91 
TCGA-DM-A1D9 TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A282 TCGA-DM-A288 TCGA-DM-A28C 
      129.11       124.08         7.73       135.52        14.01        81.37 
TCGA-DM-A28G TCGA-DM-A28K TCGA-DM-A28M TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6806 
       60.79        93.21        91.20         1.84         1.51         0.66 
TCGA-F4-6807 TCGA-F4-6855 TCGA-F4-6856 TCGA-G4-6293 TCGA-G4-6298 TCGA-G4-6302 
        0.53         1.38         0.66       105.30        23.51        43.04 
TCGA-G4-6304 TCGA-G4-6309 TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6322 TCGA-G4-6323 
       53.62        45.57        22.29        18.77        17.95         6.61 
TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6627 TCGA-G4-6628 TCGA-AF-2691 TCGA-AF-3400 
       24.36        21.17        47.15        52.96        10.62        12.72 
TCGA-AF-5654 TCGA-AG-3575 TCGA-AG-3583 TCGA-AG-3599 TCGA-AG-3731 TCGA-AG-3878 
        8.45        12.00         2.01         0.99         1.02         0.99 
TCGA-AG-3892 TCGA-AG-3894 TCGA-AG-A002 TCGA-AG-A008 TCGA-AG-A020 TCGA-AG-A025 
        1.02         0.99        20.94        13.91        10.98        49.94 
TCGA-AG-A02N TCGA-AH-6544 TCGA-AH-6547 TCGA-AH-6897 TCGA-AH-6903 TCGA-BM-6198 
       61.94         0.49         1.45         4.60         1.81        10.19 
TCGA-CI-6620 TCGA-CI-6624 TCGA-DC-5337 TCGA-DC-6160 TCGA-DC-6681 TCGA-DT-5265 
        6.02         4.70         9.99        19.99         5.92         0.26 
TCGA-DY-A1H8 TCGA-EI-6506 TCGA-EI-6507 TCGA-EI-6508 TCGA-EI-6510 TCGA-EI-6882 
       32.58         7.63         0.16         2.17         0.46         3.55 
TCGA-EI-6884 TCGA-EI-6917 TCGA-EI-7004 TCGA-F5-6814 TCGA-F5-6861 TCGA-G5-6235 
        2.73         7.79         2.04         0.53         1.08        47.70 

$subtype3
TCGA-A6-2675 TCGA-A6-2677 TCGA-A6-6137 TCGA-A6-6648 TCGA-AA-3494 TCGA-AA-3495 
       16.93        17.79         6.41         8.32         1.02         1.02 
TCGA-AA-3496 TCGA-AA-3502 TCGA-AA-3526 TCGA-AA-3660 TCGA-AA-3941 TCGA-AA-A00D 
        1.02         1.02         0.99         1.02         1.02        19.00 
TCGA-AA-A00K TCGA-AA-A01S TCGA-AA-A01Z TCGA-AA-A02J TCGA-AA-A02O TCGA-AA-A02W 
       18.02         1.02        20.98         5.03         0.92        40.96 
TCGA-AD-6899 TCGA-AZ-4614 TCGA-AZ-4681 TCGA-AZ-5403 TCGA-AZ-5407 TCGA-AZ-6598 
        1.55         5.65        71.67        62.79        45.86        49.41 
TCGA-AZ-6606 TCGA-CA-5254 TCGA-CK-4952 TCGA-CM-4751 TCGA-CM-5348 TCGA-CM-5349 
       11.74         0.16        15.58        19.96        12.92        11.01 
TCGA-CM-6166 TCGA-CM-6169 TCGA-CM-6172 TCGA-CM-6676 TCGA-D5-5541 TCGA-D5-6537 
       13.94         7.99         6.94         5.00         6.64         4.47 
TCGA-D5-6538 TCGA-D5-6541 TCGA-D5-6898 TCGA-D5-6922 TCGA-D5-6923 TCGA-D5-6926 
        8.09         3.55         1.48         4.37         1.38         3.12 
TCGA-DM-A0X9 TCGA-DM-A0XF TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A285 TCGA-DM-A28H 
      112.73        38.20         7.46        44.32         6.08       112.50 
TCGA-F4-6805 TCGA-G4-6299 TCGA-G4-6311 TCGA-AF-6655 TCGA-AF-6672 TCGA-AG-3586 
        0.53        68.28        36.56         6.35         7.33         1.02 
TCGA-AG-3605 TCGA-AG-3726 TCGA-AG-3887 TCGA-AG-A01J TCGA-AG-A01Y TCGA-AG-A023 
        0.99         7.96         0.92         1.02        63.98        51.98 
TCGA-AH-6643 TCGA-AH-6644 TCGA-CI-6619 TCGA-CL-5917 TCGA-DC-6158 TCGA-DC-6682 
        0.69         0.72         6.02        60.00         6.97         3.98 
TCGA-DY-A1DD TCGA-EF-5830 TCGA-EI-6509 TCGA-EI-6511 TCGA-EI-6883 TCGA-F5-6702 
       57.24         0.49         8.22         3.98         3.98         2.17 
TCGA-F5-6864 TCGA-G5-6233 TCGA-G5-6641 
        0.46        18.25        20.91 

$subtype4
TCGA-A6-2681 TCGA-A6-4107 TCGA-AA-3856 TCGA-AA-A004 TCGA-AA-A00Z TCGA-AA-A01X 
       18.15         7.59         0.99        13.94        21.99        26.01 
TCGA-AA-A029 TCGA-AY-4070 TCGA-AZ-4684 TCGA-AZ-6607 TCGA-CA-5797 TCGA-CA-6719 
       51.95        16.31        56.05         3.19         0.26         1.35 
TCGA-CM-4747 TCGA-CM-5341 TCGA-CM-5864 TCGA-CM-6165 TCGA-CM-6677 TCGA-D5-5537 
        8.02         6.02         2.01         6.97         5.00        14.99 
TCGA-DM-A1D8 TCGA-G4-6307 TCGA-G4-6625 TCGA-AF-2687 TCGA-AF-2690 TCGA-AG-A011 
       12.59        48.82        87.85        19.53        11.77        17.03 
TCGA-AG-A02X TCGA-CI-6623 TCGA-DC-6155 TCGA-DC-6157 TCGA-EI-6885 TCGA-F5-6465 
       40.96         9.37         7.36        27.91         5.23         3.39 
TCGA-G5-6572 
       47.08 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.07     0.16     0.26 
subtype1 subtype2 subtype3 subtype4 
  129.11   135.52   112.73    87.85 
subtype1 subtype2 subtype3 subtype4 
   7.990    6.035    6.640   12.590 
[1] "0.1 - 129.1 (8.0)" "0.1 - 135.5 (6.0)" "0.2 - 112.7 (6.6)"
[4] "0.3 - 87.8 (12.6)"
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype4" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [19] "subtype1" "subtype4" "subtype1" "subtype2" "subtype1" "subtype1"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [37] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [49] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [73] "subtype1" "subtype2" "subtype4" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype2"
 [91] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype1" "subtype1" "subtype4" "subtype2"
[103] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[115] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[127] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[145] "subtype4" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[163] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[169] "subtype3" "subtype4" "subtype1" "subtype3" "subtype2" "subtype2"
[175] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype4"
[181] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[187] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype1"
[199] "subtype3" "subtype1" "subtype4" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype1"
[211] "subtype2" "subtype2" "subtype1" "subtype1" "subtype4" "subtype3"
[217] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype3" "subtype4" "subtype2" "subtype1"
[229] "subtype2" "subtype4" "subtype1" "subtype1" "subtype1" "subtype3"
[235] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[247] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[253] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[265] "subtype1" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[271] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[289] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[295] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
[301] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
[307] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype4"
[319] "subtype1" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[325] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[331] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[337] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[343] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[349] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[355] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[367] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[373] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[379] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype3"
[385] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[391] "subtype1" "subtype4" "subtype2" "subtype1" "subtype3" "subtype1"
[397] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype4"
[403] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype3"
[409] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[415] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[421] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[427] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[433] "subtype4" "subtype2" "subtype1" "subtype2" "subtype4" "subtype1"
[439] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[445] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype4"
[451] "subtype3"
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype4" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [19] "subtype1" "subtype4" "subtype1" "subtype2" "subtype1" "subtype1"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [37] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [49] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [73] "subtype1" "subtype2" "subtype4" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype2"
 [91] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype1" "subtype1" "subtype4" "subtype2"
[103] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[115] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[127] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[145] "subtype4" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[163] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[169] "subtype3" "subtype4" "subtype1" "subtype3" "subtype2" "subtype2"
[175] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype4"
[181] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[187] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype1"
[199] "subtype3" "subtype1" "subtype4" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype1"
[211] "subtype2" "subtype2" "subtype1" "subtype1" "subtype4" "subtype3"
[217] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype3" "subtype4" "subtype2" "subtype1"
[229] "subtype2" "subtype4" "subtype1" "subtype1" "subtype1" "subtype3"
[235] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[247] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[253] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[265] "subtype1" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[271] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[289] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[295] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
[301] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
[307] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype4"
[319] "subtype1" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[325] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[331] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[337] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[343] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[349] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[355] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[367] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[373] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[379] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype3"
[385] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[391] "subtype1" "subtype4" "subtype2" "subtype1" "subtype3" "subtype1"
[397] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype4"
[403] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype3"
[409] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[415] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[421] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[427] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[433] "subtype4" "subtype2" "subtype1" "subtype2" "subtype4" "subtype1"
[439] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[445] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype4"
[451] "subtype3"
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype4" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [19] "subtype1" "subtype4" "subtype1" "subtype2" "subtype1" "subtype1"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [37] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [49] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [73] "subtype1" "subtype2" "subtype4" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype2"
 [91] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype1" "subtype1" "subtype4" "subtype2"
[103] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[115] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[127] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[145] "subtype4" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[157] "subtype2" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[163] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[169] "subtype3" "subtype4" "subtype1" "subtype3" "subtype2" "subtype2"
[175] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype4"
[181] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[187] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype1"
[199] "subtype3" "subtype1" "subtype4" "subtype2" "subtype3" "subtype3"
[205] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype1"
[211] "subtype2" "subtype2" "subtype1" "subtype1" "subtype4" "subtype3"
[217] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype3" "subtype4" "subtype2" "subtype1"
[229] "subtype2" "subtype4" "subtype1" "subtype1" "subtype1" "subtype3"
[235] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[247] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[253] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[265] "subtype1" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[271] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[277] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[289] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[295] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
[301] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
[307] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype4"
[319] "subtype1" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[325] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[331] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[337] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[343] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
[349] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[355] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[367] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[373] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[379] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype3"
[385] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[391] "subtype1" "subtype4" "subtype2" "subtype1" "subtype3" "subtype1"
[397] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype4"
[403] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype3"
[409] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[415] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[421] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[427] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[433] "subtype4" "subtype2" "subtype1" "subtype2" "subtype4" "subtype1"
[439] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[445] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype4"
[451] "subtype3"
D3V2, continuous
D3V3, binary
          cls
clus         0   1
  subtype1 124  72
  subtype2 192  42
  subtype3  66  34
  subtype4  30  11
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  124   72
  subtype2  192   42
  subtype3   66   34
  subtype4   30   11
        clus
vv       subtype1 subtype2 subtype3 subtype4
  COLON       124      192       66       30
  RECTUM       72       42       34       11
D3V4, binary
          cls
clus         0   1
  subtype1  88 112
  subtype2 113 121
  subtype3  47  53
  subtype4  18  23
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   88  112
  subtype2  113  121
  subtype3   47   53
  subtype4   18   23
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       88      113       47       18
  MALE        112      121       53       23
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                  121                             3
  subtype2                  145                            46
  subtype3                   61                             5
  subtype4                   30                             0
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    72                              0
  subtype2                    32                              9
  subtype3                    28                              4
  subtype4                    11                              0
D3V5, multiclass
D3V6, binary
          cls
clus         0   1
  subtype1   3 197
  subtype2   2 232
  subtype3   2  98
  subtype4   2  39
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3  197
  subtype2    2  232
  subtype3    2   98
  subtype4    2   39
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         3        2        2        2
  YES      197      232       98       39
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 143  35   4   0  16
  subtype2 189  16   2   1  21
  subtype3  73  15   2   0  10
  subtype4  31   5   1   0   2
D3V7, multiclass
          vv
clus        N0  N1 N1A N1B N1C  N2 N2A N2B  NX
  subtype1  96  52   8   4   0  31   2   5   1
  subtype2 156  34   4   7   1  21   4   7   0
  subtype3  51  14   4   2   2  22   0   4   1
  subtype4  24   4   1   4   0   7   0   0   0
D3V8, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1 140   1  17   6
  subtype2 174   3   7  12
  subtype3  68   0  10   3
  subtype4  28   1   2   4
D3V9, multiclass
D3V10, continuous
D3V11, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      27        0        8        49         3         1        10
  subtype2      48        1       20        72         6         0        10
  subtype3      17        0       11        18         1         2         6
  subtype4       6        0        2        15         0         0         1
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          8         33         17       26        12         0
  subtype2          7         26         15       13         7         1
  subtype3          4         10         12       14         4         0
  subtype4          3          1          3        4         2         0
D3V12, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2        0   1
  subtype1 116  20
  subtype2  89  16
  subtype3  77   8
subtype1 subtype2 subtype3 
     136      105       85 
subtype1 subtype2 subtype3 
      20       16        8 
$subtype1
TCGA-A6-2671 TCGA-A6-2675 TCGA-A6-2680 TCGA-A6-5656 TCGA-A6-5660 TCGA-A6-5662 
       21.30        16.93        17.16        15.19        11.24         9.76 
TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6140 TCGA-A6-6648 TCGA-A6-6650 
        8.02        10.52         6.41         4.08         8.32         5.65 
TCGA-A6-6652 TCGA-A6-6782 TCGA-AA-3488 TCGA-AA-3494 TCGA-AA-3495 TCGA-AA-3496 
        4.41         5.39         5.00         1.02         1.02         1.02 
TCGA-AA-3660 TCGA-AA-3697 TCGA-AD-6888 TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 
        1.02         0.95         4.21         0.72         1.55         1.02 
TCGA-AD-6964 TCGA-AM-5820 TCGA-AU-3779 TCGA-AY-5543 TCGA-AZ-4308 TCGA-AZ-4681 
        0.99         0.46        14.47         7.56        56.35        71.67 
TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-6603 TCGA-AZ-6608 TCGA-CA-5797 TCGA-CA-6715 
       22.36        56.05        29.56         1.94         0.26         0.07 
TCGA-CK-5912 TCGA-CK-5914 TCGA-CK-6748 TCGA-CM-4750 TCGA-CM-4752 TCGA-CM-5341 
       48.03        21.99         2.01         8.02         4.04         6.02 
TCGA-CM-5344 TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6164 
        9.99         5.03         2.01         9.99         6.97        16.01 
TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6170 TCGA-CM-6172 TCGA-CM-6676 TCGA-CM-6678 
        6.97        13.94         7.96         6.94         5.00         4.01 
TCGA-CM-6679 TCGA-D5-5537 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6533 
        4.01        14.99         6.51         6.64         3.52         1.32 
TCGA-D5-6534 TCGA-D5-6537 TCGA-D5-6922 TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D6 
        7.92         4.47         4.37        38.20       119.05        49.91 
TCGA-DM-A1DB TCGA-DM-A282 TCGA-DM-A28A TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F 
       44.32       135.52        26.47        81.37       116.02        35.97 
TCGA-F4-6808 TCGA-F4-6854 TCGA-F4-6855 TCGA-F4-6856 TCGA-G4-6294 TCGA-G4-6297 
        0.46         0.53         1.38         0.66        28.21        75.22 
TCGA-G4-6298 TCGA-G4-6303 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6310 TCGA-G4-6311 
       23.51        61.87        44.65        48.82        39.58        36.56 
TCGA-G4-6314 TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6626 TCGA-AF-3911 TCGA-AF-6136 
       33.90        30.81        29.36        46.75        17.62         7.59 
TCGA-AG-4022 TCGA-AG-A026 TCGA-AG-A036 TCGA-AH-6549 TCGA-AH-6643 TCGA-AH-6644 
        0.99         1.94        72.07         0.20         0.69         0.72 
TCGA-AH-6903 TCGA-CI-6622 TCGA-CL-4957 TCGA-CL-5917 TCGA-CL-5918 TCGA-DC-4745 
        1.81         6.94        13.97        60.00         7.99        10.98 
TCGA-DC-4749 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6154 TCGA-DC-6155 TCGA-DC-6156 
       11.01         9.99         5.03         8.98         7.36         6.97 
TCGA-DC-6157 TCGA-DC-6158 TCGA-DC-6160 TCGA-DC-6683 TCGA-DY-A0XA TCGA-DY-A1DC 
       27.91         6.97        19.99         5.00       119.51        41.33 
TCGA-DY-A1DD TCGA-DY-A1DE TCGA-DY-A1DG TCGA-DY-A1H8 TCGA-EF-5831 TCGA-EI-6506 
       57.24       121.08        51.48        32.58         2.40         7.63 
TCGA-EI-6511 TCGA-EI-6513 TCGA-EI-6514 TCGA-EI-6881 TCGA-EI-6883 TCGA-EI-6885 
        3.98         6.90         7.10         6.15         3.98         5.23 
TCGA-EI-7002 TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6810 TCGA-F5-6811 TCGA-F5-6813 
        2.76         3.39         0.85         0.39         1.02         0.69 
TCGA-F5-6863 TCGA-F5-6864 TCGA-G5-6572 TCGA-G5-6641 
        0.76         0.46        47.08        20.91 

$subtype2
TCGA-A6-2672 TCGA-A6-2679 TCGA-A6-2681 TCGA-A6-2686 TCGA-A6-4105 TCGA-A6-4107 
       16.54        19.56        18.15        16.04        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         9.40         5.95         2.96         2.83 
TCGA-AA-3502 TCGA-AA-3663 TCGA-AA-3713 TCGA-AD-5900 TCGA-AD-6548 TCGA-AD-6890 
        1.02         1.02         0.95         0.07         0.10         0.79 
TCGA-AM-5821 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4614 TCGA-AZ-4615 TCGA-AZ-4616 
        0.92         3.68         5.52         5.65        16.60         5.13 
TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6606 TCGA-CA-5254 TCGA-CA-5796 
       45.86        49.41         6.74        11.74         0.16         0.39 
TCGA-CA-6716 TCGA-CA-6719 TCGA-CK-4947 TCGA-CK-4950 TCGA-CK-4951 TCGA-CK-4952 
        0.26         1.35        17.52        40.31        49.02        15.58 
TCGA-CK-5913 TCGA-CK-5916 TCGA-CK-6747 TCGA-CK-6751 TCGA-CM-4744 TCGA-CM-4746 
       28.04        21.01         2.93       103.04         7.04        22.98 
TCGA-CM-4747 TCGA-CM-4751 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-6169 TCGA-CM-6171 
        8.02        19.96         9.99        11.01         7.99         5.95 
TCGA-CM-6675 TCGA-CM-6677 TCGA-CM-6680 TCGA-D5-5538 TCGA-D5-5539 TCGA-D5-6531 
        5.00         5.00         2.99         6.71         0.99         0.56 
TCGA-D5-6535 TCGA-D5-6538 TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6920 TCGA-D5-6923 
        0.33         8.09         6.12         3.55         3.65         1.38 
TCGA-D5-6927 TCGA-D5-6929 TCGA-D5-6931 TCGA-D5-7000 TCGA-DM-A0X9 TCGA-DM-A0XD 
        2.20         4.77         1.41         1.35       112.73        24.43 
TCGA-DM-A1D4 TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1HA TCGA-DM-A1HB 
       92.75        12.59       129.11         7.46       129.11       124.08 
TCGA-DM-A285 TCGA-DM-A288 TCGA-DM-A28G TCGA-DM-A28H TCGA-DM-A28K TCGA-DM-A28M 
        6.08        14.01        60.79       112.50        93.21        91.20 
TCGA-F4-6806 TCGA-G4-6293 TCGA-G4-6295 TCGA-G4-6299 TCGA-G4-6320 TCGA-G4-6321 
        0.66       105.30         8.35        68.28        22.29        18.77 
TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6628 TCGA-AG-3731 
       17.95         6.61        24.36        21.17        52.96         1.02 
TCGA-AG-3742 TCGA-AG-A01W TCGA-AG-A020 TCGA-AG-A02N TCGA-AH-6897 TCGA-CI-6620 
        0.99        70.03        10.98        61.94         4.60         6.02 
TCGA-DT-5265 TCGA-DY-A1DF TCGA-EF-5830 TCGA-EI-6508 TCGA-EI-6510 TCGA-EI-6512 
        0.26        24.13         0.49         2.17         0.46         0.66 
TCGA-EI-6882 TCGA-F5-6814 TCGA-G5-6233 
        3.55         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         4.24 
TCGA-A6-6142 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6654 TCGA-A6-6781 TCGA-AA-3489 
        4.37         4.80         8.15         5.82         5.19         1.02 
TCGA-AA-3510 TCGA-AD-6889 TCGA-AD-6963 TCGA-AD-6965 TCGA-AU-6004 TCGA-AY-6196 
        1.02        56.52         0.10         0.20         6.67         0.20 
TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4323 TCGA-AZ-5403 TCGA-AZ-6600 TCGA-AZ-6601 
       31.46        43.86         1.41        62.79        12.10        99.98 
TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-5255 TCGA-CA-6717 TCGA-CA-6718 TCGA-CK-4948 
        5.23         3.19         0.07         0.33         0.10       102.44 
TCGA-CM-4743 TCGA-CM-4748 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5863 TCGA-CM-6162 
        6.05         7.04        12.92        11.01         9.99         6.97 
TCGA-CM-6163 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6674 TCGA-D5-6529 TCGA-D5-6530 
        2.96         4.01         5.95         4.90         8.55         8.91 
TCGA-D5-6536 TCGA-D5-6539 TCGA-D5-6898 TCGA-D5-6924 TCGA-D5-6926 TCGA-D5-6928 
        9.44         4.73         1.48         2.89         3.12         0.66 
TCGA-D5-6930 TCGA-D5-6932 TCGA-DM-A280 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 
        1.48         0.62         7.73         1.84         1.51         0.53 
TCGA-F4-6807 TCGA-F4-6809 TCGA-G4-6302 TCGA-G4-6304 TCGA-G4-6309 TCGA-G4-6625 
        0.53         1.25        43.04        53.62        45.57        87.85 
TCGA-G4-6627 TCGA-AF-2687 TCGA-AF-2690 TCGA-AF-2693 TCGA-AF-4110 TCGA-AF-6655 
       47.15        19.53        11.77        19.10        14.50         6.35 
TCGA-AF-6672 TCGA-AG-A01Y TCGA-AH-6544 TCGA-AH-6547 TCGA-BM-6198 TCGA-CI-6619 
        7.33        63.98         0.49         1.45        10.19         6.02 
TCGA-CI-6623 TCGA-CI-6624 TCGA-DC-6681 TCGA-DC-6682 TCGA-EI-6507 TCGA-EI-6509 
        9.37         4.70         5.92         3.98         0.16         8.22 
TCGA-EI-6884 TCGA-EI-6917 TCGA-EI-7004 TCGA-F5-6702 TCGA-F5-6812 TCGA-F5-6861 
        2.73         7.79         2.04         2.17         0.66         1.08 
TCGA-G5-6235 
       47.70 

subtype1 subtype2 subtype3 
    0.07     0.07     0.07 
subtype1 subtype2 subtype3 
  135.52   129.11   102.44 
subtype1 subtype2 subtype3 
    7.46     7.59     5.95 
[1] "0.1 - 135.5 (7.5)" "0.1 - 129.1 (7.6)" "0.1 - 102.4 (6.0)"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
  [7] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [25] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [31] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [37] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [61] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [85] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [97] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[133] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[139] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[157] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[163] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[187] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[193] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[205] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[217] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[223] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[241] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[247] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[253] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[265] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[283] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[295] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[301] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[307] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[319] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[325] "subtype1" "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
  [7] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [25] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [31] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [37] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [61] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [85] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [97] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[133] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[139] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[157] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[163] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[187] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[193] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[205] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[217] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[223] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[241] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[247] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[253] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[265] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[283] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[295] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[301] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[307] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[319] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[325] "subtype1" "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
  [7] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [25] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [31] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [37] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [61] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [85] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [97] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[133] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[139] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[157] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[163] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[187] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[193] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[205] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[217] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[223] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[241] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[247] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[253] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[265] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[277] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[283] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[295] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[301] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[307] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[319] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[325] "subtype1" "subtype1"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 96 49
  subtype2 95 19
  subtype3 64 25
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   96   49
  subtype2   95   19
  subtype3   64   25
        clus
vv       subtype1 subtype2 subtype3
  COLON        96       95       64
  RECTUM       49       19       25
D4V4, binary
          cls
clus        0  1
  subtype1 62 83
  subtype2 61 53
  subtype3 33 58
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   62   83
  subtype2   61   53
  subtype3   33   58
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       62       61       33
  MALE         83       53       58
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   90                             6
  subtype2                   82                            13
  subtype3                   53                            11
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    47                              2
  subtype2                    16                              3
  subtype3                    24                              1
D4V5, multiclass
D4V6, binary
          cls
clus         0   1
  subtype1   4 141
  subtype2   0 114
  subtype3   4  87
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  141
  subtype2    0  114
  subtype3    4   87
     clus
vv    subtype1 subtype2 subtype3
  NO         4        0        4
  YES      141      114       87
          vv
clus       M0 M1 M1A M1B MX
  subtype1 97 19   5   0 22
  subtype2 84 10   1   1 15
  subtype3 66  8   2   0 13
D4V7, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 73 24  11   7   2 16   1   6  3
  subtype2 71 18   2   4   0 17   1   1  0
  subtype3 48 18   3   5   1  4   3   9  0
D4V8, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 92  1  2  8
  subtype2 67  2  4 13
  subtype3 62  1  0  3
D4V9, multiclass
D4V10, continuous
D4V11, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      16        0        8        37         2         2         5
  subtype2      21        1        9        33         3         1         6
  subtype3      11        0        8        23         1         0         1
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1         10         24         10       10        13         0
  subtype2          2         12          8        8         5         1
  subtype3          7         13          9        6         6         0
D4V12, multiclass

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2        0   1
  subtype1  86   5
  subtype2 123  22
  subtype3  25   3
  subtype4  87  21
subtype1 subtype2 subtype3 subtype4 
      91      145       28      108 
subtype1 subtype2 subtype3 subtype4 
       5       22        3       21 
$subtype1
TCGA-A6-2671 TCGA-A6-2677 TCGA-A6-2680 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-2686 
       21.30        17.79        17.16        12.72        15.25        16.04 
TCGA-A6-3808 TCGA-A6-3809 TCGA-A6-3810 TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5659 
        9.14        10.29         8.09        15.19        12.07         9.40 
TCGA-A6-5660 TCGA-A6-5662 TCGA-A6-5667 TCGA-A6-6141 TCGA-A6-6142 TCGA-A6-6649 
       11.24         9.76        10.52         4.24         4.37         4.80 
TCGA-A6-6651 TCGA-A6-6782 TCGA-AA-3489 TCGA-AA-3710 TCGA-AA-3715 TCGA-AA-3818 
        8.15         5.39         1.02         1.02         0.99         0.99 
TCGA-AA-3837 TCGA-AA-3856 TCGA-AA-3947 TCGA-AA-3975 TCGA-AA-3986 TCGA-AA-A00J 
        1.02         0.99         0.99         0.99         0.99        18.02 
TCGA-AA-A00K TCGA-AU-6004 TCGA-AY-6196 TCGA-AY-6386 TCGA-AZ-4308 TCGA-AZ-4615 
       18.02         6.67         0.20         5.52        56.35        16.60 
TCGA-AZ-6607 TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-5797 TCGA-CA-6717 TCGA-CA-6719 
        3.19         0.16         0.07         0.26         0.33         1.35 
TCGA-CK-6748 TCGA-CM-4747 TCGA-CM-5341 TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 
        2.01         8.02         6.02         9.99        12.92        11.01 
TCGA-CM-5868 TCGA-CM-6162 TCGA-CM-6167 TCGA-CM-6677 TCGA-D5-5538 TCGA-D5-6534 
        9.99         6.97         4.01         5.00         6.71         7.92 
TCGA-D5-6922 TCGA-D5-6926 TCGA-DM-A1D0 TCGA-DM-A28A TCGA-F4-6704 TCGA-F4-6809 
        4.37         3.12       119.05        26.47         1.51         1.25 
TCGA-F4-6854 TCGA-G4-6299 TCGA-G4-6302 TCGA-G4-6310 TCGA-G4-6314 TCGA-G4-6625 
        0.53        68.28        43.04        39.58        33.90        87.85 
TCGA-AF-2690 TCGA-AF-3400 TCGA-AF-3913 TCGA-AF-6655 TCGA-AG-3581 TCGA-AG-3582 
       11.77        12.72        10.39         6.35         1.02         1.02 
TCGA-AG-3599 TCGA-AG-3731 TCGA-AG-3878 TCGA-AG-3893 TCGA-AG-4001 TCGA-AG-4007 
        0.99         1.02         0.99         0.99         1.02         1.02 
TCGA-AG-4008 TCGA-AG-A036 TCGA-DC-6156 TCGA-DC-6681 TCGA-DC-6683 TCGA-DT-5265 
        1.02        72.07         6.97         5.92         5.00         0.26 
TCGA-EI-6506 TCGA-F5-6571 TCGA-F5-6702 TCGA-F5-6812 TCGA-F5-6863 TCGA-G5-6235 
        7.63         0.85         2.17         0.66         0.76        47.70 
TCGA-G5-6572 
       47.08 

$subtype2
TCGA-A6-2672 TCGA-A6-2676 TCGA-A6-2678 TCGA-A6-2683 TCGA-A6-5664 TCGA-A6-5665 
       16.54        14.70        14.37        15.52        11.90         9.40 
TCGA-A6-5666 TCGA-A6-6137 TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6650 TCGA-A6-6652 
        8.02         6.41         5.95         4.08         5.65         4.41 
TCGA-A6-6654 TCGA-AA-3496 TCGA-AA-3510 TCGA-AA-3555 TCGA-AA-3697 TCGA-AA-3713 
        5.82         1.02         1.02         0.99         0.95         0.95 
TCGA-AA-3811 TCGA-AA-3844 TCGA-AA-3848 TCGA-AA-A00E TCGA-AA-A00F TCGA-AA-A00Q 
        0.99         0.92         0.99        30.02        34.03        27.02 
TCGA-AA-A00U TCGA-AA-A00W TCGA-AA-A010 TCGA-AA-A017 TCGA-AA-A01C TCGA-AA-A01F 
       17.00        14.99        20.98        15.02        15.02        13.02 
TCGA-AA-A01I TCGA-AA-A01R TCGA-AA-A01S TCGA-AA-A01V TCGA-AA-A01X TCGA-AA-A024 
       12.00        35.01         1.02        35.01        26.01        39.06 
TCGA-AA-A029 TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H TCGA-AA-A02J TCGA-AA-A02O 
       51.95         2.93        39.95         2.01         5.03         0.92 
TCGA-AA-A02Y TCGA-AA-A03J TCGA-AD-6889 TCGA-AD-6899 TCGA-AD-6965 TCGA-AY-5543 
       39.95        40.93        56.52         1.55         0.20         7.56 
TCGA-AY-6197 TCGA-AZ-4614 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-5407 TCGA-AZ-6599 
        3.68         5.65        22.36        56.05        45.86         6.74 
TCGA-AZ-6603 TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-5796 TCGA-CA-6715 TCGA-CA-6716 
       29.56        11.74         1.94         0.39         0.07         0.26 
TCGA-CK-5914 TCGA-CK-6747 TCGA-CM-4746 TCGA-CM-5864 TCGA-CM-6161 TCGA-CM-6165 
       21.99         2.93        22.98         2.01         6.97         6.97 
TCGA-CM-6166 TCGA-CM-6172 TCGA-CM-6675 TCGA-CM-6676 TCGA-CM-6679 TCGA-CM-6680 
       13.94         6.94         5.00         5.00         4.01         2.99 
TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6920 
        6.51         6.64         3.52         4.47         8.09         3.65 
TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6931 TCGA-DM-A0X9 TCGA-DM-A1D6 TCGA-DM-A1D9 
        1.38         2.89         1.41       112.73        49.91       129.11 
TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A282 TCGA-DM-A28C TCGA-DM-A28E 
        7.46        44.32       129.11       135.52        81.37       116.02 
TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28M TCGA-F4-6806 TCGA-G4-6294 TCGA-G4-6295 
       35.97        60.79        91.20         0.66        28.21         8.35 
TCGA-G4-6297 TCGA-G4-6303 TCGA-G4-6309 TCGA-G4-6315 TCGA-G4-6320 TCGA-G4-6322 
       75.22        61.87        45.57        30.81        22.29        17.95 
TCGA-AF-2689 TCGA-AF-5654 TCGA-AF-6136 TCGA-AF-6672 TCGA-AG-3583 TCGA-AG-3586 
       15.85         8.45         7.59         7.33         2.01         1.02 
TCGA-AG-3587 TCGA-AG-3605 TCGA-AG-3727 TCGA-AG-3742 TCGA-AG-3896 TCGA-AG-A008 
        1.02         0.99         0.95         0.99         1.02        13.91 
TCGA-AG-A00C TCGA-AG-A00Y TCGA-AG-A015 TCGA-AG-A016 TCGA-AG-A023 TCGA-AG-A02G 
        6.02        23.01        13.02         1.02        51.98        38.93 
TCGA-AH-6544 TCGA-AH-6549 TCGA-AH-6897 TCGA-DC-4745 TCGA-DC-5869 TCGA-DC-6155 
        0.49         0.20         4.60        10.98         5.03         7.36 
TCGA-DC-6157 TCGA-DY-A0XA TCGA-DY-A1DD TCGA-DY-A1DE TCGA-DY-A1DG TCGA-DY-A1H8 
       27.91       119.51        57.24       121.08        51.48        32.58 
TCGA-EF-5830 TCGA-EF-5831 TCGA-EI-6508 TCGA-EI-6510 TCGA-EI-6512 TCGA-EI-6514 
        0.49         2.40         2.17         0.46         0.66         7.10 
TCGA-EI-6882 TCGA-EI-6884 TCGA-EI-6885 TCGA-F5-6810 TCGA-F5-6811 TCGA-F5-6861 
        3.55         2.73         5.23         0.39         1.02         1.08 
TCGA-G5-6641 
       20.91 

$subtype3
TCGA-A6-2681 TCGA-AA-3502 TCGA-AA-3562 TCGA-AA-3854 TCGA-AA-A004 TCGA-AA-A00L 
       18.15         1.02         1.02         1.02        13.94        17.00 
TCGA-AA-A00Z TCGA-AA-A01D TCGA-AA-A01P TCGA-AA-A01T TCGA-AA-A02K TCGA-AA-A02W 
       21.99         0.99        38.07        33.04        13.97        40.96 
TCGA-AD-5900 TCGA-CM-5863 TCGA-CM-6164 TCGA-D5-6531 TCGA-D5-6898 TCGA-DM-A280 
        0.07         9.99        16.01         0.56         1.48         7.73 
TCGA-F4-6855 TCGA-G4-6323 TCGA-AG-3891 TCGA-AG-4022 TCGA-AG-A011 TCGA-AG-A014 
        1.38         6.61         0.99         0.99        17.03        15.91 
TCGA-AG-A01J TCGA-AG-A02N TCGA-AG-A02X TCGA-EI-6509 
        1.02        61.94        40.96         8.22 

$subtype4
TCGA-A6-3807 TCGA-A6-5661 TCGA-A6-6648 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 
       10.92        10.06         8.32         2.96         2.83         5.19 
TCGA-AA-3862 TCGA-AA-3950 TCGA-AA-A00A TCGA-AA-A00N TCGA-AA-A00R TCGA-AA-A01K 
        1.02         1.02        18.02         4.01         0.99        13.02 
TCGA-AA-A01Q TCGA-AA-A02R TCGA-AA-A03F TCGA-AD-6548 TCGA-AM-5820 TCGA-AM-5821 
        1.02        22.03        18.02         0.10         0.46         0.92 
TCGA-AZ-4315 TCGA-AZ-4323 TCGA-AZ-4616 TCGA-AZ-6598 TCGA-AZ-6600 TCGA-AZ-6601 
       43.86         1.41         5.13        49.41        12.10        99.98 
TCGA-AZ-6605 TCGA-CA-6718 TCGA-CK-5916 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4744 
        5.23         0.10        21.01       103.04         6.05         7.04 
TCGA-CM-4748 TCGA-CM-4750 TCGA-CM-4752 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5862 
        7.04         8.02         4.04         9.99        11.01         5.03 
TCGA-CM-6163 TCGA-CM-6168 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6674 
        2.96         5.95         7.99         7.96         5.95         4.90 
TCGA-CM-6678 TCGA-D5-5539 TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6533 TCGA-D5-6535 
        4.01         0.99         8.55         8.91         1.32         0.33 
TCGA-D5-6536 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6927 TCGA-D5-6928 
        9.44         4.73         6.12         3.55         2.20         0.66 
TCGA-D5-6930 TCGA-D5-6932 TCGA-DM-A0XF TCGA-DM-A1D4 TCGA-DM-A1D8 TCGA-DM-A1HB 
        1.48         0.62        38.20        92.75        12.59       124.08 
TCGA-DM-A288 TCGA-F4-6703 TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6808 TCGA-F4-6856 
       14.01         1.84         0.53         0.53         0.46         0.66 
TCGA-G4-6293 TCGA-G4-6298 TCGA-G4-6304 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6311 
      105.30        23.51        53.62        44.65        48.82        36.56 
TCGA-G4-6317 TCGA-G4-6321 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6626 TCGA-G4-6627 
       29.36        18.77        24.36        21.17        46.75        47.15 
TCGA-G4-6628 TCGA-AF-3914 TCGA-AG-A002 TCGA-AG-A00H TCGA-AG-A01N TCGA-AG-A01W 
       52.96         8.68        20.94        25.94        12.00        70.03 
TCGA-AG-A01Y TCGA-AG-A020 TCGA-AG-A026 TCGA-AH-6547 TCGA-AH-6643 TCGA-AH-6644 
       63.98        10.98         1.94         1.45         0.69         0.72 
TCGA-BM-6198 TCGA-CL-5918 TCGA-DC-4749 TCGA-DC-5337 TCGA-DC-6158 TCGA-DC-6160 
       10.19         7.99        11.01         9.99         6.97        19.99 
TCGA-DC-6682 TCGA-DY-A1DC TCGA-DY-A1DF TCGA-EI-6507 TCGA-EI-6511 TCGA-EI-6513 
        3.98        41.33        24.13         0.16         3.98         6.90 
TCGA-EI-6881 TCGA-EI-6917 TCGA-F5-6465 TCGA-F5-6813 TCGA-F5-6864 TCGA-G5-6233 
        6.15         7.79         3.39         0.69         0.46        18.25 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.07     0.07     0.10 
subtype1 subtype2 subtype3 subtype4 
  119.05   135.52    61.94   124.08 
subtype1 subtype2 subtype3 subtype4 
   6.020    7.360    9.105    7.875 
[1] "0.1 - 119.0 (6.0)" "0.1 - 135.5 (7.4)" "0.1 - 61.9 (9.1)" 
[4] "0.1 - 124.1 (7.9)"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype4"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype4" "subtype1" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype2" "subtype1" "subtype2" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
 [43] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype4" "subtype1" "subtype4"
 [61] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [79] "subtype3" "subtype2" "subtype2" "subtype4" "subtype3" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
[103] "subtype3" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[109] "subtype4" "subtype1" "subtype2" "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" "subtype1" "subtype2" "subtype2"
[139] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype1" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
[151] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype4" "subtype4" "subtype4" "subtype3" "subtype2"
[163] "subtype1" "subtype2" "subtype1" "subtype4" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
[175] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype4"
[181] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype2"
[187] "subtype4" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[193] "subtype4" "subtype4" "subtype2" "subtype2" "subtype4" "subtype4"
[199] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[205] "subtype1" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
[211] "subtype2" "subtype4" "subtype1" "subtype4" "subtype2" "subtype4"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype3"
[223] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype4" "subtype1" "subtype4" "subtype2"
[235] "subtype4" "subtype4" "subtype1" "subtype1" "subtype3" "subtype4"
[241] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype1"
[247] "subtype1" "subtype2" "subtype4" "subtype4" "subtype4" "subtype2"
[253] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[259] "subtype4" "subtype2" "subtype3" "subtype4" "subtype4" "subtype1"
[265] "subtype4" "subtype4" "subtype4" "subtype2" "subtype1" "subtype1"
[271] "subtype1" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[283] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[295] "subtype4" "subtype2" "subtype2" "subtype4" "subtype2" "subtype3"
[301] "subtype3" "subtype2" "subtype2" "subtype3" "subtype4" "subtype4"
[307] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype3"
[313] "subtype3" "subtype1" "subtype2" "subtype4" "subtype2" "subtype4"
[319] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype4"
[325] "subtype4" "subtype2" "subtype2" "subtype1" "subtype2" "subtype4"
[331] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype2"
[337] "subtype4" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype3"
[349] "subtype2" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
[355] "subtype2" "subtype2" "subtype2" "subtype4" "subtype4" "subtype1"
[361] "subtype1" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[367] "subtype1" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype4"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype4" "subtype1" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype2" "subtype1" "subtype2" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
 [43] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype4" "subtype1" "subtype4"
 [61] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [79] "subtype3" "subtype2" "subtype2" "subtype4" "subtype3" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
[103] "subtype3" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[109] "subtype4" "subtype1" "subtype2" "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" "subtype1" "subtype2" "subtype2"
[139] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype1" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
[151] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype4" "subtype4" "subtype4" "subtype3" "subtype2"
[163] "subtype1" "subtype2" "subtype1" "subtype4" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
[175] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype4"
[181] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype2"
[187] "subtype4" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[193] "subtype4" "subtype4" "subtype2" "subtype2" "subtype4" "subtype4"
[199] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[205] "subtype1" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
[211] "subtype2" "subtype4" "subtype1" "subtype4" "subtype2" "subtype4"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype3"
[223] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype4" "subtype1" "subtype4" "subtype2"
[235] "subtype4" "subtype4" "subtype1" "subtype1" "subtype3" "subtype4"
[241] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype1"
[247] "subtype1" "subtype2" "subtype4" "subtype4" "subtype4" "subtype2"
[253] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[259] "subtype4" "subtype2" "subtype3" "subtype4" "subtype4" "subtype1"
[265] "subtype4" "subtype4" "subtype4" "subtype2" "subtype1" "subtype1"
[271] "subtype1" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[283] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[295] "subtype4" "subtype2" "subtype2" "subtype4" "subtype2" "subtype3"
[301] "subtype3" "subtype2" "subtype2" "subtype3" "subtype4" "subtype4"
[307] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype3"
[313] "subtype3" "subtype1" "subtype2" "subtype4" "subtype2" "subtype4"
[319] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype4"
[325] "subtype4" "subtype2" "subtype2" "subtype1" "subtype2" "subtype4"
[331] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype2"
[337] "subtype4" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype3"
[349] "subtype2" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
[355] "subtype2" "subtype2" "subtype2" "subtype4" "subtype4" "subtype1"
[361] "subtype1" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[367] "subtype1" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype4"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype4" "subtype1" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype2" "subtype1" "subtype2" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
 [43] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype4" "subtype1" "subtype4"
 [61] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [79] "subtype3" "subtype2" "subtype2" "subtype4" "subtype3" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
[103] "subtype3" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[109] "subtype4" "subtype1" "subtype2" "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" "subtype1" "subtype2" "subtype2"
[139] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype1" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
[151] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[157] "subtype1" "subtype4" "subtype4" "subtype4" "subtype3" "subtype2"
[163] "subtype1" "subtype2" "subtype1" "subtype4" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
[175] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype4"
[181] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype2"
[187] "subtype4" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[193] "subtype4" "subtype4" "subtype2" "subtype2" "subtype4" "subtype4"
[199] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[205] "subtype1" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
[211] "subtype2" "subtype4" "subtype1" "subtype4" "subtype2" "subtype4"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype3"
[223] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype4" "subtype1" "subtype4" "subtype2"
[235] "subtype4" "subtype4" "subtype1" "subtype1" "subtype3" "subtype4"
[241] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype1"
[247] "subtype1" "subtype2" "subtype4" "subtype4" "subtype4" "subtype2"
[253] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[259] "subtype4" "subtype2" "subtype3" "subtype4" "subtype4" "subtype1"
[265] "subtype4" "subtype4" "subtype4" "subtype2" "subtype1" "subtype1"
[271] "subtype1" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[283] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[289] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[295] "subtype4" "subtype2" "subtype2" "subtype4" "subtype2" "subtype3"
[301] "subtype3" "subtype2" "subtype2" "subtype3" "subtype4" "subtype4"
[307] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype3"
[313] "subtype3" "subtype1" "subtype2" "subtype4" "subtype2" "subtype4"
[319] "subtype4" "subtype2" "subtype4" "subtype4" "subtype2" "subtype4"
[325] "subtype4" "subtype2" "subtype2" "subtype1" "subtype2" "subtype4"
[331] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype2"
[337] "subtype4" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype3"
[349] "subtype2" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
[355] "subtype2" "subtype2" "subtype2" "subtype4" "subtype4" "subtype1"
[361] "subtype1" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[367] "subtype1" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
D5V2, continuous
D5V3, binary
          cls
clus         0   1
  subtype1  83  35
  subtype2 133  53
  subtype3  26   9
  subtype4  89  33
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   83   35
  subtype2  133   53
  subtype3   26    9
  subtype4   89   33
        clus
vv       subtype1 subtype2 subtype3 subtype4
  COLON        83      133       26       89
  RECTUM       35       53        9       33
D5V4, binary
          cls
clus        0  1
  subtype1 55 63
  subtype2 90 96
  subtype3 17 18
  subtype4 53 69
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   55   63
  subtype2   90   96
  subtype3   17   18
  subtype4   53   69
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       55       90       17       53
  MALE         63       96       18       69
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   69                            14
  subtype2                  125                             8
  subtype3                   21                             5
  subtype4                   76                            13
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    29                              4
  subtype2                    48                              4
  subtype3                     8                              1
  subtype4                    32                              1
D5V5, multiclass
D5V6, binary
          cls
clus         0   1
  subtype1   3 115
  subtype2   3 183
  subtype3   0  35
  subtype4   2 120
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3  115
  subtype2    3  183
  subtype3    0   35
  subtype4    2  120
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         3        3        0        2
  YES      115      183       35      120
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  92  14   5   0   5
  subtype2 135  33   0   1  16
  subtype3  32   1   0   0   2
  subtype4  98   6   3   0  13
D5V7, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 58 21   8   6   0 15   3   5  0
  subtype2 98 42   7   3   1 27   3   4  1
  subtype3 26  3   0   1   0  4   0   1  0
  subtype4 78 20   1   3   1 15   1   2  1
D5V8, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1  89   1   6   7
  subtype2 119   0  19   6
  subtype3  33   0   1   0
  subtype4  95   1   2   5
D5V9, multiclass
D5V10, continuous
D5V11, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      12        0       11        30         3         0         3
  subtype2      27        0       12        46         4         1        12
  subtype3       9        1        2        14         0         0         2
  subtype4      22        0        7        42         2         1         8
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          4         21         11        9         8         0
  subtype2          7         27         11       27         7         1
  subtype3          0          2          4        1         0         0
  subtype4          5         11         12        5         4         0
D5V12, multiclass

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2        0   1
  subtype1  67   3
  subtype2 166  27
  subtype3  71  13
  subtype4  17   8
subtype1 subtype2 subtype3 subtype4 
      70      193       84       25 
subtype1 subtype2 subtype3 subtype4 
       3       27       13        8 
$subtype1
TCGA-A6-2671 TCGA-A6-2677 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-3808 TCGA-A6-5656 
       21.30        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         5.95         4.37         4.80         8.15 
TCGA-A6-6652 TCGA-A6-6782 TCGA-AA-3562 TCGA-AA-3818 TCGA-AA-3837 TCGA-AA-3950 
        4.41         5.39         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        56.35         3.19         0.26         0.33 
TCGA-CA-6719 TCGA-CM-4747 TCGA-CM-5868 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6677 
        1.35         8.02         9.99         4.01         5.95         5.00 
TCGA-D5-5538 TCGA-D5-6534 TCGA-D5-6922 TCGA-D5-6924 TCGA-D5-6926 TCGA-DM-A1D0 
        6.71         7.92         4.37         2.89         3.12       119.05 
TCGA-F4-6805 TCGA-F4-6809 TCGA-F4-6854 TCGA-F4-6856 TCGA-G4-6302 TCGA-G4-6310 
        0.53         1.25         0.53         0.66        43.04        39.58 
TCGA-G4-6314 TCGA-G4-6625 TCGA-AF-2690 TCGA-AF-3400 TCGA-AF-3914 TCGA-AF-6655 
       33.90        87.85        11.77        12.72         8.68         6.35 
TCGA-AG-3581 TCGA-AG-3893 TCGA-AG-A014 TCGA-AG-A036 TCGA-DC-6156 TCGA-DC-6681 
        1.02         0.99        15.91        72.07         6.97         5.92 
TCGA-DC-6683 TCGA-DT-5265 TCGA-EI-6514 TCGA-F5-6571 TCGA-F5-6702 TCGA-F5-6812 
        5.00         0.26         7.10         0.85         2.17         0.66 
TCGA-F5-6861 TCGA-F5-6863 TCGA-G5-6235 TCGA-G5-6572 
        1.08         0.76        47.70        47.08 

$subtype2
TCGA-A6-2672 TCGA-A6-2676 TCGA-A6-2678 TCGA-A6-2680 TCGA-A6-2681 TCGA-A6-2683 
       16.54        14.70        14.37        17.16        18.15        15.52 
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         9.76        11.90 
TCGA-A6-5665 TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6140 TCGA-A6-6141 
        9.40         8.02        10.52         6.41         4.08         4.24 
TCGA-A6-6650 TCGA-A6-6654 TCGA-AA-3489 TCGA-AA-3496 TCGA-AA-3502 TCGA-AA-3510 
        5.65         5.82         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         7.56         5.52        43.86         5.65        22.36 
TCGA-AZ-4684 TCGA-AZ-5407 TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6603 TCGA-AZ-6606 
       56.05        45.86         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         0.16         0.39         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       103.04        22.98         6.02         9.99 
TCGA-CM-5348 TCGA-CM-5860 TCGA-CM-5864 TCGA-CM-6161 TCGA-CM-6165 TCGA-CM-6166 
       12.92         9.99         2.01         6.97         6.97        13.94 
TCGA-CM-6172 TCGA-CM-6675 TCGA-CM-6676 TCGA-CM-6679 TCGA-CM-6680 TCGA-D5-5540 
        6.94         5.00         5.00         4.01         2.99         6.51 
TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6920 
        6.64         3.52         0.33         4.47         8.09         3.65 
TCGA-D5-6923 TCGA-D5-6931 TCGA-D5-6932 TCGA-DM-A0X9 TCGA-DM-A1D4 TCGA-DM-A1D6 
        1.38         1.41         0.62       112.73        92.75        49.91 
TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A282 TCGA-DM-A28A 
      129.11         7.46        44.32       129.11       135.52        26.47 
TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28M TCGA-F4-6806 
       81.37       116.02        35.97        60.79        91.20         0.66 
TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6299 TCGA-G4-6303 TCGA-G4-6309 
       28.21         8.35        75.22        68.28        61.87        45.57 
TCGA-G4-6315 TCGA-G4-6320 TCGA-G4-6322 TCGA-G4-6323 TCGA-AF-2689 TCGA-AF-3913 
       30.81        22.29        17.95         6.61        15.85        10.39 
TCGA-AF-5654 TCGA-AF-6136 TCGA-AF-6672 TCGA-AG-3582 TCGA-AG-3583 TCGA-AG-3586 
        8.45         7.59         7.33         1.02         2.01         1.02 
TCGA-AG-3587 TCGA-AG-3599 TCGA-AG-3605 TCGA-AG-3727 TCGA-AG-3731 TCGA-AG-3742 
        1.02         0.99         0.99         0.95         1.02         0.99 
TCGA-AG-3878 TCGA-AG-3896 TCGA-AG-4001 TCGA-AG-4007 TCGA-AG-4008 TCGA-AG-4022 
        0.99         1.02         1.02         1.02         1.02         0.99 
TCGA-AG-A008 TCGA-AG-A00C TCGA-AG-A00Y TCGA-AG-A011 TCGA-AG-A015 TCGA-AG-A016 
       13.91         6.02        23.01        17.03        13.02         1.02 
TCGA-AG-A01J TCGA-AG-A020 TCGA-AG-A023 TCGA-AG-A026 TCGA-AG-A02G TCGA-AG-A02N 
        1.02        10.98        51.98         1.94        38.93        61.94 
TCGA-AH-6544 TCGA-AH-6549 TCGA-AH-6897 TCGA-DC-4745 TCGA-DC-5337 TCGA-DC-5869 
        0.49         0.20         4.60        10.98         9.99         5.03 
TCGA-DC-6155 TCGA-DC-6157 TCGA-DY-A0XA TCGA-DY-A1DD TCGA-DY-A1DE TCGA-DY-A1DG 
        7.36        27.91       119.51        57.24       121.08        51.48 
TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EF-5831 TCGA-EI-6510 TCGA-EI-6512 TCGA-EI-6882 
       32.58         0.49         2.40         0.46         0.66         3.55 
TCGA-EI-6884 TCGA-EI-6885 TCGA-EI-6917 TCGA-F5-6810 TCGA-F5-6811 TCGA-F5-6813 
        2.73         5.23         7.79         0.39         1.02         0.69 
TCGA-G5-6641 
       20.91 

$subtype3
TCGA-A6-3807 TCGA-A6-5661 TCGA-A6-6648 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 
       10.92        10.06         8.32         2.96         2.83         5.19 
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         2.96        16.01         7.99         7.96 
TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6678 TCGA-D5-5539 TCGA-D5-6529 TCGA-D5-6530 
        5.95         4.90         4.01         0.99         8.55         8.91 
TCGA-D5-6533 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6898 TCGA-D5-6927 
        1.32         4.73         6.12         3.55         1.48         2.20 
TCGA-D5-6928 TCGA-D5-6930 TCGA-DM-A0XF TCGA-DM-A1HB TCGA-F4-6703 TCGA-F4-6807 
        0.66         1.48        38.20       124.08         1.84         0.53 
TCGA-F4-6808 TCGA-G4-6298 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6311 TCGA-G4-6317 
        0.46        23.51        44.65        48.82        36.56        29.36 
TCGA-G4-6321 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6626 TCGA-G4-6627 TCGA-G4-6628 
       18.77        24.36        21.17        46.75        47.15        52.96 
TCGA-AG-3891 TCGA-AG-A002 TCGA-AG-A00H TCGA-AG-A01N TCGA-AG-A01W TCGA-AG-A01Y 
        0.99        20.94        25.94        12.00        70.03        63.98 
TCGA-AG-A02X TCGA-AH-6547 TCGA-AH-6643 TCGA-AH-6644 TCGA-BM-6198 TCGA-CL-5918 
       40.96         1.45         0.69         0.72        10.19         7.99 
TCGA-DC-4749 TCGA-DC-6158 TCGA-DC-6160 TCGA-DC-6682 TCGA-DY-A1DC TCGA-EI-6506 
       11.01         6.97        19.99         3.98        41.33         7.63 
TCGA-EI-6507 TCGA-EI-6511 TCGA-EI-6513 TCGA-EI-6881 TCGA-F5-6465 TCGA-G5-6233 
        0.16         3.98         6.90         6.15         3.39        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         3.68        16.60        49.41 
TCGA-CA-5255 TCGA-CM-4748 TCGA-CM-5349 TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-6162 
        0.07         7.04        11.01        11.01         9.99         6.97 
TCGA-D5-6531 TCGA-D5-6536 TCGA-DM-A1D8 TCGA-DM-A280 TCGA-DM-A288 TCGA-F4-6704 
        0.56         9.44        12.59         7.73        14.01         1.51 
TCGA-F4-6855 TCGA-G4-6293 TCGA-G4-6304 TCGA-DY-A1DF TCGA-EI-6508 TCGA-EI-6509 
        1.38       105.30        53.62        24.13         2.17         8.22 
TCGA-F5-6864 
        0.46 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.07     0.10     0.07 
subtype1 subtype2 subtype3 subtype4 
  119.05   135.52   124.08   105.30 
subtype1 subtype2 subtype3 subtype4 
   5.935    7.790    6.935    9.440 
[1] "0.1 - 119.0 (5.9)" "0.1 - 135.5 (7.8)" "0.1 - 124.1 (6.9)"
[4] "0.1 - 105.3 (9.4)"
  [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" "subtype2" "subtype1" "subtype2" "subtype2"
[139] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[151] "subtype4" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype4" "subtype2" "subtype4" "subtype3" "subtype4" "subtype2"
[163] "subtype1" "subtype2" "subtype4" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[181] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[187] "subtype3" "subtype3" "subtype4" "subtype2" "subtype3" "subtype1"
[193] "subtype2" "subtype4" "subtype2" "subtype2" "subtype3" "subtype3"
[199] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[205] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype4"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
[223] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype3" "subtype4" "subtype1" "subtype2"
[235] "subtype3" "subtype3" "subtype1" "subtype1" "subtype4" "subtype1"
[241] "subtype4" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[247] "subtype1" "subtype2" "subtype4" "subtype3" "subtype3" "subtype2"
[253] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[265] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[271] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[277] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[289] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[295] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[301] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[307] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[313] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[319] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[325] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[331] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[337] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype3" "subtype3" "subtype4" "subtype4"
[349] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[355] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[361] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[367] "subtype1" "subtype4" "subtype3" "subtype1" "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" "subtype2" "subtype1" "subtype2" "subtype2"
[139] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[151] "subtype4" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype4" "subtype2" "subtype4" "subtype3" "subtype4" "subtype2"
[163] "subtype1" "subtype2" "subtype4" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[181] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[187] "subtype3" "subtype3" "subtype4" "subtype2" "subtype3" "subtype1"
[193] "subtype2" "subtype4" "subtype2" "subtype2" "subtype3" "subtype3"
[199] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[205] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype4"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
[223] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype3" "subtype4" "subtype1" "subtype2"
[235] "subtype3" "subtype3" "subtype1" "subtype1" "subtype4" "subtype1"
[241] "subtype4" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[247] "subtype1" "subtype2" "subtype4" "subtype3" "subtype3" "subtype2"
[253] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[265] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[271] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[277] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[289] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[295] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[301] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[307] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[313] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[319] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[325] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[331] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[337] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype3" "subtype3" "subtype4" "subtype4"
[349] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[355] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[361] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[367] "subtype1" "subtype4" "subtype3" "subtype1" "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" "subtype2" "subtype1" "subtype2" "subtype2"
[139] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[151] "subtype4" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype4" "subtype2" "subtype4" "subtype3" "subtype4" "subtype2"
[163] "subtype1" "subtype2" "subtype4" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[181] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[187] "subtype3" "subtype3" "subtype4" "subtype2" "subtype3" "subtype1"
[193] "subtype2" "subtype4" "subtype2" "subtype2" "subtype3" "subtype3"
[199] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[205] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype4"
[217] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
[223] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype3" "subtype4" "subtype1" "subtype2"
[235] "subtype3" "subtype3" "subtype1" "subtype1" "subtype4" "subtype1"
[241] "subtype4" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[247] "subtype1" "subtype2" "subtype4" "subtype3" "subtype3" "subtype2"
[253] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[265] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[271] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[277] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[289] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[295] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[301] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[307] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[313] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[319] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[325] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[331] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[337] "subtype3" "subtype2" "subtype2" "subtype4" "subtype2" "subtype2"
[343] "subtype2" "subtype2" "subtype3" "subtype3" "subtype4" "subtype4"
[349] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[355] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[361] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[367] "subtype1" "subtype4" "subtype3" "subtype1" "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
D6V4, 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                   46                            11
  subtype2                  162                            15
  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
D6V5, multiclass
D6V6, 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        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
          vv
clus        N0  N1 N1A N1B N1C  N2 N2A N2B  NX
  subtype1  40  13   2   5   0   9   4   4   0
  subtype2 133  57  11   4   1  36   3   4   1
  subtype3  66  12   1   2   1   9   0   2   1
  subtype4  21   4   2   2   0   7   0   2   0
D6V8, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1  62   1   1   3
  subtype2 169   1  23  10
  subtype3  77   0   1   3
  subtype4  28   0   3   2
D6V9, multiclass
D6V10, continuous
D6V11, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      12        0        2        22         1         0         1
  subtype2      34        1       22        62         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          7        3         9         0
  subtype2          8         33         17       33         7         1
  subtype3          4          8          7        4         3         0
  subtype4          0          6          7        2         0         0
D6V12, multiclass

Clustering(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 31  2
  subtype2 66 12
  subtype3 49  3
  subtype4 52 10
subtype1 subtype2 subtype3 subtype4 
      33       78       52       62 
subtype1 subtype2 subtype3 subtype4 
       2       12        3       10 
$subtype1
TCGA-A6-2675 TCGA-A6-4105 TCGA-A6-6141 TCGA-AA-3495 TCGA-AA-3697 TCGA-AA-3713 
       16.93        14.50         4.24         1.02         0.95         0.95 
TCGA-AD-6548 TCGA-AY-5543 TCGA-AZ-4684 TCGA-AZ-6605 TCGA-CA-5796 TCGA-CK-4947 
        0.10         7.56        56.05         5.23         0.39        17.52 
TCGA-CK-6747 TCGA-CM-4751 TCGA-CM-6163 TCGA-CM-6172 TCGA-D5-5539 TCGA-D5-6539 
        2.93        19.96         2.96         6.94         0.99         4.73 
TCGA-F4-6806 TCGA-G4-6293 TCGA-G4-6295 TCGA-G4-6311 TCGA-G4-6315 TCGA-G4-6321 
        0.66       105.30         8.35        36.56        30.81        18.77 
TCGA-G4-6625 TCGA-AF-2693 TCGA-AF-4110 TCGA-AF-6136 TCGA-AG-4022 TCGA-CI-6624 
       87.85        19.10        14.50         7.59         0.99         4.70 
TCGA-DC-6160 TCGA-EI-6884 TCGA-G5-6235 
       19.99         2.73        47.70 

$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         9.76         8.02 
TCGA-A6-5667 TCGA-A6-6140 TCGA-A6-6142 TCGA-A6-6650 TCGA-A6-6652 TCGA-AA-3496 
       10.52         4.08         4.37         5.65         4.41         1.02 
TCGA-AA-3660 TCGA-AA-A01X TCGA-AD-6888 TCGA-AD-6890 TCGA-AD-6965 TCGA-AU-3779 
        1.02        26.01         4.21         0.79         0.20        14.47 
TCGA-AZ-5403 TCGA-AZ-6603 TCGA-AZ-6608 TCGA-CA-5797 TCGA-CA-6715 TCGA-CA-6716 
       62.79        29.56         1.94         0.26         0.07         0.26 
TCGA-CK-5912 TCGA-CK-5914 TCGA-CM-4747 TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-5868 
       48.03        21.99         8.02         5.03         2.01         9.99 
TCGA-CM-6161 TCGA-CM-6166 TCGA-CM-6170 TCGA-CM-6676 TCGA-CM-6678 TCGA-D5-5537 
        6.97        13.94         7.96         5.00         4.01        14.99 
TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6533 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6924 
        6.51         6.64         1.32         4.47         8.09         2.89 
TCGA-D5-6929 TCGA-DM-A0X9 TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D9 
        4.77       112.73        38.20       119.05        92.75       129.11 
TCGA-DM-A1DB TCGA-F4-6808 TCGA-G4-6298 TCGA-G4-6306 TCGA-G4-6317 TCGA-G4-6626 
       44.32         0.46        23.51        44.65        29.36        46.75 
TCGA-AF-3911 TCGA-AF-5654 TCGA-AG-3742 TCGA-AH-6549 TCGA-AH-6897 TCGA-CI-6623 
       17.62         8.45         0.99         0.20         4.60         9.37 
TCGA-CL-5917 TCGA-CL-5918 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6154 TCGA-DC-6157 
       60.00         7.99         9.99         5.03         8.98        27.91 
TCGA-DC-6682 TCGA-DC-6683 TCGA-DY-A0XA TCGA-DY-A1DF TCGA-DY-A1H8 TCGA-EF-5830 
        3.98         5.00       119.51        24.13        32.58         0.49 
TCGA-EI-6883 TCGA-EI-6885 TCGA-EI-7002 TCGA-F5-6811 TCGA-F5-6861 TCGA-F5-6863 
        3.98         5.23         2.76         1.02         1.08         0.76 

$subtype3
TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-5664 TCGA-A6-6138 TCGA-A6-6651 TCGA-A6-6654 
       12.72        15.25        11.90         5.95         8.15         5.82 
TCGA-A6-6782 TCGA-AA-3489 TCGA-AA-A01P TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6964 
        5.39         1.02        38.07         1.55         1.02         0.99 
TCGA-AM-5820 TCGA-AY-6196 TCGA-AZ-4323 TCGA-AZ-6607 TCGA-CA-6717 TCGA-CA-6719 
        0.46         0.20         1.41         3.19         0.33         1.35 
TCGA-CK-6748 TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-6162 TCGA-CM-6167 
        2.01         9.99        12.92        11.01         6.97         4.01 
TCGA-CM-6168 TCGA-CM-6677 TCGA-CM-6679 TCGA-D5-6534 TCGA-D5-6926 TCGA-D5-6928 
        5.95         5.00         4.01         7.92         3.12         0.66 
TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6855 
        1.84         1.51         0.53         0.53         1.25         1.38 
TCGA-G4-6297 TCGA-G4-6302 TCGA-G4-6314 TCGA-AF-2687 TCGA-AF-2690 TCGA-AH-6644 
       75.22        43.04        33.90        19.53        11.77         0.72 
TCGA-DC-6156 TCGA-DC-6158 TCGA-DY-A1DE TCGA-EI-7004 TCGA-F5-6571 TCGA-F5-6702 
        6.97         6.97       121.08         2.04         0.85         2.17 
TCGA-F5-6810 TCGA-F5-6812 TCGA-F5-6813 TCGA-F5-6864 
        0.39         0.66         0.69         0.46 

$subtype4
TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 TCGA-AA-3502 
       10.06         9.40         2.96         2.83         5.19         1.02 
TCGA-AA-3663 TCGA-AA-A01Z TCGA-AD-5900 TCGA-AD-6889 TCGA-AD-6895 TCGA-AM-5821 
        1.02        20.98         0.07        56.52         0.72         0.92 
TCGA-AU-6004 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4614 
        6.67         3.68         5.52        31.46        43.86         5.65 
TCGA-AZ-4615 TCGA-AZ-4616 TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6606 
       16.60         5.13        45.86        49.41         6.74        11.74 
TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-6718 TCGA-CK-4951 TCGA-CK-4952 TCGA-CK-5913 
        0.16         0.07         0.10        49.02        15.58        28.04 
TCGA-CK-5916 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5863 
       21.01       103.04         6.05         9.99        11.01         9.99 
TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6675 TCGA-D5-5538 TCGA-D5-6530 TCGA-D5-6531 
        5.95         4.90         5.00         6.71         8.91         0.56 
TCGA-D5-6535 TCGA-D5-6536 TCGA-D5-6540 TCGA-D5-6927 TCGA-D5-6930 TCGA-DM-A0XD 
        0.33         9.44         6.12         2.20         1.48        24.43 
TCGA-DM-A1D6 TCGA-DM-A1D8 TCGA-DM-A1DA TCGA-F4-6856 TCGA-G4-6304 TCGA-G4-6309 
       49.91        12.59         7.46         0.66        53.62        45.57 
TCGA-G4-6320 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6628 TCGA-AH-6643 TCGA-DT-5265 
       22.29        24.36        21.17        52.96         0.69         0.26 
TCGA-EI-6917 TCGA-F5-6814 
        7.79         0.53 

subtype1 subtype2 subtype3 subtype4 
    0.10     0.07     0.20     0.07 
subtype1 subtype2 subtype3 subtype4 
  105.30   129.11   121.08   103.04 
subtype1 subtype2 subtype3 subtype4 
   7.560    7.975    3.155    7.100 
[1] "0.1 - 105.3 (7.6)" "0.1 - 129.1 (8.0)" "0.2 - 121.1 (3.2)"
[4] "0.1 - 103.0 (7.1)"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
 [13] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [25] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype4"
 [31] "subtype2" "subtype4" "subtype1" "subtype1" "subtype3" "subtype2"
 [37] "subtype4" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
 [43] "subtype4" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [49] "subtype4" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
 [55] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
 [61] "subtype4" "subtype1" "subtype2" "subtype4" "subtype4" "subtype4"
 [67] "subtype2" "subtype1" "subtype4" "subtype3" "subtype2" "subtype4"
 [73] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype4" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
 [85] "subtype4" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
 [91] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype2" "subtype4" "subtype1"
[121] "subtype2" "subtype2" "subtype4" "subtype4" "subtype2" "subtype3"
[127] "subtype4" "subtype4" "subtype2" "subtype2" "subtype1" "subtype4"
[133] "subtype2" "subtype3" "subtype4" "subtype3" "subtype2" "subtype4"
[139] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[145] "subtype4" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[151] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype4" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "subtype4" "subtype2" "subtype4" "subtype1" "subtype3" "subtype1"
[169] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype1"
[175] "subtype2" "subtype4" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[187] "subtype4" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[199] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[205] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[211] "subtype2" "subtype4" "subtype2" "subtype3" "subtype3" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype2"
[223] "subtype2" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
 [13] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [25] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype4"
 [31] "subtype2" "subtype4" "subtype1" "subtype1" "subtype3" "subtype2"
 [37] "subtype4" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
 [43] "subtype4" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [49] "subtype4" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
 [55] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
 [61] "subtype4" "subtype1" "subtype2" "subtype4" "subtype4" "subtype4"
 [67] "subtype2" "subtype1" "subtype4" "subtype3" "subtype2" "subtype4"
 [73] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype4" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
 [85] "subtype4" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
 [91] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype2" "subtype4" "subtype1"
[121] "subtype2" "subtype2" "subtype4" "subtype4" "subtype2" "subtype3"
[127] "subtype4" "subtype4" "subtype2" "subtype2" "subtype1" "subtype4"
[133] "subtype2" "subtype3" "subtype4" "subtype3" "subtype2" "subtype4"
[139] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[145] "subtype4" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[151] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype4" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "subtype4" "subtype2" "subtype4" "subtype1" "subtype3" "subtype1"
[169] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype1"
[175] "subtype2" "subtype4" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[187] "subtype4" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[199] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[205] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[211] "subtype2" "subtype4" "subtype2" "subtype3" "subtype3" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype2"
[223] "subtype2" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
 [13] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [25] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype4"
 [31] "subtype2" "subtype4" "subtype1" "subtype1" "subtype3" "subtype2"
 [37] "subtype4" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
 [43] "subtype4" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [49] "subtype4" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
 [55] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
 [61] "subtype4" "subtype1" "subtype2" "subtype4" "subtype4" "subtype4"
 [67] "subtype2" "subtype1" "subtype4" "subtype3" "subtype2" "subtype4"
 [73] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype4" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
 [85] "subtype4" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
 [91] "subtype4" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype2" "subtype4" "subtype1"
[121] "subtype2" "subtype2" "subtype4" "subtype4" "subtype2" "subtype3"
[127] "subtype4" "subtype4" "subtype2" "subtype2" "subtype1" "subtype4"
[133] "subtype2" "subtype3" "subtype4" "subtype3" "subtype2" "subtype4"
[139] "subtype2" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
[145] "subtype4" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[151] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype4" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "subtype4" "subtype2" "subtype4" "subtype1" "subtype3" "subtype1"
[169] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype1"
[175] "subtype2" "subtype4" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[187] "subtype4" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[199] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[205] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[211] "subtype2" "subtype4" "subtype2" "subtype3" "subtype3" "subtype3"
[217] "subtype3" "subtype2" "subtype3" "subtype3" "subtype4" "subtype2"
[223] "subtype2" "subtype3" "subtype1"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 28  8
  subtype2 59 24
  subtype3 43 13
  subtype4 62  4
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   28    8
  subtype2   59   24
  subtype3   43   13
  subtype4   62    4
        clus
vv       subtype1 subtype2 subtype3 subtype4
  COLON        28       59       43       62
  RECTUM        8       24       13        4
D7V4, binary
          cls
clus        0  1
  subtype1 18 20
  subtype2 39 44
  subtype3 28 28
  subtype4 30 36
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   18   20
  subtype2   39   44
  subtype3   28   28
  subtype4   30   36
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       18       39       28       30
  MALE         20       44       28       36
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   26                             2
  subtype2                   58                             1
  subtype3                   33                            10
  subtype4                   51                            11
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                     8                              0
  subtype2                    24                              0
  subtype3                    12                              1
  subtype4                     3                              1
D7V5, multiclass
D7V6, binary
          cls
clus        0  1
  subtype1  2 36
  subtype2  1 82
  subtype3  2 54
  subtype4  0 66
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   36
  subtype2    1   82
  subtype3    2   54
  subtype4    0   66
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         2        1        2        0
  YES       36       82       54       66
          vv
clus       M0 M1 M1A M1B MX
  subtype1 25  5   0   0  8
  subtype2 55  7   5   0 16
  subtype3 38  8   1   0  7
  subtype4 49  3   0   1 11
D7V7, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 22  9   2   2   0  2   0   1  0
  subtype2 48 11   7   3   1  8   0   3  2
  subtype3 25  6   2   2   0 10   2   8  1
  subtype4 48  7   2   3   0  4   0   2  0
D7V8, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 24  1  2  2
  subtype2 46  0  0  9
  subtype3 41  0  0  3
  subtype4 40  1  0 11
D7V9, multiclass
D7V10, continuous
D7V11, continuous
          vv
clus       STAGE I STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA
  subtype1       9        3         7         0         0         4          3
  subtype2      16        5        19         1         2         2          4
  subtype3       4        2        16         1         0         1          1
  subtype4      14        9        23         2         0         2          1
          vv
clus       STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          5          0        3         4         0
  subtype2         12          6        4         8         0
  subtype3          6         10        5         5         0
  subtype4          6          3        2         1         1
D7V12, multiclass

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 81  7
  subtype2 53  9
  subtype3 64 11
subtype1 subtype2 subtype3 
      88       62       75 
subtype1 subtype2 subtype3 
       7        9       11 
$subtype1
TCGA-A6-2675 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5667 
       16.93        12.72        15.25         9.76        11.90        10.52 
TCGA-A6-6138 TCGA-A6-6142 TCGA-A6-6651 TCGA-A6-6654 TCGA-A6-6781 TCGA-A6-6782 
        5.95         4.37         8.15         5.82         5.19         5.39 
TCGA-AA-3489 TCGA-AA-3496 TCGA-AA-A01P TCGA-AD-5900 TCGA-AD-6895 TCGA-AD-6899 
        1.02         1.02        38.07         0.07         0.72         1.55 
TCGA-AD-6901 TCGA-AD-6964 TCGA-AM-5820 TCGA-AM-5821 TCGA-AY-6196 TCGA-AZ-4323 
        1.02         0.99         0.46         0.92         0.20         1.41 
TCGA-AZ-4615 TCGA-AZ-5403 TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-5797 
       16.60        62.79        29.56         5.23         3.19         0.26 
TCGA-CA-6717 TCGA-CA-6718 TCGA-CA-6719 TCGA-CK-5916 TCGA-CK-6748 TCGA-CM-4747 
        0.33         0.10         1.35        21.01         2.01         8.02 
TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5868 TCGA-CM-6162 TCGA-CM-6163 
        9.99        12.92        11.01         9.99         6.97         2.96 
TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6170 TCGA-CM-6172 TCGA-CM-6679 TCGA-D5-5538 
        4.01         5.95         7.96         6.94         4.01         6.71 
TCGA-D5-5541 TCGA-D5-6534 TCGA-D5-6924 TCGA-D5-6926 TCGA-D5-6927 TCGA-D5-6928 
        6.64         7.92         2.89         3.12         2.20         0.66 
TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6855 
        1.84         1.51         0.53         0.53         1.25         1.38 
TCGA-G4-6297 TCGA-G4-6302 TCGA-G4-6311 TCGA-G4-6314 TCGA-G4-6625 TCGA-G4-6628 
       75.22        43.04        36.56        33.90        87.85        52.96 
TCGA-AF-2687 TCGA-AF-2690 TCGA-AF-3911 TCGA-AF-4110 TCGA-AG-4022 TCGA-AH-6644 
       19.53        11.77        17.62        14.50         0.99         0.72 
TCGA-CI-6624 TCGA-DC-6156 TCGA-DC-6158 TCGA-DC-6683 TCGA-DT-5265 TCGA-DY-A1DE 
        4.70         6.97         6.97         5.00         0.26       121.08 
TCGA-EI-6917 TCGA-EI-7002 TCGA-EI-7004 TCGA-F5-6571 TCGA-F5-6702 TCGA-F5-6810 
        7.79         2.76         2.04         0.85         2.17         0.39 
TCGA-F5-6812 TCGA-F5-6813 TCGA-F5-6863 TCGA-F5-6864 
        0.66         0.69         0.76         0.46 

$subtype2
TCGA-A6-2682 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6141 TCGA-A6-6653 TCGA-A6-6780 
       13.94        10.06         9.40         4.24         2.96         2.83 
TCGA-AA-3502 TCGA-AA-3663 TCGA-AA-3713 TCGA-AA-A01Z TCGA-AD-6548 TCGA-AD-6889 
        1.02         1.02         0.95        20.98         0.10        56.52 
TCGA-AD-6890 TCGA-AU-6004 TCGA-AY-5543 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4313 
        0.79         6.67         7.56         3.68         5.52        31.46 
TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4616 TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6599 
       43.86         5.65         5.13        45.86        49.41         6.74 
TCGA-AZ-6606 TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-5796 TCGA-CK-4947 TCGA-CK-4951 
       11.74         0.16         0.07         0.39        17.52        49.02 
TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-6747 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 
       15.58        28.04         2.93       103.04         6.05        19.96 
TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6675 TCGA-CM-6677 
       11.01         9.99         5.95         4.90         5.00         5.00 
TCGA-D5-5539 TCGA-D5-6530 TCGA-D5-6535 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6930 
        0.99         8.91         0.33         4.73         6.12         1.48 
TCGA-DM-A0XD TCGA-DM-A1D6 TCGA-DM-A1DA TCGA-F4-6806 TCGA-F4-6856 TCGA-G4-6304 
       24.43        49.91         7.46         0.66         0.66        53.62 
TCGA-G4-6309 TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6586 TCGA-G4-6588 TCGA-AF-2693 
       45.57        22.29        18.77        24.36        21.17        19.10 
TCGA-AF-6136 TCGA-EI-6884 
        7.59         2.73 

$subtype3
TCGA-A6-4105 TCGA-A6-5656 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5666 TCGA-A6-6140 
       14.50        15.19         9.40        11.24         8.02         4.08 
TCGA-A6-6650 TCGA-A6-6652 TCGA-AA-3495 TCGA-AA-3660 TCGA-AA-3697 TCGA-AA-A01X 
        5.65         4.41         1.02         1.02         0.95        26.01 
TCGA-AD-6888 TCGA-AD-6965 TCGA-AU-3779 TCGA-AZ-4684 TCGA-AZ-6608 TCGA-CA-6715 
        4.21         0.20        14.47        56.05         1.94         0.07 
TCGA-CA-6716 TCGA-CK-5912 TCGA-CK-5914 TCGA-CM-5860 TCGA-CM-5862 TCGA-CM-5864 
        0.26        48.03        21.99         9.99         5.03         2.01 
TCGA-CM-6161 TCGA-CM-6166 TCGA-CM-6676 TCGA-CM-6678 TCGA-D5-5537 TCGA-D5-5540 
        6.97        13.94         5.00         4.01        14.99         6.51 
TCGA-D5-6531 TCGA-D5-6533 TCGA-D5-6536 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6929 
        0.56         1.32         9.44         4.47         8.09         4.77 
TCGA-DM-A0X9 TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D8 TCGA-DM-A1D9 
      112.73        38.20       119.05        92.75        12.59       129.11 
TCGA-DM-A1DB TCGA-F4-6808 TCGA-G4-6293 TCGA-G4-6295 TCGA-G4-6298 TCGA-G4-6306 
       44.32         0.46       105.30         8.35        23.51        44.65 
TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6626 TCGA-AF-5654 TCGA-AG-3742 TCGA-AH-6549 
       30.81        29.36        46.75         8.45         0.99         0.20 
TCGA-AH-6643 TCGA-AH-6897 TCGA-CI-6623 TCGA-CL-5917 TCGA-CL-5918 TCGA-DC-5337 
        0.69         4.60         9.37        60.00         7.99         9.99 
TCGA-DC-5869 TCGA-DC-6154 TCGA-DC-6157 TCGA-DC-6160 TCGA-DC-6682 TCGA-DY-A0XA 
        5.03         8.98        27.91        19.99         3.98       119.51 
TCGA-DY-A1DF TCGA-DY-A1H8 TCGA-EF-5830 TCGA-EI-6883 TCGA-EI-6885 TCGA-F5-6811 
       24.13        32.58         0.49         3.98         5.23         1.02 
TCGA-F5-6814 TCGA-F5-6861 TCGA-G5-6235 
        0.53         1.08        47.70 

subtype1 subtype2 subtype3 
    0.07     0.07     0.07 
subtype1 subtype2 subtype3 
  121.08   103.04   129.11 
subtype1 subtype2 subtype3 
    4.85     7.10     8.35 
[1] "0.1 - 121.1 (4.8)" "0.1 - 103.0 (7.1)" "0.1 - 129.1 (8.3)"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [19] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [31] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [91] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[109] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[115] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[121] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[127] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[139] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[145] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[157] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[163] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[181] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[187] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[211] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[223] "subtype1" "subtype1" "subtype3"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [19] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [31] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [91] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[109] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[115] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[121] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[127] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[139] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[145] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[157] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[163] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[181] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[187] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[211] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[223] "subtype1" "subtype1" "subtype3"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
  [7] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [19] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [31] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [91] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[109] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[115] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[121] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[127] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[139] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[145] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[157] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[163] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[181] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[187] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[211] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[223] "subtype1" "subtype1" "subtype3"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 73 21
  subtype2 62  4
  subtype3 57 24
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   73   21
  subtype2   62    4
  subtype3   57   24
        clus
vv       subtype1 subtype2 subtype3
  COLON        73       62       57
  RECTUM       21        4       24
D8V4, binary
          cls
clus        0  1
  subtype1 43 52
  subtype2 37 30
  subtype3 35 46
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   43   52
  subtype2   37   30
  subtype3   35   46
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       43       37       35
  MALE         52       30       46
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   61                            12
  subtype2                   51                            11
  subtype3                   56                             1
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    19                              2
  subtype2                     4                              0
  subtype3                    24                              0
D8V5, multiclass
D8V6, binary
          cls
clus        0  1
  subtype1  3 92
  subtype2  1 66
  subtype3  1 80
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   92
  subtype2    1   66
  subtype3    1   80
     clus
vv    subtype1 subtype2 subtype3
  NO         3        1        1
  YES       92       66       80
          vv
clus       M0 M1 M1A M1B MX
  subtype1 62 10   4   0 17
  subtype2 46  6   0   1 13
  subtype3 59  7   2   0 12
D8V7, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 43 13   8   6   0 13   2   9  1
  subtype2 48  9   2   3   0  4   0   1  0
  subtype3 52 11   3   1   1  7   0   4  2
D8V8, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 67  0  0  7
  subtype2 39  1  1  9
  subtype3 45  1  1  9
D8V9, multiclass
D8V10, continuous
D8V11, continuous
          vv
clus       STAGE I STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA
  subtype1      10        8        22         1         0         2          2
  subtype2      15        7        21         2         0         3          3
  subtype3      18        4        22         1         2         4          4
          vv
clus       STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1         15         12        6        10         0
  subtype2          6          1        4         3         1
  subtype3          8          6        4         5         0
D8V12, multiclass

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2        0   1
  subtype1 120  18
  subtype2 175  32
  subtype3  68   9
subtype1 subtype2 subtype3 
     138      207       77 
subtype1 subtype2 subtype3 
      18       32        9 
$subtype1
TCGA-A6-2670 TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-2677 TCGA-A6-2678 
       13.91        16.54        17.19        14.70        17.79        14.37 
TCGA-A6-2679 TCGA-A6-2680 TCGA-A6-2682 TCGA-A6-2683 TCGA-A6-2686 TCGA-A6-3807 
       19.56        17.16        13.94        15.52        16.04        10.92 
TCGA-A6-3809 TCGA-A6-3810 TCGA-A6-4107 TCGA-A6-5661 TCGA-AA-3488 TCGA-AA-3494 
       10.29         8.09         7.59        10.06         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-A02E TCGA-AA-A02F TCGA-AA-A02H TCGA-AA-A02J 
       39.06        51.95         2.93        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-4070 TCGA-AY-4071 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4615 
       16.31         0.95        31.46        43.86         5.65        16.60 
TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-CK-4951 TCGA-CM-4744 TCGA-CM-4746 
       71.67        22.36        56.05        49.02         7.04        22.98 
TCGA-CM-4750 TCGA-CM-4752 TCGA-CM-5341 TCGA-D5-6931 TCGA-G4-6588 TCGA-AF-2689 
        8.02         4.04         6.02         1.41        21.17        15.85 
TCGA-AF-2691 TCGA-AF-2692 TCGA-AF-3400 TCGA-AF-3913 TCGA-AG-3575 TCGA-AG-3581 
       10.62        13.55        12.72        10.39        12.00         1.02 
TCGA-AG-3582 TCGA-AG-3583 TCGA-AG-3586 TCGA-AG-3587 TCGA-AG-3599 TCGA-AG-3605 
        1.02         2.01         1.02         1.02         0.99         0.99 
TCGA-AG-3726 TCGA-AG-3727 TCGA-AG-3878 TCGA-AG-3883 TCGA-AG-3887 TCGA-AG-3892 
        7.96         0.95         0.99         1.02         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-A002 TCGA-AG-A008 TCGA-AG-A00C TCGA-AG-A011 TCGA-AG-A016 
        1.02        20.94        13.91         6.02        17.03         1.02 
TCGA-AG-A01L TCGA-AG-A01N TCGA-AG-A01W TCGA-AG-A01Y TCGA-AG-A020 TCGA-AG-A025 
       12.00        12.00        70.03        63.98        10.98        49.94 
TCGA-AG-A026 TCGA-AG-A02G TCGA-AG-A02N TCGA-AG-A02X TCGA-AG-A036 TCGA-EI-6507 
        1.94        38.93        61.94        40.96        72.07         0.16 

$subtype2
TCGA-A6-2675 TCGA-A6-4105 TCGA-A6-5656 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5666 
       16.93        14.50        15.19         9.40        11.24         8.02 
TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6142 TCGA-A6-6648 
       10.52         6.41         5.95         4.08         4.37         8.32 
TCGA-A6-6650 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6782 TCGA-AA-3496 TCGA-AA-3660 
        5.65         2.96         2.83         5.39         1.02         1.02 
TCGA-AA-3663 TCGA-AA-3697 TCGA-AA-3713 TCGA-AD-6548 TCGA-AD-6888 TCGA-AD-6889 
        1.02         0.95         0.95         0.10         4.21        56.52 
TCGA-AD-6890 TCGA-AD-6963 TCGA-AD-6965 TCGA-AM-5821 TCGA-AU-3779 TCGA-AU-6004 
        0.79         0.10         0.20         0.92        14.47         6.67 
TCGA-AY-5543 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4616 TCGA-AZ-5407 TCGA-AZ-6598 
        7.56         3.68         5.52         5.13        45.86        49.41 
TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-5254 TCGA-CA-5255 
        6.74        12.10        11.74         1.94         0.16         0.07 
TCGA-CA-5796 TCGA-CA-5797 TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6719 TCGA-CK-4947 
        0.39         0.26         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-5916 TCGA-CK-6747 TCGA-CK-6748 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 
       21.01         2.93         2.01       103.04         6.05        19.96 
TCGA-CM-5344 TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5862 TCGA-CM-5863 
        9.99        11.01         9.99        11.01         5.03         9.99 
TCGA-CM-5864 TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 
        2.01         9.99         6.97         2.96        16.01         6.97 
TCGA-CM-6166 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6172 TCGA-CM-6675 
       13.94         7.99         7.96         5.95         6.94         5.00 
TCGA-CM-6676 TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6680 TCGA-D5-5537 TCGA-D5-5538 
        5.00         5.00         4.01         2.99        14.99         6.71 
TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6531 TCGA-D5-6532 
        6.51         6.64         8.55         8.91         0.56         3.52 
TCGA-D5-6533 TCGA-D5-6535 TCGA-D5-6536 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6539 
        1.32         0.33         9.44         4.47         8.09         4.73 
TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6920 TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6929 
        6.12         3.55         3.65         1.38         2.89         4.77 
TCGA-D5-6932 TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 
        0.62       112.73        24.43        38.20       119.05        92.75 
TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A1HB 
       12.59       129.11         7.46        44.32       129.11       124.08 
TCGA-DM-A280 TCGA-DM-A282 TCGA-DM-A285 TCGA-DM-A288 TCGA-DM-A28A TCGA-DM-A28C 
        7.73       135.52         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 
      116.02        35.97        60.79       112.50        93.21        91.20 
TCGA-F4-6806 TCGA-F4-6808 TCGA-F4-6855 TCGA-G4-6293 TCGA-G4-6294 TCGA-G4-6295 
        0.66         0.46         1.38       105.30        28.21         8.35 
TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6299 TCGA-G4-6303 TCGA-G4-6304 TCGA-G4-6306 
       75.22        23.51        68.28        61.87        53.62        44.65 
TCGA-G4-6307 TCGA-G4-6309 TCGA-G4-6311 TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6320 
       48.82        45.57        36.56        30.81        29.36        22.29 
TCGA-G4-6321 TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6625 TCGA-G4-6626 
       18.77        17.95         6.61        24.36        87.85        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         7.59         6.35         7.33 
TCGA-AG-3731 TCGA-AG-3742 TCGA-AG-4022 TCGA-AH-6544 TCGA-AH-6549 TCGA-AH-6643 
        1.02         0.99         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         9.99 
TCGA-DC-5869 TCGA-DC-6155 TCGA-DC-6156 TCGA-DC-6157 TCGA-DC-6158 TCGA-DC-6160 
        5.03         7.36         6.97        27.91         6.97        19.99 
TCGA-DC-6682 TCGA-DC-6683 TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DD TCGA-DY-A1DE 
        3.98         5.00       119.51        41.33        57.24       121.08 
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         7.63 
TCGA-EI-6508 TCGA-EI-6509 TCGA-EI-6510 TCGA-EI-6511 TCGA-EI-6512 TCGA-EI-6513 
        2.17         8.22         0.46         3.98         0.66         6.90 
TCGA-EI-6514 TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6810 TCGA-F5-6811 TCGA-G5-6233 
        7.10         3.39         0.85         0.39         1.02        18.25 
TCGA-G5-6235 TCGA-G5-6572 TCGA-G5-6641 
       47.70        47.08        20.91 

$subtype3
TCGA-A6-2671 TCGA-A6-2681 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-3808 TCGA-A6-5657 
       21.30        18.15        12.72        15.25         9.14        12.07 
TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5665 TCGA-A6-6141 TCGA-A6-6649 TCGA-A6-6651 
        9.76        11.90         9.40         4.24         4.80         8.15 
TCGA-A6-6652 TCGA-A6-6654 TCGA-A6-6781 TCGA-AA-3489 TCGA-AA-3818 TCGA-AA-A00O 
        4.41         5.82         5.19         1.02         0.99        27.02 
TCGA-AA-A01P TCGA-AA-A01X TCGA-AD-5900 TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 
       38.07        26.01         0.07         0.72         1.55         1.02 
TCGA-AD-6964 TCGA-AM-5820 TCGA-AY-6196 TCGA-AZ-4308 TCGA-AZ-4323 TCGA-AZ-5403 
        0.99         0.46         0.20        56.35         1.41        62.79 
TCGA-AZ-6601 TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-6717 TCGA-CA-6718 
       99.98        29.56         5.23         3.19         0.33         0.10 
TCGA-CM-4747 TCGA-CM-4748 TCGA-CM-5348 TCGA-CM-6162 TCGA-CM-6167 TCGA-CM-6168 
        8.02         7.04        12.92         6.97         4.01         5.95 
TCGA-CM-6674 TCGA-CM-6679 TCGA-D5-5539 TCGA-D5-6534 TCGA-D5-6898 TCGA-D5-6922 
        4.90         4.01         0.99         7.92         1.48         4.37 
TCGA-D5-6926 TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6930 TCGA-D5-7000 TCGA-DM-A1D6 
        3.12         2.20         0.66         1.48         1.35        49.91 
TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6854 
        1.84         1.51         0.53         0.53         1.25         0.53 
TCGA-F4-6856 TCGA-G4-6302 TCGA-G4-6310 TCGA-G4-6314 TCGA-G4-6627 TCGA-AF-2687 
        0.66        43.04        39.58        33.90        47.15        19.53 
TCGA-AF-2690 TCGA-AF-3911 TCGA-AF-4110 TCGA-AG-A015 TCGA-AH-6547 TCGA-AH-6644 
       11.77        17.62        14.50        13.02         1.45         0.72 
TCGA-DC-6681 TCGA-DT-5265 TCGA-F5-6702 TCGA-F5-6812 TCGA-F5-6813 
        5.92         0.26         2.17         0.66         0.69 

subtype1 subtype2 subtype3 
    0.16     0.07     0.07 
subtype1 subtype2 subtype3 
   72.07   135.52    99.98 
subtype1 subtype2 subtype3 
    6.53     7.96     4.80 
[1] "0.2 - 72.1 (6.5)"  "0.1 - 135.5 (8.0)" "0.1 - 100.0 (4.8)"
  [1] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [49] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [67] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[139] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[175] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[187] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[241] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[247] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[277] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[295] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[319] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[325] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[331] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[337] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[343] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[349] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[355] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[361] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[367] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[373] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[379] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[385] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[391] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[403] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[409] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[415] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[421] "subtype2" "subtype2"
  [1] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [49] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [67] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[139] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[175] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[187] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[241] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[247] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[277] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[295] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[319] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[325] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[331] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[337] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[343] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[349] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[355] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[361] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[367] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[373] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[379] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[385] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[391] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[403] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[409] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[415] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[421] "subtype2" "subtype2"
  [1] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [49] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [67] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[139] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[175] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[187] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[199] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[205] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[241] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[247] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[265] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[277] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[295] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[319] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[325] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[331] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[337] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[343] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[349] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[355] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[361] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[367] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[373] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[379] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[385] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[391] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[397] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[403] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[409] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[415] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[421] "subtype2" "subtype2"
D9V2, continuous
D9V3, binary
          cls
clus         0   1
  subtype1 177  66
  subtype2 160  61
  subtype3  69  13
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  177   66
  subtype2  160   61
  subtype3   69   13
        clus
vv       subtype1 subtype2 subtype3
  COLON       177      160       69
  RECTUM       66       61       13
D9V4, binary
          cls
clus         0   1
  subtype1 120 125
  subtype2 105 117
  subtype3  32  51
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  120  125
  subtype2  105  117
  subtype3   32   51
        clus
vv       subtype1 subtype2 subtype3
  FEMALE      120      105       32
  MALE        125      117       51
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                  152                            24
  subtype2                  147                            13
  subtype3                   51                            18
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    56                              7
  subtype2                    60                              1
  subtype3                    11                              2
D9V5, multiclass
D9V6, binary
          cls
clus         0   1
  subtype1   2 243
  subtype2   3 219
  subtype3   4  79
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2  243
  subtype2    3  219
  subtype3    4   79
     clus
vv    subtype1 subtype2 subtype3
  NO         2        3        4
  YES      243      219       79
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 200  40   1   0   1
  subtype2 157  19   6   1  35
  subtype3  56   9   2   0  14
D9V7, multiclass
          vv
clus        N0  N1 N1A N1B N1C  N2 N2A N2B  NX
  subtype1 150  43   2   3   0  46   1   0   0
  subtype2 127  40  12   7   3  22   1   7   2
  subtype3  37  15   3   5   0  10   4   7   1
D9V8, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1 200   3  32   2
  subtype2 125   2   4  19
  subtype3  58   0   0   4
D9V9, multiclass
D9V10, continuous
D9V11, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      51        0       24        62         6         0        16
  subtype2      36        1       11        65         4         2        10
  subtype3       7        0        6        20         0         0         2
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          4         20         18       36         4         0
  subtype2         10         34         14       16        11         1
  subtype3          3         13         12        3         8         0
D9V12, multiclass

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1 114  17
  subtype2  25   5
  subtype3 224  37
subtype1 subtype2 subtype3 
     131       30      261 
subtype1 subtype2 subtype3 
      17        5       37 
$subtype1
TCGA-A6-2670 TCGA-A6-2671 TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-2677 
       13.91        21.30        16.54        17.19        14.70        17.79 
TCGA-A6-2678 TCGA-A6-2679 TCGA-A6-2681 TCGA-A6-2682 TCGA-A6-2683 TCGA-A6-2684 
       14.37        19.56        18.15        13.94        15.52        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-A6-5661 TCGA-A6-5665 TCGA-AA-3494 TCGA-AA-3495 TCGA-AA-3510 
        7.59        10.06         9.40         1.02         1.02         1.02 
TCGA-AA-3526 TCGA-AA-3555 TCGA-AA-3562 TCGA-AA-3666 TCGA-AA-3675 TCGA-AA-3679 
        0.99         0.99         1.02         2.01         1.02         0.99 
TCGA-AA-3685 TCGA-AA-3710 TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3818 TCGA-AA-3837 
        0.99         1.02         0.99         0.99         0.99         1.02 
TCGA-AA-3842 TCGA-AA-3844 TCGA-AA-3846 TCGA-AA-3848 TCGA-AA-3854 TCGA-AA-3856 
        1.02         0.92         0.99         0.99         1.02         0.99 
TCGA-AA-3862 TCGA-AA-3877 TCGA-AA-3939 TCGA-AA-3941 TCGA-AA-3947 TCGA-AA-3949 
        1.02         0.99         0.99         1.02         0.99         0.99 
TCGA-AA-3950 TCGA-AA-3952 TCGA-AA-3966 TCGA-AA-3975 TCGA-AA-3977 TCGA-AA-3986 
        1.02         2.01         2.01         0.99         1.02         0.99 
TCGA-AA-A00J TCGA-AA-A00L TCGA-AA-A00O TCGA-AA-A00Q TCGA-AA-A00U TCGA-AA-A00W 
       18.02        17.00        27.02        27.02        17.00        14.99 
TCGA-AA-A01D TCGA-AA-A01F TCGA-AA-A01G TCGA-AA-A01P TCGA-AA-A01R TCGA-AA-A01S 
        0.99        13.02        12.00        38.07        35.01         1.02 
TCGA-AA-A01T TCGA-AA-A01V TCGA-AA-A024 TCGA-AA-A029 TCGA-AA-A02F TCGA-AA-A02J 
       33.04        35.01        39.06        51.95        39.95         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        56.35        31.46        43.86         5.65        16.60 
TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-6599 TCGA-CK-4951 TCGA-CM-4744 
       71.67        22.36        56.05         6.74        49.02         7.04 
TCGA-CM-4746 TCGA-CM-4747 TCGA-CM-4748 TCGA-CM-4750 TCGA-CM-5341 TCGA-D5-6932 
       22.98         8.02         7.04         8.02         6.02         0.62 
TCGA-AF-2689 TCGA-AF-2691 TCGA-AF-2692 TCGA-AF-3400 TCGA-AF-3913 TCGA-AG-3575 
       15.85        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-3727 TCGA-AG-3878 TCGA-AG-3883 TCGA-AG-3887 TCGA-AG-3894 
        0.99         0.95         0.99         1.02         0.92         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-A015 TCGA-AG-A016 TCGA-AG-A01L TCGA-AG-A01N TCGA-AG-A01W TCGA-AG-A020 
       13.02         1.02        12.00        12.00        70.03        10.98 
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 

$subtype2
TCGA-A6-2680 TCGA-A6-6137 TCGA-A6-6780 TCGA-AA-3488 TCGA-AA-3502 TCGA-AA-3518 
       17.16         6.41         2.83         5.00         1.02         1.02 
TCGA-AA-3660 TCGA-AA-A00D TCGA-AA-A010 TCGA-AA-A02H TCGA-AY-6197 TCGA-AZ-5407 
        1.02        19.00        20.98         2.01         3.68        45.86 
TCGA-AZ-6606 TCGA-CK-5912 TCGA-CM-6172 TCGA-D5-6920 TCGA-DM-A0X9 TCGA-DM-A0XD 
       11.74        48.03         6.94         3.65       112.73        24.43 
TCGA-DM-A1DB TCGA-DM-A28K TCGA-F4-6808 TCGA-G4-6293 TCGA-G4-6304 TCGA-G4-6322 
       44.32        93.21         0.46       105.30        53.62        17.95 
TCGA-AG-3726 TCGA-AG-3742 TCGA-AG-3892 TCGA-AG-A00C TCGA-AG-A011 TCGA-AG-A025 
        7.96         0.99         1.02         6.02        17.03        49.94 

$subtype3
TCGA-A6-2675 TCGA-A6-4105 TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5659 TCGA-A6-5660 
       16.93        14.50        15.19        12.07         9.40        11.24 
TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6138 TCGA-A6-6140 
        9.76        11.90         8.02        10.52         5.95         4.08 
TCGA-A6-6141 TCGA-A6-6142 TCGA-A6-6648 TCGA-A6-6649 TCGA-A6-6650 TCGA-A6-6651 
        4.24         4.37         8.32         4.80         5.65         8.15 
TCGA-A6-6652 TCGA-A6-6653 TCGA-A6-6654 TCGA-A6-6781 TCGA-A6-6782 TCGA-AA-3489 
        4.41         2.96         5.82         5.19         5.39         1.02 
TCGA-AA-3496 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-6548 TCGA-AD-6888 TCGA-AD-6889 TCGA-AD-6890 
        2.93         0.07         0.10         4.21        56.52         0.79 
TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6963 TCGA-AD-6964 TCGA-AD-6965 
        0.72         1.55         1.02         0.10         0.99         0.20 
TCGA-AM-5820 TCGA-AM-5821 TCGA-AU-3779 TCGA-AU-6004 TCGA-AY-4070 TCGA-AY-5543 
        0.46         0.92        14.47         6.67        16.31         7.56 
TCGA-AY-6196 TCGA-AY-6386 TCGA-AZ-4323 TCGA-AZ-4616 TCGA-AZ-5403 TCGA-AZ-6598 
        0.20         5.52         1.41         5.13        62.79        49.41 
TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-AZ-6608 
       12.10        99.98        29.56         5.23         3.19         1.94 
TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-5796 TCGA-CA-5797 TCGA-CA-6715 TCGA-CA-6716 
        0.16         0.07         0.39         0.26         0.07         0.26 
TCGA-CA-6717 TCGA-CA-6718 TCGA-CA-6719 TCGA-CK-4947 TCGA-CK-4948 TCGA-CK-4950 
        0.33         0.10         1.35        17.52       102.44        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-4752 TCGA-CM-5344 TCGA-CM-5348 
      103.04         6.05        19.96         4.04         9.99        12.92 
TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5862 TCGA-CM-5863 TCGA-CM-5864 
       11.01         9.99        11.01         5.03         9.99         2.01 
TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6162 TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 
        9.99         6.97         6.97         2.96        16.01         6.97 
TCGA-CM-6166 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 
       13.94         4.01         5.95         7.99         7.96         5.95 
TCGA-CM-6674 TCGA-CM-6675 TCGA-CM-6676 TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6679 
        4.90         5.00         5.00         5.00         4.01         4.01 
TCGA-CM-6680 TCGA-D5-5537 TCGA-D5-5538 TCGA-D5-5539 TCGA-D5-5540 TCGA-D5-5541 
        2.99        14.99         6.71         0.99         6.51         6.64 
TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6531 TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6534 
        8.55         8.91         0.56         3.52         1.32         7.92 
TCGA-D5-6535 TCGA-D5-6536 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6539 TCGA-D5-6540 
        0.33         9.44         4.47         8.09         4.73         6.12 
TCGA-D5-6541 TCGA-D5-6898 TCGA-D5-6922 TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6926 
        3.55         1.48         4.37         1.38         2.89         3.12 
TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6929 TCGA-D5-6930 TCGA-D5-6931 TCGA-D5-7000 
        2.20         0.66         4.77         1.48         1.41         1.35 
TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D6 TCGA-DM-A1D8 TCGA-DM-A1D9 
       38.20       119.05        92.75        49.91        12.59       129.11 
TCGA-DM-A1DA TCGA-DM-A1HA TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A282 TCGA-DM-A285 
        7.46       129.11       124.08         7.73       135.52         6.08 
TCGA-DM-A288 TCGA-DM-A28A TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G 
       14.01        26.47        81.37       116.02        35.97        60.79 
TCGA-DM-A28H TCGA-DM-A28M TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6806 
      112.50        91.20         1.84         1.51         0.53         0.66 
TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6854 TCGA-F4-6855 TCGA-F4-6856 TCGA-G4-6294 
        0.53         1.25         0.53         1.38         0.66        28.21 
TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6299 TCGA-G4-6302 TCGA-G4-6303 
        8.35        75.22        23.51        68.28        43.04        61.87 
TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6309 TCGA-G4-6310 TCGA-G4-6311 TCGA-G4-6314 
       44.65        48.82        45.57        39.58        36.56        33.90 
TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6323 TCGA-G4-6586 
       30.81        29.36        22.29        18.77         6.61        24.36 
TCGA-G4-6588 TCGA-G4-6625 TCGA-G4-6626 TCGA-G4-6627 TCGA-G4-6628 TCGA-AF-2687 
       21.17        87.85        46.75        47.15        52.96        19.53 
TCGA-AF-2690 TCGA-AF-2693 TCGA-AF-3911 TCGA-AF-4110 TCGA-AF-5654 TCGA-AF-6136 
       11.77        19.10        17.62        14.50         8.45         7.59 
TCGA-AF-6655 TCGA-AF-6672 TCGA-AG-3731 TCGA-AG-3893 TCGA-AG-4001 TCGA-AG-4022 
        6.35         7.33         1.02         0.99         1.02         0.99 
TCGA-AG-A01Y TCGA-AH-6544 TCGA-AH-6547 TCGA-AH-6549 TCGA-AH-6643 TCGA-AH-6644 
       63.98         0.49         1.45         0.20         0.69         0.72 
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         9.99 
TCGA-DC-5869 TCGA-DC-6155 TCGA-DC-6156 TCGA-DC-6157 TCGA-DC-6158 TCGA-DC-6160 
        5.03         7.36         6.97        27.91         6.97        19.99 
TCGA-DC-6681 TCGA-DC-6682 TCGA-DC-6683 TCGA-DT-5265 TCGA-DY-A0XA TCGA-DY-A1DC 
        5.92         3.98         5.00         0.26       119.51        41.33 
TCGA-DY-A1DD TCGA-DY-A1DE TCGA-DY-A1DF TCGA-DY-A1DG TCGA-DY-A1H8 TCGA-EF-5830 
       57.24       121.08        24.13        51.48        32.58         0.49 
TCGA-EF-5831 TCGA-EI-6506 TCGA-EI-6507 TCGA-EI-6508 TCGA-EI-6509 TCGA-EI-6510 
        2.40         7.63         0.16         2.17         8.22         0.46 
TCGA-EI-6511 TCGA-EI-6512 TCGA-EI-6513 TCGA-EI-6514 TCGA-F5-6465 TCGA-F5-6571 
        3.98         0.66         6.90         7.10         3.39         0.85 
TCGA-F5-6702 TCGA-F5-6810 TCGA-F5-6811 TCGA-F5-6812 TCGA-F5-6813 TCGA-G5-6233 
        2.17         0.39         1.02         0.66         0.69        18.25 
TCGA-G5-6235 TCGA-G5-6572 TCGA-G5-6641 
       47.70        47.08        20.91 

subtype1 subtype2 subtype3 
    0.62     0.46     0.07 
subtype1 subtype2 subtype3 
   72.07   112.73   135.52 
subtype1 subtype2 subtype3 
    8.09     9.85     6.94 
[1] "0.6 - 72.1 (8.1)"  "0.5 - 112.7 (9.8)" "0.1 - 135.5 (6.9)"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [31] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[109] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[163] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[199] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[217] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[229] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[241] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[253] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[259] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[265] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[271] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[289] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[295] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[301] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[307] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[319] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[325] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[331] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[337] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
[343] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[349] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[355] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[367] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[373] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[379] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[385] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[391] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[397] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[403] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[409] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[415] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[421] "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [31] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[109] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[163] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[199] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[217] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[229] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[241] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[253] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[259] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[265] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[271] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[289] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[295] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[301] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[307] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[319] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[325] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[331] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[337] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
[343] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[349] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[355] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[367] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[373] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[379] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[385] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[391] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[397] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[403] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[409] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[415] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[421] "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [31] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[109] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[163] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[199] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[217] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[223] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[229] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[241] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[253] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[259] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[265] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[271] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[289] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[295] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[301] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[307] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[313] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[319] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[325] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[331] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[337] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
[343] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[349] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[355] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[361] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[367] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[373] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[379] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[385] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[391] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[397] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[403] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[409] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[415] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[421] "subtype3" "subtype3"
D10V2, continuous
D10V3, binary
          cls
clus         0   1
  subtype1 177  57
  subtype2  25   8
  subtype3 204  75
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  177   57
  subtype2   25    8
  subtype3  204   75
        clus
vv       subtype1 subtype2 subtype3
  COLON       177       25      204
  RECTUM       57        8       75
D10V4, binary
          cls
clus         0   1
  subtype1 115 121
  subtype2  18  15
  subtype3 124 157
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  115  121
  subtype2   18   15
  subtype3  124  157
        clus
vv       subtype1 subtype2 subtype3
  FEMALE      115       18      124
  MALE        121       15      157
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                  150                            26
  subtype2                   22                             3
  subtype3                  178                            26
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    47                              7
  subtype2                     7                              1
  subtype3                    73                              2
D10V5, multiclass
D10V6, binary
          cls
clus         0   1
  subtype1   2 234
  subtype2   0  33
  subtype3   7 274
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2  234
  subtype2    0   33
  subtype3    7  274
     clus
vv    subtype1 subtype2 subtype3
  NO         2        0        7
  YES      234       33      274
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 192  38   2   0   1
  subtype2  25   4   0   0   3
  subtype3 196  26   7   1  46
D10V7, multiclass
          vv
clus        N0  N1 N1A N1B N1C  N2 N2A N2B  NX
  subtype1 140  44   2   5   0  43   1   0   0
  subtype2  24   3   1   0   1   4   0   0   0
  subtype3 150  51  14  10   2  31   5  14   3
D10V8, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1 195   2  29   1
  subtype2  21   0   3   1
  subtype3 167   3   4  23
D10V9, multiclass
D10V10, continuous
D10V11, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      49        0       21        58         4         0        17
  subtype2       9        0        2        11         2         0         1
  subtype3      36        1       18        78         4         2        10
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          4         22         17       33         5         0
  subtype2          0          4          0        4         0         0
  subtype3         13         41         27       18        18         1
D10V12, multiclass

Clustering(11) Variable = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2       0  1
  subtype1 84 16
  subtype2 81 16
  subtype3 72  7
subtype1 subtype2 subtype3 
     100       97       79 
subtype1 subtype2 subtype3 
      16       16        7 
$subtype1
TCGA-A6-2672 TCGA-A6-4105 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-5666 TCGA-A6-6141 
       16.54        14.50        10.06         9.40         8.02         4.24 
TCGA-A6-6648 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 TCGA-AA-3496 TCGA-AA-3663 
        8.32         2.96         2.83         5.19         1.02         1.02 
TCGA-AA-3697 TCGA-AA-3713 TCGA-AD-5900 TCGA-AD-6548 TCGA-AD-6888 TCGA-AD-6889 
        0.95         0.95         0.07         0.10         4.21        56.52 
TCGA-AD-6890 TCGA-AD-6963 TCGA-AM-5821 TCGA-AU-6004 TCGA-AY-5543 TCGA-AY-6197 
        0.79         0.10         0.92         6.67         7.56         3.68 
TCGA-AY-6386 TCGA-AZ-4616 TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6600 TCGA-AZ-6601 
        5.52         5.13        45.86        49.41        12.10        99.98 
TCGA-AZ-6606 TCGA-CA-5254 TCGA-CA-5796 TCGA-CA-6718 TCGA-CK-4947 TCGA-CK-4948 
       11.74         0.16         0.39         0.10        17.52       102.44 
TCGA-CK-4950 TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-5914 TCGA-CK-5916 TCGA-CK-6747 
       40.31        15.58        28.04        21.99        21.01         2.93 
TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5863 
      103.04         6.05        19.96         9.99        11.01         9.99 
TCGA-CM-6171 TCGA-CM-6172 TCGA-CM-6675 TCGA-CM-6680 TCGA-D5-5539 TCGA-D5-6530 
        5.95         6.94         5.00         2.99         0.99         8.91 
TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6920 TCGA-D5-6927 
        0.33         4.47         4.73         6.12         3.65         2.20 
TCGA-D5-6931 TCGA-D5-7000 TCGA-DM-A0XD TCGA-DM-A1D4 TCGA-DM-A1D6 TCGA-DM-A1DA 
        1.41         1.35        24.43        92.75        49.91         7.46 
TCGA-DM-A1DB TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A288 TCGA-DM-A28K TCGA-DM-A28M 
       44.32       124.08         7.73        14.01        93.21        91.20 
TCGA-F4-6806 TCGA-F4-6855 TCGA-F4-6856 TCGA-G4-6295 TCGA-G4-6304 TCGA-G4-6306 
        0.66         1.38         0.66         8.35        53.62        44.65 
TCGA-G4-6307 TCGA-G4-6309 TCGA-G4-6311 TCGA-G4-6315 TCGA-G4-6321 TCGA-G4-6322 
       48.82        45.57        36.56        30.81        18.77        17.95 
TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6625 TCGA-G4-6626 TCGA-G4-6628 
        6.61        24.36        21.17        87.85        46.75        52.96 
TCGA-AF-6136 TCGA-AH-6544 TCGA-BM-6198 TCGA-DC-6155 TCGA-DC-6160 TCGA-EI-6507 
        7.59         0.49        10.19         7.36        19.99         0.16 
TCGA-EI-6510 TCGA-EI-6512 TCGA-G5-6233 TCGA-G5-6235 
        0.46         0.66        18.25        47.70 

$subtype2
TCGA-A6-2675 TCGA-A6-5660 TCGA-A6-6137 TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6650 
       16.93        11.24         6.41         5.95         4.08         5.65 
TCGA-A6-6652 TCGA-AA-3660 TCGA-AD-6965 TCGA-AU-3779 TCGA-AZ-6599 TCGA-AZ-6603 
        4.41         1.02         0.20        14.47         6.74        29.56 
TCGA-AZ-6608 TCGA-CA-6715 TCGA-CA-6716 TCGA-CK-5912 TCGA-CM-5862 TCGA-CM-5864 
        1.94         0.07         0.26        48.03         5.03         2.01 
TCGA-CM-6170 TCGA-CM-6676 TCGA-CM-6677 TCGA-CM-6678 TCGA-D5-5537 TCGA-D5-5538 
        7.96         5.00         5.00         4.01        14.99         6.71 
TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6529 TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6538 
        6.51         6.64         8.55         3.52         1.32         8.09 
TCGA-D5-6541 TCGA-D5-6923 TCGA-D5-6926 TCGA-D5-6929 TCGA-D5-6932 TCGA-DM-A0X9 
        3.55         1.38         3.12         4.77         0.62       112.73 
TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1HA TCGA-DM-A282 
       38.20       119.05        12.59       129.11       129.11       135.52 
TCGA-DM-A28A TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28H 
       26.47        81.37       116.02        35.97        60.79       112.50 
TCGA-F4-6808 TCGA-G4-6293 TCGA-G4-6294 TCGA-G4-6299 TCGA-G4-6317 TCGA-AF-2693 
        0.46       105.30        28.21        68.28        29.36        19.10 
TCGA-AF-3911 TCGA-AF-5654 TCGA-AF-6655 TCGA-AF-6672 TCGA-AG-3742 TCGA-AG-4022 
       17.62         8.45         6.35         7.33         0.99         0.99 
TCGA-AH-6549 TCGA-AH-6643 TCGA-AH-6644 TCGA-CI-6619 TCGA-CI-6620 TCGA-CI-6622 
        0.20         0.69         0.72         6.02         6.02         6.94 
TCGA-CI-6623 TCGA-CI-6624 TCGA-CL-4957 TCGA-CL-5917 TCGA-CL-5918 TCGA-DC-4745 
        9.37         4.70        13.97        60.00         7.99        10.98 
TCGA-DC-4749 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6156 TCGA-DC-6157 TCGA-DC-6158 
       11.01         9.99         5.03         6.97        27.91         6.97 
TCGA-DC-6682 TCGA-DC-6683 TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DD TCGA-DY-A1DF 
        3.98         5.00       119.51        41.33        57.24        24.13 
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         7.63         2.17 
TCGA-EI-6509 TCGA-EI-6511 TCGA-EI-6513 TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6811 
        8.22         3.98         6.90         3.39         0.85         1.02 
TCGA-G5-6641 
       20.91 

$subtype3
TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5659 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5667 
       15.19        12.07         9.40         9.76        11.90        10.52 
TCGA-A6-6142 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6654 TCGA-A6-6782 TCGA-AA-3489 
        4.37         4.80         8.15         5.82         5.39         1.02 
TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6964 TCGA-AM-5820 TCGA-AY-6196 
        0.72         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         0.07         0.26 
TCGA-CA-6717 TCGA-CA-6719 TCGA-CK-6748 TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 
        0.33         1.35         2.01         9.99        12.92        11.01 
TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6162 TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 
        9.99         6.97         6.97         2.96        16.01         6.97 
TCGA-CM-6166 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6169 TCGA-CM-6674 TCGA-CM-6679 
       13.94         4.01         5.95         7.99         4.90         4.01 
TCGA-D5-6531 TCGA-D5-6534 TCGA-D5-6536 TCGA-D5-6898 TCGA-D5-6922 TCGA-D5-6924 
        0.56         7.92         9.44         1.48         4.37         2.89 
TCGA-D5-6928 TCGA-D5-6930 TCGA-DM-A285 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 
        0.66         1.48         6.08         1.84         1.51         0.53 
TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6854 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6302 
        0.53         1.25         0.53        75.22        23.51        43.04 
TCGA-G4-6303 TCGA-G4-6310 TCGA-G4-6314 TCGA-G4-6320 TCGA-G4-6627 TCGA-AF-2687 
       61.87        39.58        33.90        22.29        47.15        19.53 
TCGA-AF-2690 TCGA-AF-4110 TCGA-AG-3731 TCGA-AH-6547 TCGA-DC-6681 TCGA-DT-5265 
       11.77        14.50         1.02         1.45         5.92         0.26 
TCGA-DY-A1DE TCGA-EI-6514 TCGA-F5-6702 TCGA-F5-6810 TCGA-F5-6812 TCGA-F5-6813 
      121.08         7.10         2.17         0.39         0.66         0.69 
TCGA-G5-6572 
       47.08 

subtype1 subtype2 subtype3 
    0.07     0.07     0.07 
subtype1 subtype2 subtype3 
  124.08   135.52   121.08 
subtype1 subtype2 subtype3 
    8.17     6.97     5.23 
[1] "0.1 - 124.1 (8.2)" "0.1 - 135.5 (7.0)" "0.1 - 121.1 (5.2)"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [49] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
 [73] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [91] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[109] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[139] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[157] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[163] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[181] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[199] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[223] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[241] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[247] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[265] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[271] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [49] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
 [73] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [91] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[109] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[139] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[157] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[163] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[181] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[199] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[223] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[241] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[247] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[265] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[271] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [49] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
 [73] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [91] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[109] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[139] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[157] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[163] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[175] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[181] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[193] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[199] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[211] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[223] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[235] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[241] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[247] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[259] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[265] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[271] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
D11V2, continuous
D11V3, binary
          cls
clus        0  1
  subtype1 94 11
  subtype2 58 47
  subtype3 69 15
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   94   11
  subtype2   58   47
  subtype3   69   15
        clus
vv       subtype1 subtype2 subtype3
  COLON        94       58       69
  RECTUM       11       47       15
D11V4, binary
          cls
clus        0  1
  subtype1 49 56
  subtype2 47 59
  subtype3 35 50
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   49   56
  subtype2   47   59
  subtype3   35   50
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       49       47       35
  MALE         56       59       50
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   78                            16
  subtype2                   57                             1
  subtype3                   57                            12
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                    11                              0
  subtype2                    46                              1
  subtype3                    14                              1
D11V5, multiclass
D11V6, binary
          cls
clus         0   1
  subtype1   2 103
  subtype2   3 103
  subtype3   2  83
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2  103
  subtype2    3  103
  subtype3    2   83
     clus
vv    subtype1 subtype2 subtype3
  NO         2        3        2
  YES      103      103       83
          vv
clus       M0 M1 M1A M1B MX
  subtype1 72  7   1   1 22
  subtype2 79  8   3   0 15
  subtype3 54 12   3   0 13
D11V7, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 66 20   4   5   0  7   1   1  1
  subtype2 55 18   5   2   3 14   1   6  2
  subtype3 41 13   6   3   0 11   3   7  0
D11V8, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 60  2  1 12
  subtype2 56  0  2  6
  subtype3 58  0  1  5
D11V9, multiclass
D11V10, continuous
D11V11, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      16        1        8        31         2         2         5
  subtype2      17        0        4        29         2         0         4
  subtype3       8        0        5        25         1         0         1
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          5         18          4        5         4         1
  subtype2          7         14         12        6         6         0
  subtype3          1         12         10        8         8         0
D11V12, multiclass

Clustering(12) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D12V1, survival
          sevent
clus2       0  1
  subtype1 23  3
  subtype2 21  2
  subtype3 41 16
  subtype4 56  6
  subtype5 39  3
  subtype6 57  9
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
      26       23       57       62       42       66 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
       3        2       16        6        3        9 
$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         6.97        13.94 
TCGA-D5-5540 TCGA-D5-6533 TCGA-D5-6538 TCGA-D5-6924 TCGA-D5-6929 TCGA-DM-A0XF 
        6.51         1.32         8.09         2.89         4.77        38.20 
TCGA-DM-A282 TCGA-DM-A28G TCGA-G4-6295 TCGA-G4-6298 TCGA-G4-6314 TCGA-G4-6315 
      135.52        60.79         8.35        23.51        33.90        30.81 
TCGA-AF-5654 TCGA-CL-4957 TCGA-DC-5337 TCGA-DC-5869 TCGA-DC-6682 TCGA-EF-5830 
        8.45        13.97         9.99         5.03         3.98         0.49 
TCGA-EI-6506 TCGA-EI-6510 
        7.63         0.46 

$subtype2
TCGA-A6-5666 TCGA-A6-6142 TCGA-AA-3496 TCGA-AD-6548 TCGA-AD-6964 TCGA-AD-6965 
        8.02         4.37         1.02         0.10         0.99         0.20 
TCGA-AZ-6599 TCGA-CA-5797 TCGA-CK-4948 TCGA-D5-5538 TCGA-DM-A1HA TCGA-DM-A285 
        6.74         0.26       102.44         6.71       129.11         6.08 
TCGA-AF-2687 TCGA-AG-3731 TCGA-AH-6549 TCGA-CI-6619 TCGA-CI-6620 TCGA-CI-6624 
       19.53         1.02         0.20         6.02         6.02         4.70 
TCGA-EI-6508 TCGA-EI-6513 TCGA-F5-6702 TCGA-F5-6810 TCGA-G5-6641 
        2.17         6.90         2.17         0.39        20.91 

$subtype3
TCGA-A6-4105 TCGA-A6-5660 TCGA-A6-6137 TCGA-A6-6140 TCGA-A6-6141 TCGA-A6-6648 
       14.50        11.24         6.41         4.08         4.24         8.32 
TCGA-A6-6650 TCGA-AD-6888 TCGA-AD-6890 TCGA-AD-6963 TCGA-AZ-6598 TCGA-AZ-6608 
        5.65         4.21         0.79         0.10        49.41         1.94 
TCGA-CK-6747 TCGA-CM-6676 TCGA-D5-5537 TCGA-D5-6529 TCGA-D5-6920 TCGA-D5-6923 
        2.93         5.00        14.99         8.55         3.65         1.38 
TCGA-DM-A0X9 TCGA-DM-A1D4 TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB 
      112.73        92.75        12.59       129.11         7.46        44.32 
TCGA-DM-A288 TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28H TCGA-DM-A28M 
       14.01        81.37       116.02        35.97       112.50        91.20 
TCGA-F4-6806 TCGA-F4-6808 TCGA-F4-6855 TCGA-G4-6294 TCGA-G4-6299 TCGA-G4-6306 
        0.66         0.46         1.38        28.21        68.28        44.65 
TCGA-G4-6307 TCGA-G4-6625 TCGA-G4-6626 TCGA-AF-2693 TCGA-AF-6136 TCGA-AF-6655 
       48.82        87.85        46.75        19.10         7.59         6.35 
TCGA-AF-6672 TCGA-AH-6544 TCGA-AH-6643 TCGA-BM-6198 TCGA-CI-6622 TCGA-CI-6623 
        7.33         0.49         0.69        10.19         6.94         9.37 
TCGA-DC-4749 TCGA-DY-A0XA TCGA-DY-A1DC TCGA-DY-A1DG TCGA-DY-A1H8 TCGA-EI-6511 
       11.01       119.51        41.33        51.48        32.58         3.98 
TCGA-EI-6512 TCGA-G5-6233 TCGA-G5-6235 
        0.66        18.25        47.70 

$subtype4
TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5659 TCGA-A6-5662 TCGA-A6-5667 TCGA-A6-6138 
       15.19        12.07         9.40         9.76        10.52         5.95 
TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6652 TCGA-A6-6654 TCGA-A6-6782 TCGA-AA-3489 
        4.80         8.15         4.41         5.82         5.39         1.02 
TCGA-AD-6899 TCGA-AD-6901 TCGA-AM-5820 TCGA-AY-6196 TCGA-AZ-4323 TCGA-AZ-5403 
        1.55         1.02         0.46         0.20         1.41        62.79 
TCGA-AZ-6603 TCGA-AZ-6605 TCGA-CA-6717 TCGA-CA-6719 TCGA-CK-6748 TCGA-CM-5348 
       29.56         5.23         0.33         1.35         2.01        12.92 
TCGA-CM-5868 TCGA-CM-6164 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6679 TCGA-D5-6534 
        9.99        16.01         4.01         5.95         4.01         7.92 
TCGA-D5-6898 TCGA-D5-6922 TCGA-D5-6926 TCGA-D5-6928 TCGA-D5-6932 TCGA-F4-6704 
        1.48         4.37         3.12         0.66         0.62         1.51 
TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6854 TCGA-G4-6302 TCGA-G4-6303 
        0.53         0.53         1.25         0.53        43.04        61.87 
TCGA-G4-6310 TCGA-G4-6627 TCGA-AF-2690 TCGA-AF-3911 TCGA-AF-4110 TCGA-AG-4022 
       39.58        47.15        11.77        17.62        14.50         0.99 
TCGA-AH-6644 TCGA-DC-4745 TCGA-DC-6681 TCGA-DC-6683 TCGA-DY-A1DE TCGA-DY-A1DF 
        0.72        10.98         5.92         5.00       121.08        24.13 
TCGA-EI-6509 TCGA-EI-6514 TCGA-F5-6465 TCGA-F5-6571 TCGA-F5-6811 TCGA-F5-6812 
        8.22         7.10         3.39         0.85         1.02         0.66 
TCGA-F5-6813 TCGA-G5-6572 
        0.69        47.08 

$subtype5
TCGA-A6-2675 TCGA-AA-3660 TCGA-AA-3697 TCGA-AU-3779 TCGA-AY-5543 TCGA-AZ-5407 
       16.93         1.02         0.95        14.47         7.56        45.86 
TCGA-CK-4947 TCGA-CK-4950 TCGA-CK-5912 TCGA-CM-5344 TCGA-CM-5349 TCGA-CM-5860 
       17.52        40.31        48.03         9.99        11.01         9.99 
TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-6163 TCGA-CM-6165 TCGA-CM-6169 TCGA-CM-6170 
        5.03         2.01         2.96         6.97         7.99         7.96 
TCGA-CM-6172 TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6539 
        6.94         6.64         3.52         0.33         4.47         4.73 
TCGA-D5-6541 TCGA-DM-A1D0 TCGA-DM-A28A TCGA-G4-6293 TCGA-G4-6297 TCGA-G4-6311 
        3.55       119.05        26.47       105.30        75.22        36.56 
TCGA-G4-6317 TCGA-G4-6320 TCGA-G4-6322 TCGA-G4-6323 TCGA-AG-3742 TCGA-CL-5917 
       29.36        22.29        17.95         6.61         0.99        60.00 
TCGA-CL-5918 TCGA-DC-6156 TCGA-DC-6157 TCGA-DC-6158 TCGA-DY-A1DD TCGA-EF-5831 
        7.99         6.97        27.91         6.97        57.24         2.40 

$subtype6
TCGA-A6-2672 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 
       16.54        10.06         9.40         2.96         2.83         5.19 
TCGA-AA-3663 TCGA-AA-3713 TCGA-AD-5900 TCGA-AD-6889 TCGA-AD-6895 TCGA-AM-5821 
        1.02         0.95         0.07        56.52         0.72         0.92 
TCGA-AU-6004 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4616 TCGA-AZ-6600 TCGA-AZ-6601 
        6.67         3.68         5.52         5.13        12.10        99.98 
TCGA-AZ-6606 TCGA-AZ-6607 TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-5796 TCGA-CA-6718 
       11.74         3.19         0.16         0.07         0.39         0.10 
TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-5916 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 
       15.58        28.04        21.01       103.04         6.05        19.96 
TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-6162 TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6675 
       11.01         9.99         6.97         5.95         4.90         5.00 
TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6680 TCGA-D5-5539 TCGA-D5-6530 TCGA-D5-6531 
        5.00         4.01         2.99         0.99         8.91         0.56 
TCGA-D5-6536 TCGA-D5-6540 TCGA-D5-6927 TCGA-D5-6930 TCGA-D5-6931 TCGA-D5-7000 
        9.44         6.12         2.20         1.48         1.41         1.35 
TCGA-DM-A0XD TCGA-DM-A1D6 TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A28K TCGA-F4-6703 
       24.43        49.91       124.08         7.73        93.21         1.84 
TCGA-F4-6856 TCGA-G4-6304 TCGA-G4-6309 TCGA-G4-6321 TCGA-G4-6586 TCGA-G4-6588 
        0.66        53.62        45.57        18.77        24.36        21.17 
TCGA-G4-6628 TCGA-AH-6547 TCGA-DC-6155 TCGA-DC-6160 TCGA-DT-5265 TCGA-EI-6507 
       52.96         1.45         7.36        19.99         0.26         0.16 

subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
    0.07     0.10     0.10     0.20     0.33     0.07 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
  135.52   129.11   129.11   121.08   119.05   124.08 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
   8.220    4.700   11.010    5.115    7.990    6.000 
[1] "0.1 - 135.5 (8.2)"  "0.1 - 129.1 (4.7)"  "0.1 - 129.1 (11.0)"
[4] "0.2 - 121.1 (5.1)"  "0.3 - 119.0 (8.0)"  "0.1 - 124.1 (6.0)" 
  [1] "subtype6" "subtype5" "subtype3" "subtype4" "subtype4" "subtype4"
  [7] "subtype3" "subtype6" "subtype4" "subtype1" "subtype6" "subtype2"
 [13] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype2"
 [19] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype6"
 [25] "subtype4" "subtype6" "subtype6" "subtype4" "subtype4" "subtype2"
 [31] "subtype5" "subtype6" "subtype5" "subtype6" "subtype6" "subtype2"
 [37] "subtype3" "subtype6" "subtype3" "subtype6" "subtype4" "subtype4"
 [43] "subtype3" "subtype2" "subtype2" "subtype4" "subtype6" "subtype5"
 [49] "subtype6" "subtype5" "subtype4" "subtype6" "subtype6" "subtype4"
 [55] "subtype6" "subtype4" "subtype5" "subtype3" "subtype2" "subtype6"
 [61] "subtype6" "subtype4" "subtype4" "subtype6" "subtype6" "subtype3"
 [67] "subtype6" "subtype6" "subtype6" "subtype2" "subtype1" "subtype1"
 [73] "subtype4" "subtype6" "subtype4" "subtype5" "subtype2" "subtype5"
 [79] "subtype6" "subtype5" "subtype6" "subtype1" "subtype6" "subtype3"
 [85] "subtype4" "subtype6" "subtype6" "subtype6" "subtype5" "subtype4"
 [91] "subtype5" "subtype5" "subtype6" "subtype5" "subtype6" "subtype5"
 [97] "subtype4" "subtype1" "subtype6" "subtype5" "subtype4" "subtype5"
[103] "subtype1" "subtype4" "subtype4" "subtype5" "subtype5" "subtype6"
[109] "subtype5" "subtype6" "subtype6" "subtype3" "subtype6" "subtype6"
[115] "subtype4" "subtype6" "subtype3" "subtype2" "subtype6" "subtype1"
[121] "subtype5" "subtype3" "subtype6" "subtype6" "subtype5" "subtype1"
[127] "subtype4" "subtype5" "subtype6" "subtype5" "subtype1" "subtype5"
[133] "subtype6" "subtype5" "subtype4" "subtype3" "subtype4" "subtype3"
[139] "subtype1" "subtype4" "subtype6" "subtype4" "subtype1" "subtype6"
[145] "subtype6" "subtype4" "subtype6" "subtype3" "subtype6" "subtype1"
[151] "subtype5" "subtype3" "subtype6" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype2" "subtype6" "subtype6" "subtype1" "subtype2"
[163] "subtype3" "subtype5" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype3" "subtype6" "subtype3" "subtype6" "subtype4" "subtype4"
[175] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[181] "subtype6" "subtype5" "subtype3" "subtype1" "subtype5" "subtype1"
[187] "subtype3" "subtype4" "subtype4" "subtype6" "subtype3" "subtype3"
[193] "subtype6" "subtype4" "subtype5" "subtype1" "subtype1" "subtype5"
[199] "subtype5" "subtype6" "subtype5" "subtype5" "subtype6" "subtype6"
[205] "subtype3" "subtype3" "subtype4" "subtype6" "subtype2" "subtype4"
[211] "subtype3" "subtype4" "subtype4" "subtype1" "subtype3" "subtype3"
[217] "subtype3" "subtype2" "subtype5" "subtype4" "subtype3" "subtype6"
[223] "subtype2" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[229] "subtype3" "subtype3" "subtype2" "subtype1" "subtype5" "subtype5"
[235] "subtype4" "subtype3" "subtype1" "subtype1" "subtype6" "subtype5"
[241] "subtype5" "subtype5" "subtype6" "subtype4" "subtype1" "subtype4"
[247] "subtype6" "subtype3" "subtype3" "subtype5" "subtype4" "subtype4"
[253] "subtype3" "subtype3" "subtype1" "subtype5" "subtype1" "subtype6"
[259] "subtype2" "subtype4" "subtype1" "subtype3" "subtype3" "subtype2"
[265] "subtype4" "subtype4" "subtype4" "subtype2" "subtype2" "subtype4"
[271] "subtype4" "subtype4" "subtype3" "subtype3" "subtype4" "subtype2"
  [1] "subtype6" "subtype5" "subtype3" "subtype4" "subtype4" "subtype4"
  [7] "subtype3" "subtype6" "subtype4" "subtype1" "subtype6" "subtype2"
 [13] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype2"
 [19] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype6"
 [25] "subtype4" "subtype6" "subtype6" "subtype4" "subtype4" "subtype2"
 [31] "subtype5" "subtype6" "subtype5" "subtype6" "subtype6" "subtype2"
 [37] "subtype3" "subtype6" "subtype3" "subtype6" "subtype4" "subtype4"
 [43] "subtype3" "subtype2" "subtype2" "subtype4" "subtype6" "subtype5"
 [49] "subtype6" "subtype5" "subtype4" "subtype6" "subtype6" "subtype4"
 [55] "subtype6" "subtype4" "subtype5" "subtype3" "subtype2" "subtype6"
 [61] "subtype6" "subtype4" "subtype4" "subtype6" "subtype6" "subtype3"
 [67] "subtype6" "subtype6" "subtype6" "subtype2" "subtype1" "subtype1"
 [73] "subtype4" "subtype6" "subtype4" "subtype5" "subtype2" "subtype5"
 [79] "subtype6" "subtype5" "subtype6" "subtype1" "subtype6" "subtype3"
 [85] "subtype4" "subtype6" "subtype6" "subtype6" "subtype5" "subtype4"
 [91] "subtype5" "subtype5" "subtype6" "subtype5" "subtype6" "subtype5"
 [97] "subtype4" "subtype1" "subtype6" "subtype5" "subtype4" "subtype5"
[103] "subtype1" "subtype4" "subtype4" "subtype5" "subtype5" "subtype6"
[109] "subtype5" "subtype6" "subtype6" "subtype3" "subtype6" "subtype6"
[115] "subtype4" "subtype6" "subtype3" "subtype2" "subtype6" "subtype1"
[121] "subtype5" "subtype3" "subtype6" "subtype6" "subtype5" "subtype1"
[127] "subtype4" "subtype5" "subtype6" "subtype5" "subtype1" "subtype5"
[133] "subtype6" "subtype5" "subtype4" "subtype3" "subtype4" "subtype3"
[139] "subtype1" "subtype4" "subtype6" "subtype4" "subtype1" "subtype6"
[145] "subtype6" "subtype4" "subtype6" "subtype3" "subtype6" "subtype1"
[151] "subtype5" "subtype3" "subtype6" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype2" "subtype6" "subtype6" "subtype1" "subtype2"
[163] "subtype3" "subtype5" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype3" "subtype6" "subtype3" "subtype6" "subtype4" "subtype4"
[175] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[181] "subtype6" "subtype5" "subtype3" "subtype1" "subtype5" "subtype1"
[187] "subtype3" "subtype4" "subtype4" "subtype6" "subtype3" "subtype3"
[193] "subtype6" "subtype4" "subtype5" "subtype1" "subtype1" "subtype5"
[199] "subtype5" "subtype6" "subtype5" "subtype5" "subtype6" "subtype6"
[205] "subtype3" "subtype3" "subtype4" "subtype6" "subtype2" "subtype4"
[211] "subtype3" "subtype4" "subtype4" "subtype1" "subtype3" "subtype3"
[217] "subtype3" "subtype2" "subtype5" "subtype4" "subtype3" "subtype6"
[223] "subtype2" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[229] "subtype3" "subtype3" "subtype2" "subtype1" "subtype5" "subtype5"
[235] "subtype4" "subtype3" "subtype1" "subtype1" "subtype6" "subtype5"
[241] "subtype5" "subtype5" "subtype6" "subtype4" "subtype1" "subtype4"
[247] "subtype6" "subtype3" "subtype3" "subtype5" "subtype4" "subtype4"
[253] "subtype3" "subtype3" "subtype1" "subtype5" "subtype1" "subtype6"
[259] "subtype2" "subtype4" "subtype1" "subtype3" "subtype3" "subtype2"
[265] "subtype4" "subtype4" "subtype4" "subtype2" "subtype2" "subtype4"
[271] "subtype4" "subtype4" "subtype3" "subtype3" "subtype4" "subtype2"
  [1] "subtype6" "subtype5" "subtype3" "subtype4" "subtype4" "subtype4"
  [7] "subtype3" "subtype6" "subtype4" "subtype1" "subtype6" "subtype2"
 [13] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype2"
 [19] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype6"
 [25] "subtype4" "subtype6" "subtype6" "subtype4" "subtype4" "subtype2"
 [31] "subtype5" "subtype6" "subtype5" "subtype6" "subtype6" "subtype2"
 [37] "subtype3" "subtype6" "subtype3" "subtype6" "subtype4" "subtype4"
 [43] "subtype3" "subtype2" "subtype2" "subtype4" "subtype6" "subtype5"
 [49] "subtype6" "subtype5" "subtype4" "subtype6" "subtype6" "subtype4"
 [55] "subtype6" "subtype4" "subtype5" "subtype3" "subtype2" "subtype6"
 [61] "subtype6" "subtype4" "subtype4" "subtype6" "subtype6" "subtype3"
 [67] "subtype6" "subtype6" "subtype6" "subtype2" "subtype1" "subtype1"
 [73] "subtype4" "subtype6" "subtype4" "subtype5" "subtype2" "subtype5"
 [79] "subtype6" "subtype5" "subtype6" "subtype1" "subtype6" "subtype3"
 [85] "subtype4" "subtype6" "subtype6" "subtype6" "subtype5" "subtype4"
 [91] "subtype5" "subtype5" "subtype6" "subtype5" "subtype6" "subtype5"
 [97] "subtype4" "subtype1" "subtype6" "subtype5" "subtype4" "subtype5"
[103] "subtype1" "subtype4" "subtype4" "subtype5" "subtype5" "subtype6"
[109] "subtype5" "subtype6" "subtype6" "subtype3" "subtype6" "subtype6"
[115] "subtype4" "subtype6" "subtype3" "subtype2" "subtype6" "subtype1"
[121] "subtype5" "subtype3" "subtype6" "subtype6" "subtype5" "subtype1"
[127] "subtype4" "subtype5" "subtype6" "subtype5" "subtype1" "subtype5"
[133] "subtype6" "subtype5" "subtype4" "subtype3" "subtype4" "subtype3"
[139] "subtype1" "subtype4" "subtype6" "subtype4" "subtype1" "subtype6"
[145] "subtype6" "subtype4" "subtype6" "subtype3" "subtype6" "subtype1"
[151] "subtype5" "subtype3" "subtype6" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype2" "subtype6" "subtype6" "subtype1" "subtype2"
[163] "subtype3" "subtype5" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype3" "subtype6" "subtype3" "subtype6" "subtype4" "subtype4"
[175] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[181] "subtype6" "subtype5" "subtype3" "subtype1" "subtype5" "subtype1"
[187] "subtype3" "subtype4" "subtype4" "subtype6" "subtype3" "subtype3"
[193] "subtype6" "subtype4" "subtype5" "subtype1" "subtype1" "subtype5"
[199] "subtype5" "subtype6" "subtype5" "subtype5" "subtype6" "subtype6"
[205] "subtype3" "subtype3" "subtype4" "subtype6" "subtype2" "subtype4"
[211] "subtype3" "subtype4" "subtype4" "subtype1" "subtype3" "subtype3"
[217] "subtype3" "subtype2" "subtype5" "subtype4" "subtype3" "subtype6"
[223] "subtype2" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[229] "subtype3" "subtype3" "subtype2" "subtype1" "subtype5" "subtype5"
[235] "subtype4" "subtype3" "subtype1" "subtype1" "subtype6" "subtype5"
[241] "subtype5" "subtype5" "subtype6" "subtype4" "subtype1" "subtype4"
[247] "subtype6" "subtype3" "subtype3" "subtype5" "subtype4" "subtype4"
[253] "subtype3" "subtype3" "subtype1" "subtype5" "subtype1" "subtype6"
[259] "subtype2" "subtype4" "subtype1" "subtype3" "subtype3" "subtype2"
[265] "subtype4" "subtype4" "subtype4" "subtype2" "subtype2" "subtype4"
[271] "subtype4" "subtype4" "subtype3" "subtype3" "subtype4" "subtype2"
D12V2, continuous
D12V3, binary
          cls
clus        0  1
  subtype1 21  9
  subtype2 12 12
  subtype3 41 20
  subtype4 46 18
  subtype5 37  9
  subtype6 64  5
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   21    9
  subtype2   12   12
  subtype3   41   20
  subtype4   46   18
  subtype5   37    9
  subtype6   64    5
D12V4, binary
          cls
clus        0  1
  subtype1 15 15
  subtype2 10 14
  subtype3 22 40
  subtype4 30 35
  subtype5 22 24
  subtype6 32 37
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15   15
  subtype2   10   14
  subtype3   22   40
  subtype4   30   35
  subtype5   22   24
  subtype6   32   37
          vv
clus       COLON ADENOCARCINOMA COLON MUCINOUS ADENOCARCINOMA
  subtype1                   19                             2
  subtype2                   11                             1
  subtype3                   40                             1
  subtype4                   38                             8
  subtype5                   36                             1
  subtype6                   48                            16
          vv
clus       RECTAL ADENOCARCINOMA RECTAL MUCINOUS ADENOCARCINOMA
  subtype1                     9                              0
  subtype2                    11                              1
  subtype3                    20                              0
  subtype4                    18                              0
  subtype5                     9                              0
  subtype6                     4                              1
D12V5, multiclass
D12V6, binary
          cls
clus        0  1
  subtype1  0 30
  subtype2  1 23
  subtype3  3 59
  subtype4  3 62
  subtype5  0 46
  subtype6  0 69
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   30
  subtype2    1   23
  subtype3    3   59
  subtype4    3   62
  subtype5    0   46
  subtype6    0   69
          vv
clus       M0 M1 M1A M1B MX
  subtype1 21  3   0   0  6
  subtype2 12  6   1   0  4
  subtype3 47  3   1   0  9
  subtype4 43  7   2   0 11
  subtype5 30  3   2   0 11
  subtype6 52  5   1   1  9
D12V7, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 17  8   1   0   0  3   1   0  0
  subtype2  7  6   2   1   1  4   0   2  1
  subtype3 37 13   0   1   1  6   0   3  1
  subtype4 29 10   4   3   0  7   3   7  1
  subtype5 25  8   5   1   0  6   0   1  0
  subtype6 47  6   3   4   1  6   1   1  0
D12V8, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 19  0  0  4
  subtype2 10  0  2  0
  subtype3 25  1  0  2
  subtype4 42  0  0  3
  subtype5 35  1  1  5
  subtype6 43  0  1  9
D12V9, multiclass
D12V10, continuous
D12V11, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1       5        0        2         7         1         0         2
  subtype2       3        0        1         2         0         1         0
  subtype3       7        0        2        23         1         1         1
  subtype4       5        0        4        17         1         0         0
  subtype5       9        1        2        11         0         0         5
  subtype6      12        0        6        25         2         0         2
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          1          6          2        3         1         0
  subtype2          2          3          2        4         3         0
  subtype3          4          9          6        2         2         0
  subtype4          2         11         10        3         7         0
  subtype5          2          7          3        2         4         0
  subtype6          2          8          3        5         1         1
D12V12, multiclass
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
               "PRIMARY.SITE.OF.DISEASE" 
                                      V4 
                                "GENDER" 
                                      V5 
                     "HISTOLOGICAL.TYPE" 
                                      V6 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                      V7 
                    "DISTANT.METASTASIS" 
                                      V8 
                 "LYMPH.NODE.METASTASIS" 
                                      V9 
             "COMPLETENESS.OF.RESECTION" 
                                     V10 
                 "NUMBER.OF.LYMPH.NODES" 
                                     V11 
                       "TUMOR.STAGECODE" 
                                     V12 
                 "NEOPLASM.DISEASESTAGE" 
> q(save="no")
