
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/COAD-TP/3537824/COAD-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/COAD-TP/3350202/COAD-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=846, in cluster file=425, common to both=422
[1]  12 422
[1] "MRNA_CNMF"
[1] 3
 1  2  3  4 
38 61 30 24 
 1  2  3  4 
38 61 30 24 
[1] "MRNA_CHIERARCHICAL"
[1] 3
 1  2  3 
57 46 50 
 1  2  3 
57 46 50 
[1] "CN_CNMF"
[1] 3
  1   2   3   4 
170 187  32  24 
  1   2   3   4 
170 187  32  24 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3 
108  83  64 
  1   2   3 
108  83  64 
[1] "RPPA_CNMF"
[1] 3
  1   2   3   4 
 82 137  27  85 
  1   2   3   4 
 82 137  27  85 
[1] "RPPA_CHIERARCHICAL"
[1] 3
  1   2   3   4 
 29  57  64 181 
  1   2   3   4 
 29  57  64 181 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3  4 
31 60 47 54 
 1  2  3  4 
31 60 47 54 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
49 63 80 
 1  2  3 
49 63 80 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
182 163  62 
  1   2   3 
182 163  62 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
180  45 182 
  1   2   3 
180  45 182 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
 1  2  3 
77 79 65 
 1  2  3 
77 79 65 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
 1  2  3  4  5 
22 49 62 46 42 
 1  2  3  4  5 
22 49 62 46 42 
[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 422 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 
        1434         1611 
Variable 1:'AGE':	nDistinctValues=58,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=48,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=198,	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=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
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=13,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'HISTOLOGICAL.TYPE':	nDistinctValues=2,	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=22,	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=17,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "GENDER"                                
 [3] "HISTOLOGICAL.TYPE"                     
 [4] "RADIATIONS.RADIATION.REGIMENINDICATION"
 [5] "DISTANT.METASTASIS"                    
 [6] "LYMPH.NODE.METASTASIS"                 
 [7] "COMPLETENESS.OF.RESECTION"             
 [8] "NUMBER.OF.LYMPH.NODES"                 
 [9] "TUMOR.STAGECODE"                       
[10] "NEOPLASM.DISEASESTAGE"                 
[1] "TUMOR.?STAGE" "9"           
[1] "stage2"
vv
 T0  T1  T2  T3  T4 T4A T4B TIS 
  1  10  73 290  26  14   7   1 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 422 columns, 1 survival variables, and 10 non-survival variables.
AGE, nv=58, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL.TYPE, nv=2, 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=22, 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 23  1
  subtype2 21  6
  subtype3 13  3
  subtype4  7  1
subtype1 subtype2 subtype3 subtype4 
      24       27       16        8 
subtype1 subtype2 subtype3 subtype4 
       1        6        3        1 
$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-3555 TCGA-AA-3710 TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3842 TCGA-AA-3877 
        0.99         1.02         0.99         0.99         1.02         0.99 
TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3966 TCGA-AA-3977 TCGA-AA-A00A 
        0.99         0.99         1.02         2.01         1.02        18.02 
TCGA-AA-A00D TCGA-AA-A00E TCGA-AA-A00J TCGA-AA-A00R TCGA-AA-A01D TCGA-AA-A02R 
       19.00        30.02        18.02         0.99         0.99        22.03 

$subtype2
TCGA-A6-2677 TCGA-A6-2678 TCGA-A6-2683 TCGA-A6-3807 TCGA-AA-3562 TCGA-AA-3666 
       17.79        14.37        15.52        10.92         1.02         2.01 
TCGA-AA-3679 TCGA-AA-3837 TCGA-AA-3848 TCGA-AA-3952 TCGA-AA-3975 TCGA-AA-A00F 
        0.99         1.02         0.99         2.01         0.99        34.03 
TCGA-AA-A00L TCGA-AA-A00O TCGA-AA-A00Q TCGA-AA-A00W TCGA-AA-A00Z TCGA-AA-A017 
       17.00        27.02        27.02        14.99        21.99        15.02 
TCGA-AA-A01C TCGA-AA-A01F TCGA-AA-A01K TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H 
       15.02        13.02        13.02         2.93        39.95         2.01 
TCGA-AA-A02J TCGA-AA-A02W TCGA-AY-4070 
        5.03        40.96        16.31 

$subtype3
TCGA-AA-3518 TCGA-AA-3526 TCGA-AA-3675 TCGA-AA-3818 TCGA-AA-3854 TCGA-AA-3941 
        1.02         0.99         1.02         0.99         1.02         1.02 
TCGA-AA-A004 TCGA-AA-A00K TCGA-AA-A00N TCGA-AA-A00U TCGA-AA-A010 TCGA-AA-A01G 
       13.94        18.02         4.01        17.00        20.98        12.00 
TCGA-AA-A01I TCGA-AA-A01Q TCGA-AA-A024 TCGA-AA-A029 
       12.00         1.02        39.06        51.95 

$subtype4
TCGA-AA-3685 TCGA-AA-3844 TCGA-AA-3846 TCGA-AA-3856 TCGA-AA-3862 TCGA-AA-3939 
        0.99         0.92         0.99         0.99         1.02         0.99 
TCGA-AA-3986 TCGA-AY-4071 
        0.99         0.95 

subtype1 subtype2 subtype3 subtype4 
    0.99     0.99     0.99     0.92 
subtype1 subtype2 subtype3 subtype4 
   30.02    40.96    51.95     1.02 
subtype1 subtype2 subtype3 subtype4 
   1.515   14.370    8.005    0.990 
[1] "1.0 - 30.0 (1.5)"  "1.0 - 41.0 (14.4)" "1.0 - 52.0 (8.0)" 
[4] "0.9 - 1.0 (1.0)"  
 [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[13] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
[19] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[25] "subtype4" "subtype4" "subtype2" "subtype3" "subtype4" "subtype4"
[31] "subtype1" "subtype4" "subtype3" "subtype1" "subtype1" "subtype1"
[37] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype3"
[43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[61] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[67] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[73] "subtype2" "subtype2" "subtype4"
 [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[13] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
[19] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[25] "subtype4" "subtype4" "subtype2" "subtype3" "subtype4" "subtype4"
[31] "subtype1" "subtype4" "subtype3" "subtype1" "subtype1" "subtype1"
[37] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype3"
[43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[61] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[67] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[73] "subtype2" "subtype2" "subtype4"
 [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[13] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
[19] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[25] "subtype4" "subtype4" "subtype2" "subtype3" "subtype4" "subtype4"
[31] "subtype1" "subtype4" "subtype3" "subtype1" "subtype1" "subtype1"
[37] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype3"
[43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[61] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[67] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[73] "subtype2" "subtype2" "subtype4"
D1V2, continuous
D1V3, binary
          cls
clus        0  1
  subtype1 25 13
  subtype2 31 30
  subtype3 10 20
  subtype4  9 15
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   25   13
  subtype2   31   30
  subtype3   10   20
  subtype4    9   15
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       25       31       10        9
  MALE         13       30       20       15
D1V4, binary
          cls
clus        0  1
  subtype1 23 15
  subtype2 60  1
  subtype3 22  7
  subtype4 22  1
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   23   15
  subtype2   60    1
  subtype3   22    7
  subtype4   22    1
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA                23       60       22       22
  COLON MUCINOUS ADENOCARCINOMA       15        1        7        1
D1V5, binary
          cls
clus        0
  subtype1 38
  subtype2 61
  subtype3 30
  subtype4 24
[1] "NOT AVAILABLE: table only has an event [0]"
          vv
clus       M0 M1 M1A
  subtype1 32  5   0
  subtype2 47 14   0
  subtype3 28  1   1
  subtype4 22  1   0
D1V6, multiclass
          vv
clus       N0 N1 N1B N2 N2A
  subtype1 25  5   0  8   0
  subtype2 27 15   0 18   1
  subtype3 24  4   1  1   0
  subtype4 18  3   0  3   0
D1V7, multiclass
          vv
clus       R0 R1 R2
  subtype1 32  0  3
  subtype2 47  1 13
  subtype3 28  0  2
  subtype4 21  0  1
D1V8, multiclass
D1V9, continuous
D1V10, continuous
          vv
clus       STAGE I STAGE II STAGE IIA STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  subtype1       6        1        14         3         3          1          3
  subtype2      11        2        12         0         2          2          5
  subtype3       7        6         9         2         1          0          3
  subtype4       5        3        10         0         2          0          1
          vv
clus       STAGE IIIC STAGE IV STAGE IVA
  subtype1          1        5         0
  subtype2         13       14         0
  subtype3          0        1         1
  subtype4          2        1         0
D1V11, multiclass

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1 26  7
  subtype2 26  2
  subtype3 12  2
subtype1 subtype2 subtype3 
      33       28       14 
subtype1 subtype2 subtype3 
       7        2        2 
$subtype1
TCGA-A6-2677 TCGA-A6-2683 TCGA-AA-3666 TCGA-AA-3675 TCGA-AA-3818 TCGA-AA-3837 
       17.79        15.52         2.01         1.02         0.99         1.02 
TCGA-AA-3844 TCGA-AA-3848 TCGA-AA-3939 TCGA-AA-3941 TCGA-AA-A004 TCGA-AA-A00K 
        0.92         0.99         0.99         1.02        13.94        18.02 
TCGA-AA-A00L TCGA-AA-A00O TCGA-AA-A00Q TCGA-AA-A00U TCGA-AA-A00W TCGA-AA-A00Z 
       17.00        27.02        27.02        17.00        14.99        21.99 
TCGA-AA-A010 TCGA-AA-A017 TCGA-AA-A01C TCGA-AA-A01F TCGA-AA-A01G TCGA-AA-A01I 
       20.98        15.02        15.02        13.02        12.00        12.00 
TCGA-AA-A01K TCGA-AA-A024 TCGA-AA-A029 TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H 
       13.02        39.06        51.95         2.93        39.95         2.01 
TCGA-AA-A02J TCGA-AA-A02W TCGA-AY-4070 
        5.03        40.96        16.31 

$subtype2
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-3710 TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3842 
        0.99         0.99         1.02         0.99         0.99         1.02 
TCGA-AA-3854 TCGA-AA-3877 TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3966 
        1.02         0.99         0.99         0.99         1.02         2.01 
TCGA-AA-3977 TCGA-AA-A00A TCGA-AA-A00D TCGA-AA-A00E TCGA-AA-A00J TCGA-AA-A00N 
        1.02        18.02        19.00        30.02        18.02         4.01 
TCGA-AA-A00R TCGA-AA-A01D TCGA-AA-A01Q TCGA-AA-A02R 
        0.99         0.99         1.02        22.03 

$subtype3
TCGA-A6-2678 TCGA-A6-3807 TCGA-A6-3810 TCGA-AA-3562 TCGA-AA-3679 TCGA-AA-3685 
       14.37        10.92         8.09         1.02         0.99         0.99 
TCGA-AA-3846 TCGA-AA-3856 TCGA-AA-3862 TCGA-AA-3952 TCGA-AA-3975 TCGA-AA-3986 
        0.99         0.99         1.02         2.01         0.99         0.99 
TCGA-AA-A00F TCGA-AY-4071 
       34.03         0.95 

subtype1 subtype2 subtype3 
    0.92     0.99     0.95 
subtype1 subtype2 subtype3 
   51.95    30.02    34.03 
subtype1 subtype2 subtype3 
  14.990    1.020    1.005 
[1] "0.9 - 52.0 (15.0)" "1.0 - 30.0 (1.0)"  "0.9 - 34.0 (1.0)" 
 [1] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [7] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[13] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[25] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[31] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[43] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[73] "subtype1" "subtype1" "subtype3"
 [1] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [7] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[13] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[25] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[31] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[43] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[73] "subtype1" "subtype1" "subtype3"
 [1] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [7] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[13] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[25] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[31] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[43] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[73] "subtype1" "subtype1" "subtype3"
D2V2, continuous
D2V3, binary
          cls
clus        0  1
  subtype1 28 29
  subtype2 27 19
  subtype3 20 30
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   28   29
  subtype2   27   19
  subtype3   20   30
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       28       27       20
  MALE         29       19       30
D2V4, binary
          cls
clus        0  1
  subtype1 54  3
  subtype2 25 20
  subtype3 48  1
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   54    3
  subtype2   25   20
  subtype3   48    1
                               clus
vv                              subtype1 subtype2 subtype3
  COLON ADENOCARCINOMA                54       25       48
  COLON MUCINOUS ADENOCARCINOMA        3       20        1
D2V5, binary
          cls
clus        0
  subtype1 57
  subtype2 46
  subtype3 50
[1] "NOT AVAILABLE: table only has an event [0]"
          vv
clus       M0 M1 M1A
  subtype1 48  8   1
  subtype2 40  5   0
  subtype3 41  8   0
D2V6, multiclass
          vv
clus       N0 N1 N1B N2 N2A
  subtype1 33 12   1 11   0
  subtype2 31  7   0  8   0
  subtype3 30  8   0 11   1
D2V7, multiclass
          vv
clus       R0 R1 R2
  subtype1 48  1  8
  subtype2 40  0  3
  subtype3 40  0  8
D2V8, multiclass
D2V9, continuous
D2V10, continuous
          vv
clus       STAGE I STAGE II STAGE IIA STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  subtype1       7        7        16         1         3          2          3
  subtype2       9        3        14         4         3          1          5
  subtype3      13        2        15         0         2          0          4
          vv
clus       STAGE IIIC STAGE IV STAGE IVA
  subtype1          9        8         1
  subtype2          1        5         0
  subtype3          6        8         0
D2V11, multiclass

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2        0   1
  subtype1 106  23
  subtype2 130  19
  subtype3  19   4
  subtype4  17   3
subtype1 subtype2 subtype3 subtype4 
     129      149       23       20 
subtype1 subtype2 subtype3 subtype4 
      23       19        4        3 
$subtype1
TCGA-A6-2670 TCGA-A6-2671 TCGA-A6-2675 TCGA-A6-2677 TCGA-A6-2678 TCGA-A6-2679 
       13.91        21.30        16.93        17.79        14.37        19.56 
TCGA-A6-2680 TCGA-A6-2681 TCGA-A6-2683 TCGA-A6-3807 TCGA-A6-3810 TCGA-A6-4105 
       17.16        18.15        15.52        10.92         8.09        14.50 
TCGA-A6-5656 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5662 TCGA-A6-5666 TCGA-A6-5667 
       15.19         9.40        11.24         9.76         8.02        10.52 
TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6142 TCGA-A6-6650 TCGA-A6-6652 TCGA-A6-6654 
        5.95         4.08         4.37         5.65         4.41         5.82 
TCGA-A6-6782 TCGA-AA-3488 TCGA-AA-3496 TCGA-AA-3562 TCGA-AA-3666 TCGA-AA-3679 
        5.39         5.00         1.02         1.02         2.01         0.99 
TCGA-AA-3685 TCGA-AA-3697 TCGA-AA-3842 TCGA-AA-3844 TCGA-AA-3846 TCGA-AA-3848 
        0.99         0.95         1.02         0.92         0.99         0.99 
TCGA-AA-3856 TCGA-AA-3975 TCGA-AA-A00D TCGA-AA-A00F TCGA-AA-A00L TCGA-AA-A00Q 
        0.99         0.99        19.00        34.03        17.00        27.02 
TCGA-AA-A00U TCGA-AA-A00W TCGA-AA-A017 TCGA-AA-A01C TCGA-AA-A01F TCGA-AA-A01G 
       17.00        14.99        15.02        15.02        13.02        12.00 
TCGA-AA-A01K TCGA-AA-A01S TCGA-AA-A01T TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H 
       13.02         1.02        33.04         2.93        39.95         2.01 
TCGA-AA-A02W TCGA-AA-A03J TCGA-AD-6888 TCGA-AD-6901 TCGA-AD-6963 TCGA-AD-6965 
       40.96        40.93         4.21         1.02         0.10         0.20 
TCGA-AU-3779 TCGA-AY-4070 TCGA-AY-4071 TCGA-AY-5543 TCGA-AZ-4308 TCGA-AZ-4682 
       14.47        16.31         0.95         7.56        56.35        22.36 
TCGA-AZ-4684 TCGA-AZ-5403 TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6606 TCGA-AZ-6608 
       56.05        62.79        29.56         5.23        11.74         1.94 
TCGA-CA-6715 TCGA-CK-5912 TCGA-CK-5914 TCGA-CK-6748 TCGA-CM-4750 TCGA-CM-4752 
        0.07        48.03        21.99         2.01         8.02         4.04 
TCGA-CM-5344 TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-5862 TCGA-CM-5868 TCGA-CM-6163 
        9.99        11.01         9.99         5.03         9.99         2.96 
TCGA-CM-6164 TCGA-CM-6166 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6172 TCGA-CM-6679 
       16.01        13.94         7.99         7.96         6.94         4.01 
TCGA-D5-5538 TCGA-D5-5539 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6533 
        6.71         0.99         6.51         6.64         3.52         1.32 
TCGA-D5-6535 TCGA-D5-6538 TCGA-D5-6898 TCGA-D5-6922 TCGA-D5-6926 TCGA-D5-6929 
        0.33         8.09         1.48         4.37         3.12         4.77 
TCGA-D5-6932 TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D6 TCGA-DM-A1HA 
        0.62        38.20       119.05        92.75        49.91       129.11 
TCGA-DM-A285 TCGA-DM-A288 TCGA-DM-A28A TCGA-DM-A28E TCGA-DM-A28F TCGA-F4-6808 
        6.08        14.01        26.47       116.02        35.97         0.46 
TCGA-F4-6809 TCGA-F4-6854 TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 
        1.25         0.53        28.21         8.35        75.22        23.51 
TCGA-G4-6303 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6310 TCGA-G4-6311 TCGA-G4-6314 
       61.87        44.65        48.82        39.58        36.56        33.90 
TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6625 
       30.81        29.36        87.85 

$subtype2
TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-2682 TCGA-A6-2684 TCGA-A6-2685 
       16.54        17.19        14.70        13.94        12.72        15.25 
TCGA-A6-2686 TCGA-A6-5657 TCGA-A6-5661 TCGA-A6-5664 TCGA-A6-5665 TCGA-A6-6141 
       16.04        12.07        10.06        11.90         9.40         4.24 
TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 TCGA-AA-3489 
        4.80         8.15         2.96         2.83         5.19         1.02 
TCGA-AA-3502 TCGA-AA-3510 TCGA-AA-3518 TCGA-AA-3555 TCGA-AA-3663 TCGA-AA-3675 
        1.02         1.02         1.02         0.99         1.02         1.02 
TCGA-AA-3710 TCGA-AA-3713 TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3818 TCGA-AA-3837 
        1.02         0.95         0.99         0.99         0.99         1.02 
TCGA-AA-3854 TCGA-AA-3877 TCGA-AA-3939 TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 
        1.02         0.99         0.99         0.99         0.99         1.02 
TCGA-AA-3952 TCGA-AA-3966 TCGA-AA-3977 TCGA-AA-3986 TCGA-AA-A00A TCGA-AA-A00E 
        2.01         2.01         1.02         0.99        18.02        30.02 
TCGA-AA-A00J TCGA-AA-A00N TCGA-AA-A00O TCGA-AA-A00R TCGA-AA-A010 TCGA-AA-A01D 
       18.02         4.01        27.02         0.99        20.98         0.99 
TCGA-AA-A01I TCGA-AA-A01P TCGA-AA-A01Q TCGA-AA-A01R TCGA-AA-A01V TCGA-AA-A024 
       12.00        38.07         1.02        35.01        35.01        39.06 
TCGA-AA-A02R TCGA-AA-A02Y TCGA-AA-A03F TCGA-AD-5900 TCGA-AD-6548 TCGA-AD-6889 
       22.03        39.95        18.02         0.07         0.10        56.52 
TCGA-AD-6890 TCGA-AD-6895 TCGA-AD-6964 TCGA-AM-5820 TCGA-AM-5821 TCGA-AU-6004 
        0.79         0.72         0.99         0.46         0.92         6.67 
TCGA-AY-6196 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4323 
        0.20         3.68         5.52        31.46        43.86         1.41 
TCGA-AZ-4615 TCGA-AZ-4616 TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6600 
       16.60         5.13        45.86        49.41         6.74        12.10 
TCGA-AZ-6601 TCGA-CA-5255 TCGA-CA-5796 TCGA-CA-6717 TCGA-CA-6718 TCGA-CK-4947 
       99.98         0.07         0.39         0.33         0.10        17.52 
TCGA-CK-4948 TCGA-CK-4950 TCGA-CK-4951 TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-5916 
      102.44        40.31        49.02        15.58        28.04        21.01 
TCGA-CK-6747 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4744 TCGA-CM-4746 TCGA-CM-4748 
        2.93       103.04         6.05         7.04        22.98         7.04 
TCGA-CM-4751 TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-6162 TCGA-CM-6167 TCGA-CM-6168 
       19.96        11.01         9.99         6.97         4.01         5.95 
TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6675 TCGA-CM-6678 TCGA-CM-6680 TCGA-D5-6529 
        5.95         4.90         5.00         4.01         2.99         8.55 
TCGA-D5-6530 TCGA-D5-6531 TCGA-D5-6534 TCGA-D5-6536 TCGA-D5-6539 TCGA-D5-6540 
        8.91         0.56         7.92         9.44         4.73         6.12 
TCGA-D5-6541 TCGA-D5-6920 TCGA-D5-6924 TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6930 
        3.55         3.65         2.89         2.20         0.66         1.48 
TCGA-D5-6931 TCGA-D5-7000 TCGA-DM-A0XD TCGA-DM-A1D9 TCGA-DM-A1HB TCGA-DM-A280 
        1.41         1.35        24.43       129.11       124.08         7.73 
TCGA-DM-A28C TCGA-DM-A28G TCGA-DM-A28K TCGA-DM-A28M TCGA-F4-6703 TCGA-F4-6704 
       81.37        60.79        93.21        91.20         1.84         1.51 
TCGA-F4-6805 TCGA-F4-6806 TCGA-F4-6807 TCGA-F4-6856 TCGA-G4-6293 TCGA-G4-6299 
        0.53         0.66         0.53         0.66       105.30        68.28 
TCGA-G4-6302 TCGA-G4-6304 TCGA-G4-6309 TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6322 
       43.04        53.62        45.57        22.29        18.77        17.95 
TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6627 TCGA-G4-6628 
        6.61        24.36        21.17        47.15        52.96 

$subtype3
TCGA-A6-4107 TCGA-AA-3494 TCGA-AA-3941 TCGA-AA-A004 TCGA-AA-A00Z TCGA-AA-A01X 
        7.59         1.02         1.02        13.94        21.99        26.01 
TCGA-AA-A029 TCGA-AA-A02J TCGA-AZ-6607 TCGA-CA-5797 TCGA-CA-6716 TCGA-CA-6719 
       51.95         5.03         3.19         0.26         0.26         1.35 
TCGA-CM-4747 TCGA-CM-5341 TCGA-CM-5864 TCGA-CM-6161 TCGA-CM-6165 TCGA-CM-6677 
        8.02         6.02         2.01         6.97         6.97         5.00 
TCGA-D5-5537 TCGA-DM-A1D8 TCGA-DM-A282 TCGA-F4-6855 TCGA-G4-6626 
       14.99        12.59       135.52         1.38        46.75 

$subtype4
TCGA-A6-6137 TCGA-A6-6648 TCGA-AA-3495 TCGA-AA-3526 TCGA-AA-3660 TCGA-AA-A00K 
        6.41         8.32         1.02         0.99         1.02        18.02 
TCGA-AA-A01Z TCGA-AA-A02O TCGA-AD-6899 TCGA-AZ-4614 TCGA-AZ-4681 TCGA-CA-5254 
       20.98         0.92         1.55         5.65        71.67         0.16 
TCGA-CM-5348 TCGA-CM-6676 TCGA-D5-6537 TCGA-D5-6923 TCGA-DM-A0X9 TCGA-DM-A1DA 
       12.92         5.00         4.47         1.38       112.73         7.46 
TCGA-DM-A1DB TCGA-DM-A28H 
       44.32       112.50 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.07     0.26     0.16 
subtype1 subtype2 subtype3 subtype4 
  129.11   129.11   135.52   112.73 
subtype1 subtype2 subtype3 subtype4 
    9.99     6.61     6.97     6.03 
[1] "0.1 - 129.1 (10.0)" "0.1 - 129.1 (6.6)"  "0.3 - 135.5 (7.0)" 
[4] "0.2 - 112.7 (6.0)" 
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [19] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype1" "subtype2" "subtype1" "subtype4"
 [37] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [49] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype4"
 [55] "subtype2" "subtype1" "subtype4" "subtype2" "subtype1" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [73] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [91] "subtype1" "subtype2" "subtype4" "subtype1" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[103] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[115] "subtype2" "subtype3" "subtype4" "subtype2" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype1"
[127] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[157] "subtype2" "subtype4" "subtype1" "subtype1" "subtype1" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[175] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[181] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[187] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[199] "subtype2" "subtype1" "subtype3" "subtype1" "subtype4" "subtype1"
[205] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[211] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[217] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[223] "subtype2" "subtype2" "subtype4" "subtype3" "subtype2" "subtype1"
[229] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype2" "subtype4" "subtype1" "subtype2" "subtype2"
[247] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
[253] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[259] "subtype1" "subtype2" "subtype4" "subtype2" "subtype1" "subtype1"
[265] "subtype1" "subtype1" "subtype3" "subtype2" "subtype4" "subtype4"
[271] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[277] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[295] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[301] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[307] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[319] "subtype3" "subtype2" "subtype2"
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [19] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype1" "subtype2" "subtype1" "subtype4"
 [37] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [49] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype4"
 [55] "subtype2" "subtype1" "subtype4" "subtype2" "subtype1" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [73] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [91] "subtype1" "subtype2" "subtype4" "subtype1" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[103] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[115] "subtype2" "subtype3" "subtype4" "subtype2" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype1"
[127] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[157] "subtype2" "subtype4" "subtype1" "subtype1" "subtype1" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[175] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[181] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[187] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[199] "subtype2" "subtype1" "subtype3" "subtype1" "subtype4" "subtype1"
[205] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[211] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[217] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[223] "subtype2" "subtype2" "subtype4" "subtype3" "subtype2" "subtype1"
[229] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype2" "subtype4" "subtype1" "subtype2" "subtype2"
[247] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
[253] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[259] "subtype1" "subtype2" "subtype4" "subtype2" "subtype1" "subtype1"
[265] "subtype1" "subtype1" "subtype3" "subtype2" "subtype4" "subtype4"
[271] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[277] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[295] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[301] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[307] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[319] "subtype3" "subtype2" "subtype2"
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [19] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype1" "subtype2" "subtype1" "subtype4"
 [37] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [49] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype4"
 [55] "subtype2" "subtype1" "subtype4" "subtype2" "subtype1" "subtype2"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [73] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [91] "subtype1" "subtype2" "subtype4" "subtype1" "subtype2" "subtype2"
 [97] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[103] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[115] "subtype2" "subtype3" "subtype4" "subtype2" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype1"
[127] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[157] "subtype2" "subtype4" "subtype1" "subtype1" "subtype1" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype4" "subtype2" "subtype2"
[175] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[181] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[187] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[199] "subtype2" "subtype1" "subtype3" "subtype1" "subtype4" "subtype1"
[205] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[211] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[217] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[223] "subtype2" "subtype2" "subtype4" "subtype3" "subtype2" "subtype1"
[229] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype2" "subtype4" "subtype1" "subtype2" "subtype2"
[247] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
[253] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[259] "subtype1" "subtype2" "subtype4" "subtype2" "subtype1" "subtype1"
[265] "subtype1" "subtype1" "subtype3" "subtype2" "subtype4" "subtype4"
[271] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[277] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[295] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[301] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[307] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[319] "subtype3" "subtype2" "subtype2"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1 77 93
  subtype2 92 95
  subtype3 16 16
  subtype4  7 17
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   77   93
  subtype2   92   95
  subtype3   16   16
  subtype4    7   17
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       77       92       16        7
  MALE         93       95       16       17
D3V4, binary
          cls
clus         0   1
  subtype1 162   7
  subtype2 141  45
  subtype3  31   1
  subtype4  23   1
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  162    7
  subtype2  141   45
  subtype3   31    1
  subtype4   23    1
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA               162      141       31       23
  COLON MUCINOUS ADENOCARCINOMA        7       45        1        1
D3V5, binary
          cls
clus         0   1
  subtype1   3 167
  subtype2   0 187
  subtype3   0  32
  subtype4   0  24
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3  167
  subtype2    0  187
  subtype3    0   32
  subtype4    0   24
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         3        0        0        0
  YES      167      187       32       24
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 119  32   3   0  14
  subtype2 153  10   1   1  18
  subtype3  21   6   2   0   2
  subtype4  20   1   1   0   2
D3V6, multiclass
          vv
clus        N0  N1 N1A N1B N1C  N2 N2A N2B  NX
  subtype1  78  44   7   3   0  32   2   2   1
  subtype2 130  20   3   6   1  19   2   6   0
  subtype3  20   3   1   3   0   5   0   0   0
  subtype4  16   2   2   0   1   2   0   1   0
D3V7, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1 117   1  14   5
  subtype2 139   2   4  11
  subtype3  18   0   5   5
  subtype4  15   0   1   1
D3V8, multiclass
D3V9, continuous
D3V10, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      22        0        7        39         2         1         9
  subtype2      36        1       18        63         6         0        10
  subtype3       4        0        3        10         0         0         2
  subtype4       6        0        5         4         0         0         1
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          8         26         17       25         9         0
  subtype2          3         18         13        9         3         1
  subtype3          2          0          1        6         2         0
  subtype4          0          3          3        0         2         0
D3V11, multiclass

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 83 15
  subtype2 66 12
  subtype3 53  9
subtype1 subtype2 subtype3 
      98       78       62 
subtype1 subtype2 subtype3 
      15       12        9 
$subtype1
TCGA-A6-2671 TCGA-A6-2675 TCGA-A6-2680 TCGA-A6-2684 TCGA-A6-5656 TCGA-A6-5660 
       21.30        16.93        17.16        12.72        15.19        11.24 
TCGA-A6-5662 TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6138 TCGA-A6-6140 
        9.76         8.02        10.52         6.41         5.95         4.08 
TCGA-A6-6648 TCGA-A6-6650 TCGA-A6-6652 TCGA-A6-6781 TCGA-A6-6782 TCGA-AA-3488 
        8.32         5.65         4.41         5.19         5.39         5.00 
TCGA-AA-3494 TCGA-AA-3495 TCGA-AA-3496 TCGA-AA-3660 TCGA-AA-3697 TCGA-AD-6888 
        1.02         1.02         1.02         1.02         0.95         4.21 
TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6964 TCGA-AM-5820 TCGA-AU-3779 
        0.72         1.55         1.02         0.99         0.46        14.47 
TCGA-AY-5543 TCGA-AZ-4308 TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-6603 
        7.56        56.35        71.67        22.36        56.05        29.56 
TCGA-AZ-6608 TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6719 TCGA-CK-5912 TCGA-CK-5914 
        1.94         0.07         0.26         1.35        48.03        21.99 
TCGA-CK-6748 TCGA-CM-4746 TCGA-CM-4750 TCGA-CM-5341 TCGA-CM-5344 TCGA-CM-5349 
        2.01        22.98         8.02         6.02         9.99        11.01 
TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6163 TCGA-CM-6165 
        5.03         2.01         9.99         6.97         2.96         6.97 
TCGA-CM-6166 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6172 TCGA-CM-6676 TCGA-CM-6678 
       13.94         7.99         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-D5-6537 TCGA-D5-6541 TCGA-D5-6922 TCGA-D5-6929 TCGA-DM-A0XF TCGA-DM-A1D0 
        4.47         3.55         4.37         4.77        38.20       119.05 
TCGA-DM-A1D6 TCGA-DM-A1D9 TCGA-DM-A1DB TCGA-DM-A282 TCGA-DM-A28A TCGA-DM-A28C 
       49.91       129.11        44.32       135.52        26.47        81.37 
TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28H TCGA-F4-6808 TCGA-F4-6854 
      116.02        35.97        60.79       112.50         0.46         0.53 
TCGA-F4-6855 TCGA-F4-6856 TCGA-G4-6294 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6303 
        1.38         0.66        28.21        75.22        23.51        61.87 
TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6310 TCGA-G4-6311 TCGA-G4-6314 TCGA-G4-6315 
       44.65        48.82        39.58        36.56        33.90        30.81 
TCGA-G4-6317 TCGA-G4-6626 
       29.36        46.75 

$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-A6-6649 TCGA-A6-6653 TCGA-A6-6780 
        9.40        10.06         9.40         4.80         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-5407 
        0.92         3.68         5.52         5.65        16.60        45.86 
TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6606 TCGA-CA-5254 TCGA-CA-5796 TCGA-CK-4947 
       49.41         6.74        11.74         0.16         0.39        17.52 
TCGA-CK-4950 TCGA-CK-4951 TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-5916 TCGA-CK-6747 
       40.31        49.02        15.58        28.04        21.01         2.93 
TCGA-CK-6751 TCGA-CM-4744 TCGA-CM-4747 TCGA-CM-4751 TCGA-CM-5860 TCGA-CM-5861 
      103.04         7.04         8.02        19.96         9.99        11.01 
TCGA-CM-6171 TCGA-CM-6675 TCGA-CM-6677 TCGA-CM-6680 TCGA-D5-5538 TCGA-D5-5539 
        5.95         5.00         5.00         2.99         6.71         0.99 
TCGA-D5-6531 TCGA-D5-6535 TCGA-D5-6538 TCGA-D5-6540 TCGA-D5-6920 TCGA-D5-6923 
        0.56         0.33         8.09         6.12         3.65         1.38 
TCGA-D5-6927 TCGA-D5-6931 TCGA-D5-7000 TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A1D4 
        2.20         1.41         1.35       112.73        24.43        92.75 
TCGA-DM-A1D8 TCGA-DM-A1DA TCGA-DM-A1HA TCGA-DM-A1HB TCGA-DM-A285 TCGA-DM-A288 
       12.59         7.46       129.11       124.08         6.08        14.01 
TCGA-DM-A28K TCGA-DM-A28M TCGA-F4-6806 TCGA-G4-6293 TCGA-G4-6299 TCGA-G4-6320 
       93.21        91.20         0.66       105.30        68.28        22.29 
TCGA-G4-6321 TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6628 
       18.77        17.95         6.61        24.36        21.17        52.96 

$subtype3
TCGA-A6-2682 TCGA-A6-2685 TCGA-A6-5657 TCGA-A6-5664 TCGA-A6-6141 TCGA-A6-6142 
       13.94        15.25        12.07        11.90         4.24         4.37 
TCGA-A6-6651 TCGA-A6-6654 TCGA-AA-3489 TCGA-AA-3510 TCGA-AD-6889 TCGA-AD-6963 
        8.15         5.82         1.02         1.02        56.52         0.10 
TCGA-AD-6965 TCGA-AU-6004 TCGA-AY-6196 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4323 
        0.20         6.67         0.20        31.46        43.86         1.41 
TCGA-AZ-4616 TCGA-AZ-5403 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6605 TCGA-AZ-6607 
        5.13        62.79        12.10        99.98         5.23         3.19 
TCGA-CA-5255 TCGA-CA-5797 TCGA-CA-6717 TCGA-CA-6718 TCGA-CK-4948 TCGA-CM-4743 
        0.07         0.26         0.33         0.10       102.44         6.05 
TCGA-CM-4748 TCGA-CM-4752 TCGA-CM-5348 TCGA-CM-5863 TCGA-CM-6162 TCGA-CM-6164 
        7.04         4.04        12.92         9.99         6.97        16.01 
TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6674 TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6534 
        4.01         5.95         4.90         8.55         8.91         7.92 
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-G4-6295 TCGA-G4-6302 TCGA-G4-6304 TCGA-G4-6309 
        0.53         1.25         8.35        43.04        53.62        45.57 
TCGA-G4-6625 TCGA-G4-6627 
       87.85        47.15 

subtype1 subtype2 subtype3 
    0.07     0.07     0.07 
subtype1 subtype2 subtype3 
  135.52   129.11   102.44 
subtype1 subtype2 subtype3 
   8.005    8.745    5.885 
[1] "0.1 - 135.5 (8.0)" "0.1 - 129.1 (8.7)" "0.1 - 102.4 (5.9)"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
  [7] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [31] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [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" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [85] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[133] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[139] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[157] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[163] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[187] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[193] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[205] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype1" "subtype3" "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"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
  [7] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [31] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [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" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [85] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[133] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[139] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[157] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[163] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[187] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[193] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[205] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype1" "subtype3" "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"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
  [7] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [31] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [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" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [85] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[109] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[133] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[139] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[151] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[157] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
[163] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[175] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[187] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[193] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[199] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[205] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[211] "subtype1" "subtype2" "subtype1" "subtype3" "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"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 43 65
  subtype2 45 38
  subtype3 26 38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   43   65
  subtype2   45   38
  subtype3   26   38
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       43       45       26
  MALE         65       38       38
D4V4, binary
          cls
clus         0   1
  subtype1 101   7
  subtype2  70  13
  subtype3  54  10
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  101    7
  subtype2   70   13
  subtype3   54   10
                               clus
vv                              subtype1 subtype2 subtype3
  COLON ADENOCARCINOMA               101       70       54
  COLON MUCINOUS ADENOCARCINOMA        7       13       10
D4V5, binary
          cls
clus         0   1
  subtype1   2 106
  subtype2   0  83
  subtype3   1  63
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2  106
  subtype2    0   83
  subtype3    1   63
     clus
vv    subtype1 subtype2 subtype3
  NO         2        0        1
  YES      106       83       63
          vv
clus       M0 M1 M1A M1B MX
  subtype1 70 17   4   0 16
  subtype2 60  4   1   1 14
  subtype3 50  6   1   0  6
D4V6, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 60 16   9   3   2 12   1   3  1
  subtype2 52 13   1   5   0 10   1   1  0
  subtype3 39 10   3   3   0  3   1   5  0
D4V7, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 66  0  3  8
  subtype2 49  2  1 10
  subtype3 42  0  0  3
D4V8, multiclass
D4V9, continuous
D4V10, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      15        0        7        28         1         1         4
  subtype2      17        1        4        25         2         0         4
  subtype3       5        0        8        22         1         0         0
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          5         15          7       10        10         0
  subtype2          2         11          6        3         3         1
  subtype3          3         10          5        5         2         0
D4V11, multiclass

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 62  5
  subtype2 88 17
  subtype3 18  2
  subtype4 59 16
subtype1 subtype2 subtype3 subtype4 
      67      105       20       75 
subtype1 subtype2 subtype3 subtype4 
       5       17        2       16 
$subtype1
TCGA-A6-2671 TCGA-A6-2677 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-2686 TCGA-A6-3808 
       21.30        17.79        12.72        15.25        16.04         9.14 
TCGA-A6-3810 TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5660 TCGA-A6-6141 TCGA-A6-6142 
        8.09        15.19        12.07        11.24         4.24         4.37 
TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6782 TCGA-AA-3489 TCGA-AA-3562 TCGA-AA-3715 
        4.80         8.15         5.39         1.02         1.02         0.99 
TCGA-AA-3818 TCGA-AA-3837 TCGA-AA-3856 TCGA-AA-3947 TCGA-AA-3975 TCGA-AA-3986 
        0.99         1.02         0.99         0.99         0.99         0.99 
TCGA-AA-A00J TCGA-AA-A00K TCGA-AA-A02R TCGA-AA-A02W TCGA-AD-5900 TCGA-AM-5820 
       18.02        18.02        22.03        40.96         0.07         0.46 
TCGA-AU-6004 TCGA-AY-6196 TCGA-AY-6386 TCGA-AZ-4308 TCGA-AZ-4615 TCGA-AZ-6607 
        6.67         0.20         5.52        56.35        16.60         3.19 
TCGA-CA-5255 TCGA-CA-5797 TCGA-CA-6717 TCGA-CA-6719 TCGA-CK-6748 TCGA-CM-4747 
        0.07         0.26         0.33         1.35         2.01         8.02 
TCGA-CM-4748 TCGA-CM-5341 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5868 TCGA-CM-6162 
        7.04         6.02        12.92        11.01         9.99         6.97 
TCGA-CM-6167 TCGA-CM-6677 TCGA-D5-5538 TCGA-D5-6534 TCGA-D5-6922 TCGA-D5-6926 
        4.01         5.00         6.71         7.92         4.37         3.12 
TCGA-DM-A1D0 TCGA-DM-A280 TCGA-DM-A28A TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6809 
      119.05         7.73        26.47         1.51         0.53         1.25 
TCGA-F4-6854 TCGA-F4-6856 TCGA-G4-6299 TCGA-G4-6302 TCGA-G4-6310 TCGA-G4-6314 
        0.53         0.66        68.28        43.04        39.58        33.90 
TCGA-G4-6625 
       87.85 

$subtype2
TCGA-A6-2672 TCGA-A6-2676 TCGA-A6-2678 TCGA-A6-2680 TCGA-A6-2683 TCGA-A6-3809 
       16.54        14.70        14.37        17.16        15.52        10.29 
TCGA-A6-5659 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5665 TCGA-A6-5666 TCGA-A6-5667 
        9.40         9.76        11.90         9.40         8.02        10.52 
TCGA-A6-6137 TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6650 TCGA-A6-6652 TCGA-A6-6654 
        6.41         5.95         4.08         5.65         4.41         5.82 
TCGA-AA-3496 TCGA-AA-3502 TCGA-AA-3510 TCGA-AA-3555 TCGA-AA-3697 TCGA-AA-3713 
        1.02         1.02         1.02         0.99         0.95         0.95 
TCGA-AA-3811 TCGA-AA-3844 TCGA-AA-3848 TCGA-AA-A00E TCGA-AA-A00Q TCGA-AA-A00U 
        0.99         0.92         0.99        30.02        27.02        17.00 
TCGA-AA-A00W TCGA-AA-A010 TCGA-AA-A01C TCGA-AA-A01I TCGA-AA-A01R TCGA-AA-A01S 
       14.99        20.98        15.02        12.00        35.01         1.02 
TCGA-AA-A01V TCGA-AA-A01X TCGA-AA-A024 TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H 
       35.01        26.01        39.06         2.93        39.95         2.01 
TCGA-AA-A02J TCGA-AA-A02O TCGA-AA-A02Y TCGA-AA-A03J TCGA-AD-6889 TCGA-AD-6899 
        5.03         0.92        39.95        40.93        56.52         1.55 
TCGA-AD-6965 TCGA-AY-6197 TCGA-AZ-4614 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-5407 
        0.20         3.68         5.65        22.36        56.05        45.86 
TCGA-AZ-6599 TCGA-AZ-6603 TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-5254 TCGA-CA-5796 
        6.74        29.56        11.74         1.94         0.16         0.39 
TCGA-CA-6715 TCGA-CA-6716 TCGA-CK-5914 TCGA-CK-6747 TCGA-CM-4746 TCGA-CM-5344 
        0.07         0.26        21.99         2.93        22.98         9.99 
TCGA-CM-5864 TCGA-CM-6161 TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6172 TCGA-CM-6675 
        2.01         6.97         6.97        13.94         6.94         5.00 
TCGA-CM-6676 TCGA-CM-6679 TCGA-CM-6680 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6532 
        5.00         4.01         2.99         6.51         6.64         3.52 
TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6920 TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6931 
        4.47         8.09         3.65         1.38         2.89         1.41 
TCGA-DM-A0X9 TCGA-DM-A1D6 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA 
      112.73        49.91       129.11         7.46        44.32       129.11 
TCGA-DM-A282 TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28M 
      135.52        81.37       116.02        35.97        60.79        91.20 
TCGA-F4-6806 TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6303 TCGA-G4-6309 
        0.66        28.21         8.35        75.22        61.87        45.57 
TCGA-G4-6315 TCGA-G4-6320 TCGA-G4-6322 
       30.81        22.29        17.95 

$subtype3
TCGA-A6-2681 TCGA-AA-3854 TCGA-AA-A004 TCGA-AA-A00F TCGA-AA-A00L TCGA-AA-A00Z 
       18.15         1.02        13.94        34.03        17.00        21.99 
TCGA-AA-A017 TCGA-AA-A01D TCGA-AA-A01F TCGA-AA-A01P TCGA-AA-A01T TCGA-AA-A029 
       15.02         0.99        13.02        38.07        33.04        51.95 
TCGA-AA-A02K TCGA-AY-5543 TCGA-CM-5863 TCGA-CM-6164 TCGA-D5-6531 TCGA-D5-6898 
       13.97         7.56         9.99        16.01         0.56         1.48 
TCGA-F4-6855 TCGA-G4-6323 
        1.38         6.61 

$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-3710 TCGA-AA-3862 TCGA-AA-3950 TCGA-AA-A00A TCGA-AA-A00N TCGA-AA-A00R 
        1.02         1.02         1.02        18.02         4.01         0.99 
TCGA-AA-A01K TCGA-AA-A01Q TCGA-AA-A03F TCGA-AD-6548 TCGA-AM-5821 TCGA-AZ-4315 
       13.02         1.02        18.02         0.10         0.92        43.86 
TCGA-AZ-4323 TCGA-AZ-4616 TCGA-AZ-6598 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6605 
        1.41         5.13        49.41        12.10        99.98         5.23 
TCGA-CA-6718 TCGA-CK-5916 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4744 TCGA-CM-4750 
        0.10        21.01       103.04         6.05         7.04         8.02 
TCGA-CM-4752 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5862 TCGA-CM-6163 TCGA-CM-6168 
        4.04         9.99        11.01         5.03         2.96         5.95 
TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6678 TCGA-D5-5539 
        7.99         7.96         5.95         4.90         4.01         0.99 
TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6533 TCGA-D5-6535 TCGA-D5-6536 TCGA-D5-6539 
        8.55         8.91         1.32         0.33         9.44         4.73 
TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6930 TCGA-D5-6932 
        6.12         3.55         2.20         0.66         1.48         0.62 
TCGA-DM-A0XF TCGA-DM-A1D4 TCGA-DM-A1D8 TCGA-DM-A1HB TCGA-DM-A288 TCGA-F4-6703 
       38.20        92.75        12.59       124.08        14.01         1.84 
TCGA-F4-6807 TCGA-F4-6808 TCGA-G4-6293 TCGA-G4-6298 TCGA-G4-6304 TCGA-G4-6306 
        0.53         0.46       105.30        23.51        53.62        44.65 
TCGA-G4-6307 TCGA-G4-6311 TCGA-G4-6317 TCGA-G4-6321 TCGA-G4-6586 TCGA-G4-6588 
       48.82        36.56        29.36        18.77        24.36        21.17 
TCGA-G4-6626 TCGA-G4-6627 TCGA-G4-6628 
       46.75        47.15        52.96 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.07     0.56     0.10 
subtype1 subtype2 subtype3 subtype4 
  119.05   135.52    51.95   124.08 
subtype1 subtype2 subtype3 subtype4 
   6.670    9.400   13.955    7.960 
[1] "0.1 - 119.0 (6.7)" "0.1 - 135.5 (9.4)" "0.6 - 52.0 (14.0)"
[4] "0.1 - 124.1 (8.0)"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype4"
 [13] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype2" "subtype1" "subtype2" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype4"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype4" "subtype1" "subtype4"
 [61] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype2" "subtype4" "subtype2"
[103] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype4" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype4" "subtype4" "subtype2" "subtype1" "subtype4"
[121] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype4"
[127] "subtype4" "subtype2" "subtype4" "subtype2" "subtype1" "subtype2"
[133] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[139] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype1" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
[151] "subtype1" "subtype4" "subtype4" "subtype1" "subtype2" "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" "subtype1"
[223] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype4" "subtype1" "subtype1" "subtype2"
[235] "subtype4" "subtype4" "subtype1" "subtype1" "subtype3" "subtype1"
[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"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype4"
 [13] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype2" "subtype1" "subtype2" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype4"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype4" "subtype1" "subtype4"
 [61] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype2" "subtype4" "subtype2"
[103] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype4" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype4" "subtype4" "subtype2" "subtype1" "subtype4"
[121] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype4"
[127] "subtype4" "subtype2" "subtype4" "subtype2" "subtype1" "subtype2"
[133] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[139] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype1" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
[151] "subtype1" "subtype4" "subtype4" "subtype1" "subtype2" "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" "subtype1"
[223] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype4" "subtype1" "subtype1" "subtype2"
[235] "subtype4" "subtype4" "subtype1" "subtype1" "subtype3" "subtype1"
[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"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype4"
 [13] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [31] "subtype4" "subtype1" "subtype2" "subtype1" "subtype2" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype4"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype4" "subtype1" "subtype4"
 [61] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype3"
 [67] "subtype1" "subtype1" "subtype3" "subtype4" "subtype2" "subtype4"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype2" "subtype4" "subtype2"
[103] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype1"
[109] "subtype4" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype4" "subtype4" "subtype2" "subtype1" "subtype4"
[121] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype4"
[127] "subtype4" "subtype2" "subtype4" "subtype2" "subtype1" "subtype2"
[133] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[139] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype1" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
[151] "subtype1" "subtype4" "subtype4" "subtype1" "subtype2" "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" "subtype1"
[223] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype4" "subtype1" "subtype1" "subtype2"
[235] "subtype4" "subtype4" "subtype1" "subtype1" "subtype3" "subtype1"
[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"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 41 41
  subtype2 61 76
  subtype3 13 14
  subtype4 40 45
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   41   41
  subtype2   61   76
  subtype3   13   14
  subtype4   40   45
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       41       61       13       40
  MALE         41       76       14       45
D5V4, binary
          cls
clus         0   1
  subtype1  67  15
  subtype2 128   9
  subtype3  23   4
  subtype4  73  12
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   67   15
  subtype2  128    9
  subtype3   23    4
  subtype4   73   12
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA                67      128       23       73
  COLON MUCINOUS ADENOCARCINOMA       15        9        4       12
D5V5, binary
          cls
clus         0   1
  subtype1   2  80
  subtype2   1 136
  subtype3   0  27
  subtype4   0  85
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   80
  subtype2    1  136
  subtype3    0   27
  subtype4    0   85
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         2        1        0        0
  YES       80      136       27       85
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  67   7   3   0   4
  subtype2 100  23   0   1  12
  subtype3  24   2   0   0   1
  subtype4  68   4   3   0   9
D5V6, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B
  subtype1 44 12   6   5   0  9   1   4
  subtype2 78 28   4   1   1 19   3   3
  subtype3 17  4   1   1   0  4   0   0
  subtype4 57 13   1   2   1 10   0   1
D5V7, multiclass
          vv
clus       R0 R2 RX
  subtype1 63  1  5
  subtype2 84 13  7
  subtype3 26  1  0
  subtype4 66  1  4
D5V8, multiclass
D5V9, continuous
D5V10, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      11        0        6        23         2         0         2
  subtype2      20        0       14        33         4         1         9
  subtype3       3        1        1        12         0         0         2
  subtype4      15        0        4        33         2         0         6
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          3         14          9        4         5         0
  subtype2          2         19          9       18         5         1
  subtype3          0          3          3        1         1         0
  subtype4          3          6          8        4         3         0
D5V11, multiclass

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2        0   1
  subtype1  12   8
  subtype2  43   9
  subtype3  56   3
  subtype4 116  20
subtype1 subtype2 subtype3 subtype4 
      20       52       59      136 
subtype1 subtype2 subtype3 subtype4 
       8        9        3       20 
$subtype1
TCGA-A6-5661 TCGA-AA-A02H TCGA-AA-A02K TCGA-AA-A02R TCGA-AA-A03F TCGA-AY-6197 
       10.06         2.01        13.97        22.03        18.02         3.68 
TCGA-AZ-4615 TCGA-AZ-6598 TCGA-AZ-6599 TCGA-CA-5255 TCGA-CM-4748 TCGA-CM-5349 
       16.60        49.41         6.74         0.07         7.04        11.01 
TCGA-CM-6162 TCGA-CM-6170 TCGA-D5-6531 TCGA-D5-6536 TCGA-DM-A1D8 TCGA-DM-A280 
        6.97         7.96         0.56         9.44        12.59         7.73 
TCGA-G4-6293 TCGA-G4-6304 
      105.30        53.62 

$subtype2
TCGA-A6-3807 TCGA-A6-6648 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 TCGA-AA-3862 
       10.92         8.32         2.96         2.83         5.19         1.02 
TCGA-AA-3950 TCGA-AA-A00A TCGA-AA-A00N TCGA-AA-A00R TCGA-AA-A01Q TCGA-AD-6548 
        1.02        18.02         4.01         0.99         1.02         0.10 
TCGA-AM-5821 TCGA-AZ-4323 TCGA-AZ-4616 TCGA-AZ-6601 TCGA-AZ-6605 TCGA-CA-6718 
        0.92         1.41         5.13        99.98         5.23         0.10 
TCGA-CK-5916 TCGA-CM-4743 TCGA-CM-4744 TCGA-CM-4752 TCGA-CM-5862 TCGA-CM-6163 
       21.01         6.05         7.04         4.04         5.03         2.96 
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-D5-6540 TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6930 TCGA-D5-6932 
        1.32         6.12         2.20         0.66         1.48         0.62 
TCGA-DM-A0XF TCGA-DM-A1HB TCGA-F4-6703 TCGA-F4-6807 TCGA-F4-6808 TCGA-F4-6856 
       38.20       124.08         1.84         0.53         0.46         0.66 
TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6311 TCGA-G4-6317 TCGA-G4-6321 TCGA-G4-6586 
       44.65        48.82        36.56        29.36        18.77        24.36 
TCGA-G4-6588 TCGA-G4-6626 TCGA-G4-6627 TCGA-G4-6628 
       21.17        46.75        47.15        52.96 

$subtype3
TCGA-A6-2671 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-3808 TCGA-A6-5657 TCGA-A6-5660 
       21.30        12.72        15.25         9.14        12.07        11.24 
TCGA-A6-6138 TCGA-A6-6142 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6652 TCGA-A6-6782 
        5.95         4.37         4.80         8.15         4.41         5.39 
TCGA-AA-3489 TCGA-AA-3562 TCGA-AA-3986 TCGA-AA-A00J TCGA-AA-A00K TCGA-AA-A01K 
        1.02         1.02         0.99        18.02        18.02        13.02 
TCGA-AA-A02W TCGA-AD-5900 TCGA-AM-5820 TCGA-AU-6004 TCGA-AY-6196 TCGA-AZ-4308 
       40.96         0.07         0.46         6.67         0.20        56.35 
TCGA-AZ-6607 TCGA-CA-5797 TCGA-CA-6717 TCGA-CA-6719 TCGA-CM-4747 TCGA-CM-4750 
        3.19         0.26         0.33         1.35         8.02         8.02 
TCGA-CM-5348 TCGA-CM-5861 TCGA-CM-5868 TCGA-CM-6164 TCGA-CM-6167 TCGA-CM-6168 
       12.92        11.01         9.99        16.01         4.01         5.95 
TCGA-CM-6169 TCGA-CM-6677 TCGA-D5-5538 TCGA-D5-6534 TCGA-D5-6541 TCGA-D5-6898 
        7.99         5.00         6.71         7.92         3.55         1.48 
TCGA-D5-6922 TCGA-D5-6924 TCGA-D5-6926 TCGA-DM-A1D0 TCGA-DM-A1DB TCGA-DM-A1HA 
        4.37         2.89         3.12       119.05        44.32       129.11 
TCGA-DM-A288 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6809 TCGA-F4-6854 TCGA-F4-6855 
       14.01         1.51         0.53         1.25         0.53         1.38 
TCGA-G4-6299 TCGA-G4-6302 TCGA-G4-6310 TCGA-G4-6314 TCGA-G4-6625 
       68.28        43.04        39.58        33.90        87.85 

$subtype4
TCGA-A6-2672 TCGA-A6-2676 TCGA-A6-2677 TCGA-A6-2678 TCGA-A6-2680 TCGA-A6-2681 
       16.54        14.70        17.79        14.37        17.16        18.15 
TCGA-A6-2683 TCGA-A6-2686 TCGA-A6-3809 TCGA-A6-3810 TCGA-A6-5656 TCGA-A6-5659 
       15.52        16.04        10.29         8.09        15.19         9.40 
TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5665 TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6137 
        9.76        11.90         9.40         8.02        10.52         6.41 
TCGA-A6-6140 TCGA-A6-6141 TCGA-A6-6650 TCGA-A6-6654 TCGA-AA-3496 TCGA-AA-3502 
        4.08         4.24         5.65         5.82         1.02         1.02 
TCGA-AA-3510 TCGA-AA-3555 TCGA-AA-3697 TCGA-AA-3710 TCGA-AA-3713 TCGA-AA-3715 
        1.02         0.99         0.95         1.02         0.95         0.99 
TCGA-AA-3811 TCGA-AA-3818 TCGA-AA-3837 TCGA-AA-3844 TCGA-AA-3848 TCGA-AA-3854 
        0.99         0.99         1.02         0.92         0.99         1.02 
TCGA-AA-3856 TCGA-AA-3947 TCGA-AA-3975 TCGA-AA-A004 TCGA-AA-A00E TCGA-AA-A00F 
        0.99         0.99         0.99        13.94        30.02        34.03 
TCGA-AA-A00L TCGA-AA-A00Q TCGA-AA-A00U TCGA-AA-A00W TCGA-AA-A00Z TCGA-AA-A010 
       17.00        27.02        17.00        14.99        21.99        20.98 
TCGA-AA-A017 TCGA-AA-A01C TCGA-AA-A01D TCGA-AA-A01F TCGA-AA-A01I TCGA-AA-A01P 
       15.02        15.02         0.99        13.02        12.00        38.07 
TCGA-AA-A01R TCGA-AA-A01S TCGA-AA-A01T TCGA-AA-A01V TCGA-AA-A01X TCGA-AA-A024 
       35.01         1.02        33.04        35.01        26.01        39.06 
TCGA-AA-A029 TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02J TCGA-AA-A02O TCGA-AA-A02Y 
       51.95         2.93        39.95         5.03         0.92        39.95 
TCGA-AA-A03J TCGA-AD-6889 TCGA-AD-6899 TCGA-AD-6965 TCGA-AY-5543 TCGA-AY-6386 
       40.93        56.52         1.55         0.20         7.56         5.52 
TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-5407 TCGA-AZ-6600 
       43.86         5.65        22.36        56.05        45.86        12.10 
TCGA-AZ-6603 TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-5254 TCGA-CA-5796 TCGA-CA-6715 
       29.56        11.74         1.94         0.16         0.39         0.07 
TCGA-CA-6716 TCGA-CK-5914 TCGA-CK-6747 TCGA-CK-6748 TCGA-CK-6751 TCGA-CM-4746 
        0.26        21.99         2.93         2.01       103.04        22.98 
TCGA-CM-5341 TCGA-CM-5344 TCGA-CM-5860 TCGA-CM-5863 TCGA-CM-5864 TCGA-CM-6161 
        6.02         9.99         9.99         9.99         2.01         6.97 
TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6172 TCGA-CM-6675 TCGA-CM-6676 TCGA-CM-6679 
        6.97        13.94         6.94         5.00         5.00         4.01 
TCGA-CM-6680 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6535 TCGA-D5-6537 
        2.99         6.51         6.64         3.52         0.33         4.47 
TCGA-D5-6538 TCGA-D5-6539 TCGA-D5-6920 TCGA-D5-6923 TCGA-D5-6931 TCGA-DM-A0X9 
        8.09         4.73         3.65         1.38         1.41       112.73 
TCGA-DM-A1D4 TCGA-DM-A1D6 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A282 TCGA-DM-A28A 
       92.75        49.91       129.11         7.46       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-G4-6298 TCGA-G4-6303 TCGA-G4-6309 
       28.21         8.35        75.22        23.51        61.87        45.57 
TCGA-G4-6315 TCGA-G4-6320 TCGA-G4-6322 TCGA-G4-6323 
       30.81        22.29        17.95         6.61 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.10     0.07     0.07 
subtype1 subtype2 subtype3 subtype4 
  105.30   124.08   129.11   135.52 
subtype1 subtype2 subtype3 subtype4 
    9.75     5.08     6.71     9.99 
[1] "0.1 - 105.3 (9.8)"  "0.1 - 124.1 (5.1)"  "0.1 - 129.1 (6.7)" 
[4] "0.1 - 135.5 (10.0)"
  [1] "subtype3" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
  [7] "subtype4" "subtype4" "subtype3" "subtype3" "subtype4" "subtype2"
 [13] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype4"
 [19] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
 [25] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
 [31] "subtype2" "subtype3" "subtype4" "subtype3" "subtype3" "subtype2"
 [37] "subtype4" "subtype2" "subtype2" "subtype3" "subtype3" "subtype4"
 [43] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
 [49] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [55] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
 [61] "subtype4" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
 [67] "subtype3" "subtype3" "subtype4" "subtype2" "subtype4" "subtype2"
 [73] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [79] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype2"
 [85] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [91] "subtype4" "subtype4" "subtype4" "subtype1" "subtype4" "subtype1"
 [97] "subtype4" "subtype1" "subtype3" "subtype4" "subtype1" "subtype4"
[103] "subtype3" "subtype2" "subtype4" "subtype4" "subtype4" "subtype3"
[109] "subtype2" "subtype3" "subtype4" "subtype3" "subtype1" "subtype4"
[115] "subtype3" "subtype4" "subtype2" "subtype4" "subtype1" "subtype2"
[121] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype4"
[127] "subtype2" "subtype4" "subtype2" "subtype4" "subtype3" "subtype4"
[133] "subtype4" "subtype1" "subtype4" "subtype3" "subtype4" "subtype4"
[139] "subtype3" "subtype2" "subtype3" "subtype4" "subtype2" "subtype4"
[145] "subtype4" "subtype4" "subtype2" "subtype2" "subtype4" "subtype3"
[151] "subtype1" "subtype3" "subtype2" "subtype4" "subtype4" "subtype3"
[157] "subtype1" "subtype4" "subtype3" "subtype2" "subtype4" "subtype4"
[163] "subtype3" "subtype4" "subtype1" "subtype2" "subtype3" "subtype4"
[169] "subtype4" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype4" "subtype2" "subtype4" "subtype4" "subtype3" "subtype2"
[181] "subtype4" "subtype4" "subtype3" "subtype2" "subtype4" "subtype4"
[187] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype3"
[193] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[199] "subtype3" "subtype3" "subtype4" "subtype3" "subtype4" "subtype3"
[205] "subtype3" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[211] "subtype4" "subtype2" "subtype3" "subtype4" "subtype4" "subtype1"
[217] "subtype4" "subtype4" "subtype3" "subtype3" "subtype2" "subtype1"
[223] "subtype4" "subtype3" "subtype4" "subtype4" "subtype4" "subtype4"
[229] "subtype4" "subtype4" "subtype2" "subtype3" "subtype3" "subtype4"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype1" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[247] "subtype3" "subtype4" "subtype1" "subtype2" "subtype2" "subtype4"
[253] "subtype3" "subtype2" "subtype3" "subtype4" "subtype2" "subtype4"
[259] "subtype2" "subtype4" "subtype4" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype2" "subtype2"
  [1] "subtype3" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
  [7] "subtype4" "subtype4" "subtype3" "subtype3" "subtype4" "subtype2"
 [13] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype4"
 [19] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
 [25] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
 [31] "subtype2" "subtype3" "subtype4" "subtype3" "subtype3" "subtype2"
 [37] "subtype4" "subtype2" "subtype2" "subtype3" "subtype3" "subtype4"
 [43] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
 [49] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [55] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
 [61] "subtype4" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
 [67] "subtype3" "subtype3" "subtype4" "subtype2" "subtype4" "subtype2"
 [73] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [79] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype2"
 [85] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [91] "subtype4" "subtype4" "subtype4" "subtype1" "subtype4" "subtype1"
 [97] "subtype4" "subtype1" "subtype3" "subtype4" "subtype1" "subtype4"
[103] "subtype3" "subtype2" "subtype4" "subtype4" "subtype4" "subtype3"
[109] "subtype2" "subtype3" "subtype4" "subtype3" "subtype1" "subtype4"
[115] "subtype3" "subtype4" "subtype2" "subtype4" "subtype1" "subtype2"
[121] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype4"
[127] "subtype2" "subtype4" "subtype2" "subtype4" "subtype3" "subtype4"
[133] "subtype4" "subtype1" "subtype4" "subtype3" "subtype4" "subtype4"
[139] "subtype3" "subtype2" "subtype3" "subtype4" "subtype2" "subtype4"
[145] "subtype4" "subtype4" "subtype2" "subtype2" "subtype4" "subtype3"
[151] "subtype1" "subtype3" "subtype2" "subtype4" "subtype4" "subtype3"
[157] "subtype1" "subtype4" "subtype3" "subtype2" "subtype4" "subtype4"
[163] "subtype3" "subtype4" "subtype1" "subtype2" "subtype3" "subtype4"
[169] "subtype4" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype4" "subtype2" "subtype4" "subtype4" "subtype3" "subtype2"
[181] "subtype4" "subtype4" "subtype3" "subtype2" "subtype4" "subtype4"
[187] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype3"
[193] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[199] "subtype3" "subtype3" "subtype4" "subtype3" "subtype4" "subtype3"
[205] "subtype3" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[211] "subtype4" "subtype2" "subtype3" "subtype4" "subtype4" "subtype1"
[217] "subtype4" "subtype4" "subtype3" "subtype3" "subtype2" "subtype1"
[223] "subtype4" "subtype3" "subtype4" "subtype4" "subtype4" "subtype4"
[229] "subtype4" "subtype4" "subtype2" "subtype3" "subtype3" "subtype4"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype1" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[247] "subtype3" "subtype4" "subtype1" "subtype2" "subtype2" "subtype4"
[253] "subtype3" "subtype2" "subtype3" "subtype4" "subtype2" "subtype4"
[259] "subtype2" "subtype4" "subtype4" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype2" "subtype2"
  [1] "subtype3" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
  [7] "subtype4" "subtype4" "subtype3" "subtype3" "subtype4" "subtype2"
 [13] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype4"
 [19] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
 [25] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
 [31] "subtype2" "subtype3" "subtype4" "subtype3" "subtype3" "subtype2"
 [37] "subtype4" "subtype2" "subtype2" "subtype3" "subtype3" "subtype4"
 [43] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
 [49] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [55] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
 [61] "subtype4" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
 [67] "subtype3" "subtype3" "subtype4" "subtype2" "subtype4" "subtype2"
 [73] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [79] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype2"
 [85] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [91] "subtype4" "subtype4" "subtype4" "subtype1" "subtype4" "subtype1"
 [97] "subtype4" "subtype1" "subtype3" "subtype4" "subtype1" "subtype4"
[103] "subtype3" "subtype2" "subtype4" "subtype4" "subtype4" "subtype3"
[109] "subtype2" "subtype3" "subtype4" "subtype3" "subtype1" "subtype4"
[115] "subtype3" "subtype4" "subtype2" "subtype4" "subtype1" "subtype2"
[121] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype4"
[127] "subtype2" "subtype4" "subtype2" "subtype4" "subtype3" "subtype4"
[133] "subtype4" "subtype1" "subtype4" "subtype3" "subtype4" "subtype4"
[139] "subtype3" "subtype2" "subtype3" "subtype4" "subtype2" "subtype4"
[145] "subtype4" "subtype4" "subtype2" "subtype2" "subtype4" "subtype3"
[151] "subtype1" "subtype3" "subtype2" "subtype4" "subtype4" "subtype3"
[157] "subtype1" "subtype4" "subtype3" "subtype2" "subtype4" "subtype4"
[163] "subtype3" "subtype4" "subtype1" "subtype2" "subtype3" "subtype4"
[169] "subtype4" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype4" "subtype2" "subtype4" "subtype4" "subtype3" "subtype2"
[181] "subtype4" "subtype4" "subtype3" "subtype2" "subtype4" "subtype4"
[187] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype3"
[193] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[199] "subtype3" "subtype3" "subtype4" "subtype3" "subtype4" "subtype3"
[205] "subtype3" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
[211] "subtype4" "subtype2" "subtype3" "subtype4" "subtype4" "subtype1"
[217] "subtype4" "subtype4" "subtype3" "subtype3" "subtype2" "subtype1"
[223] "subtype4" "subtype3" "subtype4" "subtype4" "subtype4" "subtype4"
[229] "subtype4" "subtype4" "subtype2" "subtype3" "subtype3" "subtype4"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[241] "subtype1" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[247] "subtype3" "subtype4" "subtype1" "subtype2" "subtype2" "subtype4"
[253] "subtype3" "subtype2" "subtype3" "subtype4" "subtype2" "subtype4"
[259] "subtype2" "subtype4" "subtype4" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype2" "subtype2"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 17 12
  subtype2 21 36
  subtype3 30 34
  subtype4 87 94
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   17   12
  subtype2   21   36
  subtype3   30   34
  subtype4   87   94
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       17       21       30       87
  MALE         12       36       34       94
D6V4, binary
          cls
clus         0   1
  subtype1  26   3
  subtype2  47  10
  subtype3  54  10
  subtype4 164  17
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   26    3
  subtype2   47   10
  subtype3   54   10
  subtype4  164   17
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA                26       47       54      164
  COLON MUCINOUS ADENOCARCINOMA        3       10       10       17
D6V5, binary
          cls
clus         0   1
  subtype1   0  29
  subtype2   0  57
  subtype3   2  62
  subtype4   1 180
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   29
  subtype2    0   57
  subtype3    2   62
  subtype4    1  180
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         0        0        2        1
  YES       29       57       62      180
          vv
clus        M0  M1 M1A M1B  MX
  subtype1  23   2   0   0   2
  subtype2  47   2   3   0   5
  subtype3  49   7   3   0   4
  subtype4 140  25   0   1  15
D6V6, multiclass
          vv
clus        N0  N1 N1A N1B N1C  N2 N2A N2B
  subtype1  19   4   1   1   0   4   0   0
  subtype2  42   6   1   1   1   5   0   1
  subtype3  34   7   3   5   0   9   1   4
  subtype4 101  40   7   2   1  24   3   3
D6V7, multiclass
          vv
clus        R0  R2  RX
  subtype1  21   2   2
  subtype2  46   0   2
  subtype3  48   1   2
  subtype4 124  13  10
D6V8, multiclass
D6V9, continuous
D6V10, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1       2        0        3        13         1         0         2
  subtype2      14        0        3        22         1         0         2
  subtype3       8        0        2        21         1         0         0
  subtype4      25        1       17        45         5         1        15
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          0          4          1        2         0         0
  subtype2          1          4          5        2         3         0
  subtype3          3          9          9        3         6         0
  subtype4          4         25         14       20         5         1
D6V11, multiclass

Clustering(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 26  2
  subtype2 44 11
  subtype3 39  4
  subtype4 42  8
subtype1 subtype2 subtype3 subtype4 
      28       55       43       50 
subtype1 subtype2 subtype3 subtype4 
       2       11        4        8 
$subtype1
TCGA-A6-2675 TCGA-A6-4105 TCGA-A6-6140 TCGA-A6-6141 TCGA-AA-3495 TCGA-AA-3502 
       16.93        14.50         4.08         4.24         1.02         1.02 
TCGA-AA-3697 TCGA-AA-3713 TCGA-AD-6548 TCGA-AY-5543 TCGA-AZ-4684 TCGA-AZ-5407 
        0.95         0.95         0.10         7.56        56.05        45.86 
TCGA-AZ-6605 TCGA-CA-5796 TCGA-CK-4947 TCGA-CK-6747 TCGA-CM-4751 TCGA-CM-6163 
        5.23         0.39        17.52         2.93        19.96         2.96 
TCGA-CM-6172 TCGA-D5-5539 TCGA-D5-6539 TCGA-F4-6806 TCGA-G4-6293 TCGA-G4-6295 
        6.94         0.99         4.73         0.66       105.30         8.35 
TCGA-G4-6311 TCGA-G4-6315 TCGA-G4-6321 TCGA-G4-6625 
       36.56        30.81        18.77        87.85 

$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-A6-6142 TCGA-A6-6650 TCGA-A6-6652 TCGA-AA-3496 TCGA-AA-3660 
       10.52         4.37         5.65         4.41         1.02         1.02 
TCGA-AA-A01X TCGA-AD-6888 TCGA-AD-6890 TCGA-AD-6965 TCGA-AU-3779 TCGA-AZ-5403 
       26.01         4.21         0.79         0.20        14.47        62.79 
TCGA-AZ-6603 TCGA-AZ-6608 TCGA-CA-5797 TCGA-CA-6715 TCGA-CA-6716 TCGA-CK-5912 
       29.56         1.94         0.26         0.07         0.26        48.03 
TCGA-CK-5914 TCGA-CM-4747 TCGA-CM-5344 TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-5868 
       21.99         8.02         9.99         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-A1D8 
        4.77       112.73        38.20       119.05        92.75        12.59 
TCGA-DM-A1D9 TCGA-DM-A1DB TCGA-F4-6808 TCGA-G4-6298 TCGA-G4-6306 TCGA-G4-6317 
      129.11        44.32         0.46        23.51        44.65        29.36 
TCGA-G4-6626 
       46.75 

$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-6718 
        0.46         0.20         1.41         3.19         0.33         0.10 
TCGA-CA-6719 TCGA-CK-5916 TCGA-CK-6748 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5860 
        1.35        21.01         2.01        12.92        11.01         9.99 
TCGA-CM-6162 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6677 TCGA-CM-6679 TCGA-D5-5538 
        6.97         4.01         5.95         5.00         4.01         6.71 
TCGA-D5-6534 TCGA-D5-6926 TCGA-D5-6928 TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 
        7.92         3.12         0.66         1.84         1.51         0.53 
TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6855 TCGA-G4-6297 TCGA-G4-6302 TCGA-G4-6314 
        0.53         1.25         1.38        75.22        43.04        33.90 
TCGA-G4-6628 
       52.96 

$subtype4
TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 TCGA-AA-3663 
       10.06         9.40         2.96         2.83         5.19         1.02 
TCGA-AA-A01Z TCGA-AD-5900 TCGA-AD-6889 TCGA-AD-6895 TCGA-AM-5821 TCGA-AU-6004 
       20.98         0.07        56.52         0.72         0.92         6.67 
TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4615 
        3.68         5.52        31.46        43.86         5.65        16.60 
TCGA-AZ-4616 TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6606 TCGA-CA-5254 TCGA-CA-5255 
        5.13        49.41         6.74        11.74         0.16         0.07 
TCGA-CK-4951 TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-5861 
       49.02        15.58        28.04       103.04         6.05        11.01 
TCGA-CM-5863 TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6675 TCGA-D5-6530 TCGA-D5-6531 
        9.99         5.95         4.90         5.00         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-A1DA TCGA-F4-6856 TCGA-G4-6304 TCGA-G4-6309 TCGA-G4-6320 
       49.91         7.46         0.66        53.62        45.57        22.29 
TCGA-G4-6586 TCGA-G4-6588 
       24.36        21.17 

subtype1 subtype2 subtype3 subtype4 
    0.10     0.07     0.10     0.07 
subtype1 subtype2 subtype3 subtype4 
  105.30   129.11    75.22   103.04 
subtype1 subtype2 subtype3 subtype4 
   6.085    8.090    4.010    7.100 
[1] "0.1 - 105.3 (6.1)" "0.1 - 129.1 (8.1)" "0.1 - 75.2 (4.0)" 
[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" "subtype1" "subtype1" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [25] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [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" "subtype1" "subtype4" "subtype4"
 [67] "subtype2" "subtype1" "subtype4" "subtype3" "subtype2" "subtype4"
 [73] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
 [85] "subtype4" "subtype2" "subtype3" "subtype1" "subtype3" "subtype4"
 [91] "subtype4" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [97] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "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] "subtype2" "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" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
 [13] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [25] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [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" "subtype1" "subtype4" "subtype4"
 [67] "subtype2" "subtype1" "subtype4" "subtype3" "subtype2" "subtype4"
 [73] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
 [85] "subtype4" "subtype2" "subtype3" "subtype1" "subtype3" "subtype4"
 [91] "subtype4" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [97] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "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] "subtype2" "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" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype4" "subtype2" "subtype3" "subtype4"
 [13] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype4" "subtype3" "subtype4"
 [25] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
 [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" "subtype1" "subtype4" "subtype4"
 [67] "subtype2" "subtype1" "subtype4" "subtype3" "subtype2" "subtype4"
 [73] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
 [85] "subtype4" "subtype2" "subtype3" "subtype1" "subtype3" "subtype4"
 [91] "subtype4" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [97] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "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] "subtype2" "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" "subtype3"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 14 17
  subtype2 28 32
  subtype3 24 23
  subtype4 26 28
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   14   17
  subtype2   28   32
  subtype3   24   23
  subtype4   26   28
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       14       28       24       26
  MALE         17       32       23       28
D7V4, binary
          cls
clus        0  1
  subtype1 29  2
  subtype2 59  1
  subtype3 37 10
  subtype4 43 11
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   29    2
  subtype2   59    1
  subtype3   37   10
  subtype4   43   11
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA                29       59       37       43
  COLON MUCINOUS ADENOCARCINOMA        2        1       10       11
D7V5, binary
          cls
clus        0  1
  subtype1  1 30
  subtype2  0 60
  subtype3  1 46
  subtype4  0 54
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   30
  subtype2    0   60
  subtype3    1   46
  subtype4    0   54
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        0        1        0
  YES       30       60       46       54
          vv
clus       M0 M1 M1A M1B MX
  subtype1 22  5   0   0  4
  subtype2 38  4   5   0 12
  subtype3 32  7   0   0  6
  subtype4 38  3   0   1 11
D7V6, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 19  7   2   1   0  2   0   0  0
  subtype2 34 10   6   2   1  4   0   2  1
  subtype3 24  5   2   2   0  6   2   6  0
  subtype4 40  5   2   2   0  4   0   1  0
D7V7, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 19  0  2  2
  subtype2 32  0  0  7
  subtype3 32  0  0  5
  subtype4 33  1  0  8
D7V8, multiclass
D7V9, continuous
D7V10, continuous
          vv
clus       STAGE I STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA
  subtype1       7        2         7         0         0         4          2
  subtype2      10        5        14         0         1         2          2
  subtype3       5        3        13         1         0         1          1
  subtype4      10        7        21         2         0         2          0
          vv
clus       STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          3          0        3         3         0
  subtype2         10          3        2         7         0
  subtype3          6          7        5         2         0
  subtype4          5          2        2         1         1
D7V11, multiclass

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 39  8
  subtype2 48  8
  subtype3 64  9
subtype1 subtype2 subtype3 
      47       56       73 
subtype1 subtype2 subtype3 
       8        8        9 
$subtype1
TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6141 TCGA-A6-6653 TCGA-A6-6780 TCGA-AA-3502 
       10.06         9.40         4.24         2.96         2.83         1.02 
TCGA-AA-3663 TCGA-AA-3713 TCGA-AD-6889 TCGA-AU-6004 TCGA-AY-6197 TCGA-AZ-4313 
        1.02         0.95        56.52         6.67         3.68        31.46 
TCGA-AZ-4614 TCGA-AZ-4616 TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6599 TCGA-AZ-6606 
        5.65         5.13        45.86        49.41         6.74        11.74 
TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-5796 TCGA-CK-4952 TCGA-CK-5913 TCGA-CM-4743 
        0.16         0.07         0.39        15.58        28.04         6.05 
TCGA-CM-4751 TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6675 
       19.96        11.01         9.99         5.95         4.90         5.00 
TCGA-D5-5539 TCGA-D5-6530 TCGA-D5-6536 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6930 
        0.99         8.91         9.44         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 
       45.57        22.29        18.77        24.36        21.17 

$subtype2
TCGA-A6-5656 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5666 TCGA-A6-6140 TCGA-A6-6650 
       15.19         9.40        11.24         8.02         4.08         5.65 
TCGA-A6-6652 TCGA-AA-3495 TCGA-AA-3660 TCGA-AA-3697 TCGA-AA-A01X TCGA-AA-A01Z 
        4.41         1.02         1.02         0.95        26.01        20.98 
TCGA-AD-6548 TCGA-AD-6888 TCGA-AD-6890 TCGA-AD-6965 TCGA-AU-3779 TCGA-AY-5543 
        0.10         4.21         0.79         0.20        14.47         7.56 
TCGA-AY-6386 TCGA-AZ-4315 TCGA-AZ-4684 TCGA-AZ-6608 TCGA-CA-6715 TCGA-CA-6716 
        5.52        43.86        56.05         1.94         0.07         0.26 
TCGA-CK-4947 TCGA-CK-5912 TCGA-CK-6747 TCGA-CK-6751 TCGA-CM-5862 TCGA-CM-5864 
       17.52        48.03         2.93       103.04         5.03         2.01 
TCGA-CM-6161 TCGA-CM-6166 TCGA-CM-6677 TCGA-CM-6678 TCGA-D5-5537 TCGA-D5-5540 
        6.97        13.94         5.00         4.01        14.99         6.51 
TCGA-D5-6533 TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6924 TCGA-D5-6929 
        1.32         0.33         4.47         8.09         2.89         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-G4-6298 TCGA-G4-6306 TCGA-G4-6315 
       44.32         0.46       105.30        23.51        44.65        30.81 
TCGA-G4-6317 TCGA-G4-6626 
       29.36        46.75 

$subtype3
TCGA-A6-2675 TCGA-A6-2682 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-4105 TCGA-A6-5662 
       16.93        13.94        12.72        15.25        14.50         9.76 
TCGA-A6-5664 TCGA-A6-5667 TCGA-A6-6138 TCGA-A6-6142 TCGA-A6-6651 TCGA-A6-6654 
       11.90        10.52         5.95         4.37         8.15         5.82 
TCGA-A6-6781 TCGA-A6-6782 TCGA-AA-3489 TCGA-AA-3496 TCGA-AA-A01P TCGA-AD-5900 
        5.19         5.39         1.02         1.02        38.07         0.07 
TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6964 TCGA-AM-5820 TCGA-AM-5821 
        0.72         1.55         1.02         0.99         0.46         0.92 
TCGA-AY-6196 TCGA-AZ-4323 TCGA-AZ-4615 TCGA-AZ-5403 TCGA-AZ-6603 TCGA-AZ-6605 
        0.20         1.41        16.60        62.79        29.56         5.23 
TCGA-AZ-6607 TCGA-CA-5797 TCGA-CA-6717 TCGA-CA-6718 TCGA-CA-6719 TCGA-CK-4951 
        3.19         0.26         0.33         0.10         1.35        49.02 
TCGA-CK-5914 TCGA-CK-5916 TCGA-CK-6748 TCGA-CM-4747 TCGA-CM-5344 TCGA-CM-5348 
       21.99        21.01         2.01         8.02         9.99        12.92 
TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-5868 TCGA-CM-6162 TCGA-CM-6163 TCGA-CM-6167 
       11.01         9.99         9.99         6.97         2.96         4.01 
TCGA-CM-6168 TCGA-CM-6170 TCGA-CM-6172 TCGA-CM-6676 TCGA-CM-6679 TCGA-D5-5538 
        5.95         7.96         6.94         5.00         4.01         6.71 
TCGA-D5-5541 TCGA-D5-6531 TCGA-D5-6534 TCGA-D5-6926 TCGA-D5-6927 TCGA-D5-6928 
        6.64         0.56         7.92         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-G4-6295 TCGA-G4-6297 TCGA-G4-6302 TCGA-G4-6311 TCGA-G4-6314 TCGA-G4-6625 
        8.35        75.22        43.04        36.56        33.90        87.85 
TCGA-G4-6628 
       52.96 

subtype1 subtype2 subtype3 
    0.07     0.07     0.07 
subtype1 subtype2 subtype3 
   56.52   129.11    87.85 
subtype1 subtype2 subtype3 
    6.74     7.79     5.95 
[1] "0.1 - 56.5 (6.7)"  "0.1 - 129.1 (7.8)" "0.1 - 87.8 (6.0)" 
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [13] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [19] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [43] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
 [55] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [67] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [85] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [91] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[103] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[121] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[127] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[151] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[163] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[175] "subtype2" "subtype3"
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [13] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [19] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [43] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
 [55] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [67] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [85] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [91] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[103] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[121] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[127] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[151] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[163] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[175] "subtype2" "subtype3"
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [13] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [19] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [43] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
 [55] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [67] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [85] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [91] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[103] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[121] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[127] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[151] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[163] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[169] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[175] "subtype2" "subtype3"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 25 24
  subtype2 30 33
  subtype3 37 43
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   25   24
  subtype2   30   33
  subtype3   37   43
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       25       30       37
  MALE         24       33       43
D8V4, binary
          cls
clus        0  1
  subtype1 40  9
  subtype2 61  2
  subtype3 67 13
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   40    9
  subtype2   61    2
  subtype3   67   13
                               clus
vv                              subtype1 subtype2 subtype3
  COLON ADENOCARCINOMA                40       61       67
  COLON MUCINOUS ADENOCARCINOMA        9        2       13
D8V5, binary
          cls
clus        0  1
  subtype1  0 49
  subtype2  1 62
  subtype3  1 79
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   49
  subtype2    1   62
  subtype3    1   79
     clus
vv    subtype1 subtype2 subtype3
  NO         0        1        1
  YES       49       62       79
          vv
clus       M0 M1 M1A M1B MX
  subtype1 36  4   0   1  7
  subtype2 43  6   2   0 11
  subtype3 51  9   3   0 15
D8V6, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 37  5   0   2   0  4   0   1  0
  subtype2 40 10   4   0   1  5   0   2  1
  subtype3 40 12   8   5   0  7   2   6  0
D8V7, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 29  0  1  5
  subtype2 34  0  1 10
  subtype3 53  1  0  7
D8V8, multiclass
D8V9, continuous
D8V10, continuous
          vv
clus       STAGE I STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III STAGE IIIA
  subtype1      11        5        17         2         0         3          2
  subtype2      12        5        17         0         1         4          2
  subtype3       9        7        21         1         0         2          1
          vv
clus       STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          3          1        3         1         1
  subtype2          7          3        3         6         0
  subtype3         14          8        6         6         0
D8V11, multiclass

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2        0   1
  subtype1  82  17
  subtype2 128  26
  subtype3  52   6
subtype1 subtype2 subtype3 
      99      154       58 
subtype1 subtype2 subtype3 
      17       26        6 
$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-AA-3488 TCGA-AA-3494 TCGA-AA-3495 
       10.29         8.09         7.59         5.00         1.02         1.02 
TCGA-AA-3502 TCGA-AA-3510 TCGA-AA-3518 TCGA-AA-3526 TCGA-AA-3555 TCGA-AA-3562 
        1.02         1.02         1.02         0.99         0.99         1.02 
TCGA-AA-3666 TCGA-AA-3675 TCGA-AA-3679 TCGA-AA-3685 TCGA-AA-3710 TCGA-AA-3715 
        2.01         1.02         0.99         0.99         1.02         0.99 
TCGA-AA-3811 TCGA-AA-3818 TCGA-AA-3837 TCGA-AA-3842 TCGA-AA-3844 TCGA-AA-3846 
        0.99         0.99         1.02         1.02         0.92         0.99 
TCGA-AA-3848 TCGA-AA-3854 TCGA-AA-3856 TCGA-AA-3862 TCGA-AA-3877 TCGA-AA-3939 
        0.99         1.02         0.99         1.02         0.99         0.99 
TCGA-AA-3941 TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3952 TCGA-AA-3966 
        1.02         0.99         0.99         1.02         2.01         2.01 
TCGA-AA-3975 TCGA-AA-3977 TCGA-AA-3986 TCGA-AA-A00D TCGA-AA-A00J TCGA-AA-A00L 
        0.99         1.02         0.99        19.00        18.02        17.00 
TCGA-AA-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-AD-6888 TCGA-AY-4070 TCGA-AY-4071 TCGA-AZ-4308 TCGA-AZ-4313 TCGA-AZ-4315 
        4.21        16.31         0.95        56.35        31.46        43.86 
TCGA-AZ-4614 TCGA-AZ-4615 TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-CK-4951 
        5.65        16.60        71.67        22.36        56.05        49.02 
TCGA-CM-4744 TCGA-CM-4746 TCGA-CM-4750 TCGA-CM-4752 TCGA-CM-5341 TCGA-D5-6920 
        7.04        22.98         8.02         4.04         6.02         3.65 
TCGA-D5-6931 TCGA-DM-A1D6 TCGA-G4-6588 
        1.41        49.91        21.17 

$subtype2
TCGA-A6-2675 TCGA-A6-4105 TCGA-A6-5656 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5661 
       16.93        14.50        15.19         9.40        11.24        10.06 
TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5666 TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6140 
        9.76        11.90         8.02        10.52         6.41         4.08 
TCGA-A6-6142 TCGA-A6-6648 TCGA-A6-6650 TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6782 
        4.37         8.32         5.65         2.96         2.83         5.39 
TCGA-AA-3496 TCGA-AA-3660 TCGA-AA-3663 TCGA-AA-3697 TCGA-AA-3713 TCGA-AD-5900 
        1.02         1.02         1.02         0.95         0.95         0.07 
TCGA-AD-6548 TCGA-AD-6889 TCGA-AD-6890 TCGA-AD-6963 TCGA-AD-6965 TCGA-AM-5820 
        0.10        56.52         0.79         0.10         0.20         0.46 
TCGA-AM-5821 TCGA-AU-3779 TCGA-AU-6004 TCGA-AY-5543 TCGA-AY-6196 TCGA-AY-6197 
        0.92        14.47         6.67         7.56         0.20         3.68 
TCGA-AY-6386 TCGA-AZ-4616 TCGA-AZ-5403 TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6599 
        5.52         5.13        62.79        45.86        49.41         6.74 
TCGA-AZ-6600 TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-5254 TCGA-CA-5796 TCGA-CA-5797 
       12.10        11.74         1.94         0.16         0.39         0.26 
TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6719 TCGA-CK-4947 TCGA-CK-4948 TCGA-CK-4950 
        0.07         0.26         1.35        17.52       102.44        40.31 
TCGA-CK-4952 TCGA-CK-5912 TCGA-CK-5913 TCGA-CK-5914 TCGA-CK-5916 TCGA-CK-6747 
       15.58        48.03        28.04        21.99        21.01         2.93 
TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 
      103.04         6.05        19.96         9.99        12.92        11.01 
TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5862 TCGA-CM-5863 TCGA-CM-5864 TCGA-CM-5868 
        9.99        11.01         5.03         9.99         2.01         9.99 
TCGA-CM-6161 TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6169 
        6.97         2.96        16.01         6.97        13.94         7.99 
TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6172 TCGA-CM-6675 TCGA-CM-6676 TCGA-CM-6677 
        7.96         5.95         6.94         5.00         5.00         5.00 
TCGA-CM-6678 TCGA-CM-6680 TCGA-D5-5537 TCGA-D5-5538 TCGA-D5-5540 TCGA-D5-5541 
        4.01         2.99        14.99         6.71         6.51         6.64 
TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6531 TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6535 
        8.55         8.91         0.56         3.52         1.32         0.33 
TCGA-D5-6536 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 
        9.44         4.47         8.09         4.73         6.12         3.55 
TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6926 TCGA-D5-6929 TCGA-DM-A0X9 TCGA-DM-A0XD 
        1.38         2.89         3.12         4.77       112.73        24.43 
TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA 
       38.20       119.05        92.75        12.59       129.11         7.46 
TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A282 TCGA-DM-A285 
       44.32       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-A28K TCGA-DM-A28M TCGA-F4-6808 TCGA-F4-6855 TCGA-G4-6293 
      112.50        93.21        91.20         0.46         1.38       105.30 
TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6299 TCGA-G4-6303 
       28.21         8.35        75.22        23.51        68.28        61.87 
TCGA-G4-6304 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6309 TCGA-G4-6311 TCGA-G4-6314 
       53.62        44.65        48.82        45.57        36.56        33.90 
TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6322 TCGA-G4-6323 
       30.81        29.36        22.29        18.77        17.95         6.61 
TCGA-G4-6586 TCGA-G4-6625 TCGA-G4-6626 TCGA-G4-6628 
       24.36        87.85        46.75        52.96 

$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-A6-5665 TCGA-A6-6138 TCGA-A6-6141 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6652 
        9.40         5.95         4.24         4.80         8.15         4.41 
TCGA-A6-6654 TCGA-A6-6781 TCGA-AA-3489 TCGA-AA-A00O TCGA-AA-A01P TCGA-AA-A01X 
        5.82         5.19         1.02        27.02        38.07        26.01 
TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6964 TCGA-AZ-4323 TCGA-AZ-6601 
        0.72         1.55         1.02         0.99         1.41        99.98 
TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-5255 TCGA-CA-6717 TCGA-CA-6718 
       29.56         5.23         3.19         0.07         0.33         0.10 
TCGA-CK-6748 TCGA-CM-4747 TCGA-CM-4748 TCGA-CM-6162 TCGA-CM-6167 TCGA-CM-6168 
        2.01         8.02         7.04         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-D5-6927 TCGA-D5-6928 TCGA-D5-6930 TCGA-D5-6932 TCGA-D5-7000 TCGA-F4-6703 
        2.20         0.66         1.48         0.62         1.35         1.84 
TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6806 TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6854 
        1.51         0.53         0.66         0.53         1.25         0.53 
TCGA-F4-6856 TCGA-G4-6302 TCGA-G4-6310 TCGA-G4-6627 
        0.66        43.04        39.58        47.15 

subtype1 subtype2 subtype3 
    0.92     0.07     0.07 
subtype1 subtype2 subtype3 
   71.67   135.52    99.98 
subtype1 subtype2 subtype3 
   7.040    9.420    4.305 
[1] "0.9 - 71.7 (7.0)"  "0.1 - 135.5 (9.4)" "0.1 - 100.0 (4.3)"
  [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" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "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" "subtype1" "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" "subtype2"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[175] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[187] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype2" "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" "subtype1" "subtype3"
[241] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[247] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype1" "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" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[295] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype1" "subtype2" "subtype2" "subtype3" "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" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "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" "subtype1" "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" "subtype2"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[175] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[187] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype2" "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" "subtype1" "subtype3"
[241] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[247] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype1" "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" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[295] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype1" "subtype2" "subtype2" "subtype3" "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" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "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" "subtype1" "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" "subtype2"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[151] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[163] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[169] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[175] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[187] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[193] "subtype2" "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" "subtype1" "subtype3"
[241] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[247] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[253] "subtype2" "subtype2" "subtype2" "subtype1" "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" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[283] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[289] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[295] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[301] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[307] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
D9V2, continuous
D9V3, binary
          cls
clus        0  1
  subtype1 91 91
  subtype2 74 89
  subtype3 26 36
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   91   91
  subtype2   74   89
  subtype3   26   36
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       91       74       26
  MALE         91       89       36
D9V4, binary
          cls
clus         0   1
  subtype1 155  25
  subtype2 148  15
  subtype3  47  15
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  155   25
  subtype2  148   15
  subtype3   47   15
                               clus
vv                              subtype1 subtype2 subtype3
  COLON ADENOCARCINOMA               155      148       47
  COLON MUCINOUS ADENOCARCINOMA       25       15       15
D9V5, binary
          cls
clus         0   1
  subtype1   1 181
  subtype2   1 162
  subtype3   1  61
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1  181
  subtype2    1  162
  subtype3    1   61
     clus
vv    subtype1 subtype2 subtype3
  NO         1        1        1
  YES      181      162       61
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 149  28   1   0   1
  subtype2 111  15   5   1  28
  subtype3  46   7   1   0   7
D9V6, multiclass
          vv
clus        N0  N1 N1A N1B N1C  N2 N2A N2B  NX
  subtype1 111  32   1   3   0  33   1   0   1
  subtype2  97  25  10   4   2  19   2   4   0
  subtype3  32  11   2   5   0   5   1   5   0
D9V7, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1 148   2  22   2
  subtype2  92   1   2  15
  subtype3  41   0   1   5
D9V8, multiclass
D9V9, continuous
D9V10, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      35        0       18        46         6         0        12
  subtype2      24        1       10        51         2         1         8
  subtype3       7        0        5        17         0         0         2
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          4         15         14       25         4         0
  subtype2          6         23         11       12         9         1
  subtype3          2          9          7        4         3         0
D9V11, multiclass

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1  82  16
  subtype2  34   8
  subtype3 146  25
subtype1 subtype2 subtype3 
      98       42      171 
subtype1 subtype2 subtype3 
      16        8       25 
$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-A6-2680 TCGA-A6-2681 TCGA-A6-2682 TCGA-A6-2683 
       14.37        19.56        17.16        18.15        13.94        15.52 
TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-2686 TCGA-A6-3807 TCGA-A6-3808 TCGA-A6-3809 
       12.72        15.25        16.04        10.92         9.14        10.29 
TCGA-A6-3810 TCGA-A6-4107 TCGA-AA-3488 TCGA-AA-3494 TCGA-AA-3495 TCGA-AA-3510 
        8.09         7.59         5.00         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-A00D TCGA-AA-A00J TCGA-AA-A00L TCGA-AA-A00Q TCGA-AA-A00U TCGA-AA-A00W 
       19.00        18.02        17.00        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-A01Z TCGA-AA-A024 TCGA-AA-A029 TCGA-AA-A02E 
       33.04        35.01        20.98        39.06        51.95         2.93 
TCGA-AA-A02F TCGA-AA-A02J TCGA-AA-A02K TCGA-AA-A02O TCGA-AA-A02R TCGA-AA-A02Y 
       39.95         5.03        13.97         0.92        22.03        39.95 
TCGA-AA-A03F TCGA-AA-A03J TCGA-AY-4070 TCGA-AY-4071 TCGA-AZ-4308 TCGA-AZ-4313 
       18.02        40.93        16.31         0.95        56.35        31.46 
TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4615 TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 
       43.86         5.65        16.60        71.67        22.36        56.05 
TCGA-CK-4951 TCGA-CM-4744 TCGA-CM-4746 TCGA-CM-4747 TCGA-CM-4748 TCGA-CM-4750 
       49.02         7.04        22.98         8.02         7.04         8.02 
TCGA-CM-4752 TCGA-CM-5341 
        4.04         6.02 

$subtype2
TCGA-A6-5666 TCGA-A6-6137 TCGA-A6-6142 TCGA-A6-6780 TCGA-AA-3496 TCGA-AA-3502 
        8.02         6.41         4.37         2.83         1.02         1.02 
TCGA-AA-3518 TCGA-AA-3660 TCGA-AA-A010 TCGA-AA-A02H TCGA-AD-6548 TCGA-AD-6964 
        1.02         1.02        20.98         2.01         0.10         0.99 
TCGA-AD-6965 TCGA-AM-5821 TCGA-AY-5543 TCGA-AY-6197 TCGA-AZ-5407 TCGA-AZ-6599 
        0.20         0.92         7.56         3.68        45.86         6.74 
TCGA-AZ-6606 TCGA-CA-5797 TCGA-CK-4948 TCGA-CK-5912 TCGA-CM-5862 TCGA-CM-5864 
       11.74         0.26       102.44        48.03         5.03         2.01 
TCGA-CM-6169 TCGA-CM-6172 TCGA-D5-5538 TCGA-D5-6920 TCGA-DM-A0X9 TCGA-DM-A0XD 
        7.99         6.94         6.71         3.65       112.73        24.43 
TCGA-DM-A1D0 TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A285 TCGA-DM-A28F TCGA-DM-A28K 
      119.05        44.32       129.11         6.08        35.97        93.21 
TCGA-F4-6808 TCGA-G4-6293 TCGA-G4-6304 TCGA-G4-6307 TCGA-G4-6322 TCGA-G4-6323 
        0.46       105.30        53.62        48.82        17.95         6.61 

$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-A6-5661 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5665 TCGA-A6-5667 TCGA-A6-6138 
       10.06         9.76        11.90         9.40        10.52         5.95 
TCGA-A6-6140 TCGA-A6-6141 TCGA-A6-6648 TCGA-A6-6649 TCGA-A6-6650 TCGA-A6-6651 
        4.08         4.24         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-3663 TCGA-AA-3697 TCGA-AA-3713 TCGA-AA-A00O TCGA-AA-A01X TCGA-AD-5900 
        1.02         0.95         0.95        27.02        26.01         0.07 
TCGA-AD-6888 TCGA-AD-6889 TCGA-AD-6890 TCGA-AD-6895 TCGA-AD-6899 TCGA-AD-6901 
        4.21        56.52         0.79         0.72         1.55         1.02 
TCGA-AD-6963 TCGA-AM-5820 TCGA-AU-3779 TCGA-AU-6004 TCGA-AY-6196 TCGA-AY-6386 
        0.10         0.46        14.47         6.67         0.20         5.52 
TCGA-AZ-4323 TCGA-AZ-4616 TCGA-AZ-5403 TCGA-AZ-6598 TCGA-AZ-6600 TCGA-AZ-6601 
        1.41         5.13        62.79        49.41        12.10        99.98 
TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-AZ-6608 TCGA-CA-5254 TCGA-CA-5255 
       29.56         5.23         3.19         1.94         0.16         0.07 
TCGA-CA-5796 TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6717 TCGA-CA-6718 TCGA-CA-6719 
        0.39         0.07         0.26         0.33         0.10         1.35 
TCGA-CK-4947 TCGA-CK-4950 TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-5914 TCGA-CK-5916 
       17.52        40.31        15.58        28.04        21.99        21.01 
TCGA-CK-6747 TCGA-CK-6748 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 TCGA-CM-5344 
        2.93         2.01       103.04         6.05        19.96         9.99 
TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-5868 
       12.92        11.01         9.99        11.01         9.99         9.99 
TCGA-CM-6161 TCGA-CM-6162 TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 TCGA-CM-6166 
        6.97         6.97         2.96        16.01         6.97        13.94 
TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6675 
        4.01         5.95         7.96         5.95         4.90         5.00 
TCGA-CM-6676 TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6679 TCGA-CM-6680 TCGA-D5-5537 
        5.00         5.00         4.01         4.01         2.99        14.99 
TCGA-D5-5539 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6531 
        0.99         6.51         6.64         8.55         8.91         0.56 
TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6534 TCGA-D5-6535 TCGA-D5-6536 TCGA-D5-6537 
        3.52         1.32         7.92         0.33         9.44         4.47 
TCGA-D5-6538 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6898 TCGA-D5-6922 
        8.09         4.73         6.12         3.55         1.48         4.37 
TCGA-D5-6923 TCGA-D5-6924 TCGA-D5-6926 TCGA-D5-6927 TCGA-D5-6928 TCGA-D5-6929 
        1.38         2.89         3.12         2.20         0.66         4.77 
TCGA-D5-6930 TCGA-D5-6931 TCGA-D5-6932 TCGA-D5-7000 TCGA-DM-A0XF TCGA-DM-A1D4 
        1.48         1.41         0.62         1.35        38.20        92.75 
TCGA-DM-A1D6 TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1HB TCGA-DM-A280 
       49.91        12.59       129.11         7.46       124.08         7.73 
TCGA-DM-A282 TCGA-DM-A288 TCGA-DM-A28A TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28G 
      135.52        14.01        26.47        81.37       116.02        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-G4-6309 TCGA-G4-6310 TCGA-G4-6311 TCGA-G4-6314 TCGA-G4-6315 
       44.65        45.57        39.58        36.56        33.90        30.81 
TCGA-G4-6317 TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6625 
       29.36        22.29        18.77        24.36        21.17        87.85 
TCGA-G4-6626 TCGA-G4-6627 TCGA-G4-6628 
       46.75        47.15        52.96 

subtype1 subtype2 subtype3 
    0.92     0.10     0.07 
subtype1 subtype2 subtype3 
   71.67   129.11   135.52 
subtype1 subtype2 subtype3 
   8.615    6.725    6.970 
[1] "0.9 - 71.7 (8.6)"  "0.1 - 129.1 (6.7)" "0.1 - 135.5 (7.0)"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [31] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [37] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [49] "subtype3" "subtype1" "subtype1" "subtype2" "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" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[139] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[163] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[199] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[211] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[217] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "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" "subtype3" "subtype3" "subtype2" "subtype2"
[253] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[265] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[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] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[301] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[307] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [31] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [37] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [49] "subtype3" "subtype1" "subtype1" "subtype2" "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" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[139] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[163] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[199] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[211] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[217] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "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" "subtype3" "subtype3" "subtype2" "subtype2"
[253] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[265] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[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] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[301] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[307] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [31] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [37] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [49] "subtype3" "subtype1" "subtype1" "subtype2" "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" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[139] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[151] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[163] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[199] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[211] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[217] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "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" "subtype3" "subtype3" "subtype2" "subtype2"
[253] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[259] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[265] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[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] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[301] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[307] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
D10V2, continuous
D10V3, binary
          cls
clus         0   1
  subtype1  90  90
  subtype2  22  23
  subtype3  79 103
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   90   90
  subtype2   22   23
  subtype3   79  103
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       90       22       79
  MALE         90       23      103
D10V4, binary
          cls
clus         0   1
  subtype1 152  26
  subtype2  41   4
  subtype3 157  25
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  152   26
  subtype2   41    4
  subtype3  157   25
                               clus
vv                              subtype1 subtype2 subtype3
  COLON ADENOCARCINOMA               152       41      157
  COLON MUCINOUS ADENOCARCINOMA       26        4       25
D10V5, binary
          cls
clus         0   1
  subtype1   1 179
  subtype2   0  45
  subtype3   2 180
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1  179
  subtype2    0   45
  subtype3    2  180
     clus
vv    subtype1 subtype2 subtype3
  NO         1        0        2
  YES      179       45      180
          vv
clus        M0  M1 M1A M1B  MX
  subtype1 146  29   2   0   0
  subtype2  30   5   2   0   6
  subtype3 130  16   3   1  30
D10V6, multiclass
          vv
clus        N0  N1 N1A N1B N1C  N2 N2A N2B  NX
  subtype1 107  33   1   5   0  32   1   0   0
  subtype2  26   5   4   1   1   6   0   2   0
  subtype3 107  30   8   6   1  19   3   7   1
D10V7, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1 148   2  22   1
  subtype2  24   0   2   1
  subtype3 109   1   1  20
D10V8, multiclass
D10V9, continuous
D10V10, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      35        0       18        43         4         0        13
  subtype2       7        1        2        13         2         1         2
  subtype3      24        0       13        58         2         0         7
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          4         15         13       25         5         0
  subtype2          1          6          1        4         3         0
  subtype3          7         26         18       12         8         1
D10V11, multiclass

Clustering(11) Variable = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2       0  1
  subtype1 59 15
  subtype2 62 11
  subtype3 55  6
subtype1 subtype2 subtype3 
      74       73       61 
subtype1 subtype2 subtype3 
      15       11        6 
$subtype1
TCGA-A6-2672 TCGA-A6-4105 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6141 TCGA-A6-6648 
       16.54        14.50        10.06         9.40         4.24         8.32 
TCGA-A6-6653 TCGA-A6-6780 TCGA-A6-6781 TCGA-AA-3663 TCGA-AA-3713 TCGA-AD-6548 
        2.96         2.83         5.19         1.02         0.95         0.10 
TCGA-AD-6888 TCGA-AD-6889 TCGA-AD-6963 TCGA-AM-5821 TCGA-AU-6004 TCGA-AY-5543 
        4.21        56.52         0.10         0.92         6.67         7.56 
TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4616 TCGA-AZ-6598 TCGA-AZ-6600 TCGA-AZ-6601 
        3.68         5.52         5.13        49.41        12.10        99.98 
TCGA-AZ-6606 TCGA-CA-5254 TCGA-CA-5796 TCGA-CA-6718 TCGA-CK-4948 TCGA-CK-4950 
       11.74         0.16         0.39         0.10       102.44        40.31 
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-6171 TCGA-CM-6675 TCGA-CM-6680 TCGA-D5-6530 TCGA-D5-6535 
       11.01         5.95         5.00         2.99         8.91         0.33 
TCGA-D5-6537 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6920 TCGA-D5-6927 TCGA-D5-6931 
        4.47         4.73         6.12         3.65         2.20         1.41 
TCGA-D5-7000 TCGA-DM-A0XD TCGA-DM-A1D4 TCGA-DM-A1D6 TCGA-DM-A1DA TCGA-DM-A1DB 
        1.35        24.43        92.75        49.91         7.46        44.32 
TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A288 TCGA-DM-A28K TCGA-DM-A28M TCGA-F4-6806 
      124.08         7.73        14.01        93.21        91.20         0.66 
TCGA-F4-6855 TCGA-F4-6856 TCGA-G4-6295 TCGA-G4-6304 TCGA-G4-6306 TCGA-G4-6309 
        1.38         0.66         8.35        53.62        44.65        45.57 
TCGA-G4-6321 TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6625 
       18.77        17.95         6.61        24.36        21.17        87.85 
TCGA-G4-6626 TCGA-G4-6628 
       46.75        52.96 

$subtype2
TCGA-A6-2675 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5666 TCGA-A6-6137 TCGA-A6-6138 
       16.93         9.40        11.24         8.02         6.41         5.95 
TCGA-A6-6140 TCGA-A6-6650 TCGA-A6-6652 TCGA-AA-3496 TCGA-AA-3660 TCGA-AA-3697 
        4.08         5.65         4.41         1.02         1.02         0.95 
TCGA-AD-6890 TCGA-AD-6899 TCGA-AD-6965 TCGA-AU-3779 TCGA-AZ-5407 TCGA-AZ-6599 
        0.79         1.55         0.20        14.47        45.86         6.74 
TCGA-AZ-6603 TCGA-AZ-6608 TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6719 TCGA-CK-5912 
       29.56         1.94         0.07         0.26         1.35        48.03 
TCGA-CK-5914 TCGA-CK-6747 TCGA-CK-6748 TCGA-CM-5860 TCGA-CM-5862 TCGA-CM-5864 
       21.99         2.93         2.01         9.99         5.03         2.01 
TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6170 TCGA-CM-6172 TCGA-CM-6676 TCGA-CM-6677 
        9.99         6.97         7.96         6.94         5.00         5.00 
TCGA-CM-6678 TCGA-D5-5537 TCGA-D5-5538 TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6529 
        4.01        14.99         6.71         6.51         6.64         8.55 
TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6538 TCGA-D5-6541 TCGA-D5-6923 TCGA-D5-6924 
        3.52         1.32         8.09         3.55         1.38         2.89 
TCGA-D5-6926 TCGA-D5-6929 TCGA-D5-6932 TCGA-DM-A0X9 TCGA-DM-A0XF TCGA-DM-A1D0 
        3.12         4.77         0.62       112.73        38.20       119.05 
TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1HA TCGA-DM-A282 TCGA-DM-A28A TCGA-DM-A28C 
       12.59       129.11       129.11       135.52        26.47        81.37 
TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28H TCGA-F4-6808 TCGA-G4-6293 
      116.02        35.97        60.79       112.50         0.46       105.30 
TCGA-G4-6294 TCGA-G4-6297 TCGA-G4-6299 TCGA-G4-6307 TCGA-G4-6311 TCGA-G4-6315 
       28.21        75.22        68.28        48.82        36.56        30.81 
TCGA-G4-6317 
       29.36 

$subtype3
TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5667 TCGA-A6-6142 
       15.19        12.07         9.76        11.90        10.52         4.37 
TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6654 TCGA-A6-6782 TCGA-AA-3489 TCGA-AD-5900 
        4.80         8.15         5.82         5.39         1.02         0.07 
TCGA-AD-6895 TCGA-AD-6901 TCGA-AD-6964 TCGA-AM-5820 TCGA-AY-6196 TCGA-AZ-4323 
        0.72         1.02         0.99         0.46         0.20         1.41 
TCGA-AZ-5403 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-5255 TCGA-CA-5797 TCGA-CA-6717 
       62.79         5.23         3.19         0.07         0.26         0.33 
TCGA-CK-4947 TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5863 TCGA-CM-6162 
       17.52         9.99        12.92        11.01         9.99         6.97 
TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6167 TCGA-CM-6168 
        2.96        16.01         6.97        13.94         4.01         5.95 
TCGA-CM-6169 TCGA-CM-6674 TCGA-CM-6679 TCGA-D5-5539 TCGA-D5-6531 TCGA-D5-6534 
        7.99         4.90         4.01         0.99         0.56         7.92 
TCGA-D5-6536 TCGA-D5-6898 TCGA-D5-6922 TCGA-D5-6928 TCGA-D5-6930 TCGA-DM-A285 
        9.44         1.48         4.37         0.66         1.48         6.08 
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-G4-6298 TCGA-G4-6302 TCGA-G4-6303 TCGA-G4-6310 TCGA-G4-6314 TCGA-G4-6320 
       23.51        43.04        61.87        39.58        33.90        22.29 
TCGA-G4-6627 
       47.15 

subtype1 subtype2 subtype3 
    0.10     0.07     0.07 
subtype1 subtype2 subtype3 
  124.08   135.52    62.79 
subtype1 subtype2 subtype3 
   8.335    6.970    5.230 
[1] "0.1 - 124.1 (8.3)" "0.1 - 135.5 (7.0)" "0.1 - 62.8 (5.2)" 
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [31] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [37] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [49] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
 [73] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[109] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[139] "subtype2" "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" "subtype2" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[193] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[199] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [31] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [37] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [49] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
 [73] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[109] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[139] "subtype2" "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" "subtype2" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[193] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[199] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
  [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [31] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [37] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [49] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [61] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
 [73] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[109] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[139] "subtype2" "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" "subtype2" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[193] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[199] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1"
D11V2, continuous
D11V3, binary
          cls
clus        0  1
  subtype1 38 39
  subtype2 33 46
  subtype3 26 39
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   38   39
  subtype2   33   46
  subtype3   26   39
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       38       33       26
  MALE         39       46       39
D11V4, binary
          cls
clus        0  1
  subtype1 64 13
  subtype2 76  3
  subtype3 52 13
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   64   13
  subtype2   76    3
  subtype3   52   13
                               clus
vv                              subtype1 subtype2 subtype3
  COLON ADENOCARCINOMA                64       76       52
  COLON MUCINOUS ADENOCARCINOMA       13        3       13
D11V5, binary
          cls
clus        0  1
  subtype1  0 77
  subtype2  1 78
  subtype3  1 64
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   77
  subtype2    1   78
  subtype3    1   64
     clus
vv    subtype1 subtype2 subtype3
  NO         0        1        1
  YES       77       78       64
          vv
clus       M0 M1 M1A M1B MX
  subtype1 57  5   1   1 12
  subtype2 55  7   3   0 13
  subtype3 43  8   1   0 11
D11V6, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 54  9   3   2   0  6   1   1  1
  subtype2 44 14   4   1   2 10   1   3  0
  subtype3 31 12   5   4   0  7   1   5  0
D11V7, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 43  1  1  8
  subtype2 41  0  1  9
  subtype3 45  0  0  3
D11V8, multiclass
D11V9, continuous
D11V10, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1      12        1        7        28         2         0         2
  subtype2      12        0        4        22         0         1         5
  subtype3       6        0        4        19         1         0         1
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          3         10          4        4         2         1
  subtype2          3         10          8        6         4         0
  subtype3          2         13          6        5         5         0
D11V11, multiclass

Clustering(12) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D12V1, survival
          sevent
clus2       0  1
  subtype1 16  3
  subtype2 43  4
  subtype3 50  9
  subtype4 31 12
  subtype5 36  4
subtype1 subtype2 subtype3 subtype4 subtype5 
      19       47       59       43       40 
subtype1 subtype2 subtype3 subtype4 subtype5 
       3        4        9       12        4 
$subtype1
TCGA-A6-5660 TCGA-A6-5664 TCGA-CA-6715 TCGA-CA-6716 TCGA-CK-5914 TCGA-CM-6161 
       11.24        11.90         0.07         0.26        21.99         6.97 
TCGA-CM-6166 TCGA-D5-5540 TCGA-D5-6533 TCGA-D5-6538 TCGA-D5-6924 TCGA-D5-6929 
       13.94         6.51         1.32         8.09         2.89         4.77 
TCGA-DM-A0XF TCGA-DM-A282 TCGA-DM-A28G TCGA-G4-6295 TCGA-G4-6298 TCGA-G4-6314 
       38.20       135.52        60.79         8.35        23.51        33.90 
TCGA-G4-6315 
       30.81 

$subtype2
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-A6-6651 TCGA-A6-6654 TCGA-A6-6782 TCGA-AA-3489 TCGA-AD-6899 TCGA-AD-6901 
        8.15         5.82         5.39         1.02         1.55         1.02 
TCGA-AM-5820 TCGA-AY-6196 TCGA-AZ-4323 TCGA-AZ-5403 TCGA-AZ-6603 TCGA-AZ-6605 
        0.46         0.20         1.41        62.79        29.56         5.23 
TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-6717 TCGA-CA-6719 TCGA-CK-6748 TCGA-CM-5348 
        0.16         0.07         0.33         1.35         2.01        12.92 
TCGA-CM-5868 TCGA-CM-6164 TCGA-CM-6165 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6679 
        9.99        16.01         6.97         4.01         5.95         4.01 
TCGA-D5-6531 TCGA-D5-6534 TCGA-D5-6898 TCGA-D5-6922 TCGA-D5-6926 TCGA-D5-6928 
        0.56         7.92         1.48         4.37         3.12         0.66 
TCGA-D5-6932 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6809 TCGA-F4-6854 
        0.62         1.51         0.53         0.53         1.25         0.53 
TCGA-F4-6855 TCGA-G4-6302 TCGA-G4-6303 TCGA-G4-6310 TCGA-G4-6627 
        1.38        43.04        61.87        39.58        47.15 

$subtype3
TCGA-A6-2672 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6141 TCGA-A6-6649 TCGA-A6-6653 
       16.54        10.06         9.40         4.24         4.80         2.96 
TCGA-A6-6780 TCGA-A6-6781 TCGA-AA-3663 TCGA-AA-3713 TCGA-AD-5900 TCGA-AD-6889 
        2.83         5.19         1.02         0.95         0.07        56.52 
TCGA-AD-6895 TCGA-AM-5821 TCGA-AU-6004 TCGA-AY-6197 TCGA-AZ-4616 TCGA-AZ-6600 
        0.72         0.92         6.67         3.68         5.13        12.10 
TCGA-AZ-6601 TCGA-AZ-6606 TCGA-AZ-6607 TCGA-CA-5796 TCGA-CA-6718 TCGA-CK-4952 
       99.98        11.74         3.19         0.39         0.10        15.58 
TCGA-CK-5913 TCGA-CK-5916 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 TCGA-CM-5861 
       28.04        21.01       103.04         6.05        19.96        11.01 
TCGA-CM-5863 TCGA-CM-6162 TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6675 TCGA-CM-6678 
        9.99         6.97         5.95         4.90         5.00         4.01 
TCGA-CM-6680 TCGA-D5-5539 TCGA-D5-6530 TCGA-D5-6536 TCGA-D5-6540 TCGA-D5-6927 
        2.99         0.99         8.91         9.44         6.12         2.20 
TCGA-D5-6930 TCGA-D5-6931 TCGA-D5-7000 TCGA-DM-A0XD TCGA-DM-A1D6 TCGA-DM-A1HA 
        1.48         1.41         1.35        24.43        49.91       129.11 
TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A28K TCGA-F4-6703 TCGA-F4-6856 TCGA-G4-6299 
      124.08         7.73        93.21         1.84         0.66        68.28 
TCGA-G4-6304 TCGA-G4-6309 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6628 
       53.62        45.57        24.36        21.17        52.96 

$subtype4
TCGA-A6-4105 TCGA-A6-6137 TCGA-A6-6140 TCGA-A6-6648 TCGA-A6-6650 TCGA-A6-6652 
       14.50         6.41         4.08         8.32         5.65         4.41 
TCGA-AD-6888 TCGA-AD-6890 TCGA-AD-6963 TCGA-AY-6386 TCGA-AZ-6598 TCGA-AZ-6608 
        4.21         0.79         0.10         5.52        49.41         1.94 
TCGA-CK-6747 TCGA-CM-6676 TCGA-CM-6677 TCGA-D5-5537 TCGA-D5-6529 TCGA-D5-6532 
        2.93         5.00         5.00        14.99         8.55         3.52 
TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6541 TCGA-D5-6920 TCGA-D5-6923 TCGA-DM-A0X9 
        0.33         4.47         3.55         3.65         1.38       112.73 
TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB 
      119.05        92.75        12.59       129.11         7.46        44.32 
TCGA-DM-A288 TCGA-DM-A28A TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28H TCGA-DM-A28M 
       14.01        26.47        81.37       116.02       112.50        91.20 
TCGA-F4-6806 TCGA-F4-6808 TCGA-G4-6294 TCGA-G4-6306 TCGA-G4-6317 TCGA-G4-6625 
        0.66         0.46        28.21        44.65        29.36        87.85 
TCGA-G4-6626 
       46.75 

$subtype5
TCGA-A6-2675 TCGA-A6-5666 TCGA-A6-6142 TCGA-AA-3496 TCGA-AA-3660 TCGA-AA-3697 
       16.93         8.02         4.37         1.02         1.02         0.95 
TCGA-AD-6548 TCGA-AD-6964 TCGA-AD-6965 TCGA-AU-3779 TCGA-AY-5543 TCGA-AZ-5407 
        0.10         0.99         0.20        14.47         7.56        45.86 
TCGA-AZ-6599 TCGA-CA-5797 TCGA-CK-4947 TCGA-CK-4948 TCGA-CK-4950 TCGA-CK-5912 
        6.74         0.26        17.52       102.44        40.31        48.03 
TCGA-CM-5344 TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-6163 
        9.99        11.01         9.99         5.03         2.01         2.96 
TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6172 TCGA-D5-5538 TCGA-D5-5541 TCGA-D5-6539 
        7.99         7.96         6.94         6.71         6.64         4.73 
TCGA-DM-A285 TCGA-DM-A28F TCGA-G4-6293 TCGA-G4-6297 TCGA-G4-6307 TCGA-G4-6311 
        6.08        35.97       105.30        75.22        48.82        36.56 
TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6322 TCGA-G4-6323 
       22.29        18.77        17.95         6.61 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.07     0.07     0.07     0.10     0.10 
subtype1 subtype2 subtype3 subtype4 subtype5 
  135.52    62.79   129.11   129.11   105.30 
subtype1 subtype2 subtype3 subtype4 subtype5 
  11.240    4.010    6.670    8.320    7.975 
[1] "0.1 - 135.5 (11.2)" "0.1 - 62.8 (4.0)"   "0.1 - 129.1 (6.7)" 
[4] "0.1 - 129.1 (8.3)"  "0.1 - 105.3 (8.0)" 
  [1] "subtype3" "subtype5" "subtype4" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype5"
 [13] "subtype2" "subtype4" "subtype2" "subtype4" "subtype3" "subtype5"
 [19] "subtype4" "subtype3" "subtype4" "subtype2" "subtype4" "subtype3"
 [25] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype5"
 [31] "subtype5" "subtype3" "subtype5" "subtype3" "subtype3" "subtype5"
 [37] "subtype4" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
 [43] "subtype4" "subtype5" "subtype5" "subtype2" "subtype3" "subtype5"
 [49] "subtype3" "subtype5" "subtype2" "subtype3" "subtype4" "subtype2"
 [55] "subtype3" "subtype2" "subtype5" "subtype4" "subtype5" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype4"
 [67] "subtype2" "subtype2" "subtype3" "subtype5" "subtype1" "subtype1"
 [73] "subtype2" "subtype3" "subtype2" "subtype5" "subtype5" "subtype5"
 [79] "subtype3" "subtype5" "subtype3" "subtype1" "subtype3" "subtype4"
 [85] "subtype2" "subtype3" "subtype3" "subtype3" "subtype5" "subtype2"
 [91] "subtype5" "subtype5" "subtype3" "subtype5" "subtype3" "subtype5"
 [97] "subtype2" "subtype1" "subtype3" "subtype5" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype5" "subtype5" "subtype3"
[109] "subtype5" "subtype3" "subtype3" "subtype4" "subtype4" "subtype3"
[115] "subtype2" "subtype3" "subtype4" "subtype5" "subtype3" "subtype1"
[121] "subtype5" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[127] "subtype2" "subtype4" "subtype3" "subtype4" "subtype1" "subtype5"
[133] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
[139] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype4" "subtype3" "subtype1"
[151] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
[157] "subtype4" "subtype3" "subtype3" "subtype3" "subtype1" "subtype5"
[163] "subtype4" "subtype4" "subtype4" "subtype4" "subtype5" "subtype1"
[169] "subtype4" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[175] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype5" "subtype4" "subtype1" "subtype5" "subtype1"
[187] "subtype3" "subtype2" "subtype2" "subtype3" "subtype4" "subtype5"
[193] "subtype3" "subtype2" "subtype5" "subtype1" "subtype1" "subtype4"
[199] "subtype5" "subtype5" "subtype5" "subtype5" "subtype3" "subtype3"
[205] "subtype4" "subtype4" "subtype2" "subtype3"
  [1] "subtype3" "subtype5" "subtype4" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype5"
 [13] "subtype2" "subtype4" "subtype2" "subtype4" "subtype3" "subtype5"
 [19] "subtype4" "subtype3" "subtype4" "subtype2" "subtype4" "subtype3"
 [25] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype5"
 [31] "subtype5" "subtype3" "subtype5" "subtype3" "subtype3" "subtype5"
 [37] "subtype4" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
 [43] "subtype4" "subtype5" "subtype5" "subtype2" "subtype3" "subtype5"
 [49] "subtype3" "subtype5" "subtype2" "subtype3" "subtype4" "subtype2"
 [55] "subtype3" "subtype2" "subtype5" "subtype4" "subtype5" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype4"
 [67] "subtype2" "subtype2" "subtype3" "subtype5" "subtype1" "subtype1"
 [73] "subtype2" "subtype3" "subtype2" "subtype5" "subtype5" "subtype5"
 [79] "subtype3" "subtype5" "subtype3" "subtype1" "subtype3" "subtype4"
 [85] "subtype2" "subtype3" "subtype3" "subtype3" "subtype5" "subtype2"
 [91] "subtype5" "subtype5" "subtype3" "subtype5" "subtype3" "subtype5"
 [97] "subtype2" "subtype1" "subtype3" "subtype5" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype5" "subtype5" "subtype3"
[109] "subtype5" "subtype3" "subtype3" "subtype4" "subtype4" "subtype3"
[115] "subtype2" "subtype3" "subtype4" "subtype5" "subtype3" "subtype1"
[121] "subtype5" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[127] "subtype2" "subtype4" "subtype3" "subtype4" "subtype1" "subtype5"
[133] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
[139] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype4" "subtype3" "subtype1"
[151] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
[157] "subtype4" "subtype3" "subtype3" "subtype3" "subtype1" "subtype5"
[163] "subtype4" "subtype4" "subtype4" "subtype4" "subtype5" "subtype1"
[169] "subtype4" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[175] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype5" "subtype4" "subtype1" "subtype5" "subtype1"
[187] "subtype3" "subtype2" "subtype2" "subtype3" "subtype4" "subtype5"
[193] "subtype3" "subtype2" "subtype5" "subtype1" "subtype1" "subtype4"
[199] "subtype5" "subtype5" "subtype5" "subtype5" "subtype3" "subtype3"
[205] "subtype4" "subtype4" "subtype2" "subtype3"
  [1] "subtype3" "subtype5" "subtype4" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype5"
 [13] "subtype2" "subtype4" "subtype2" "subtype4" "subtype3" "subtype5"
 [19] "subtype4" "subtype3" "subtype4" "subtype2" "subtype4" "subtype3"
 [25] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype5"
 [31] "subtype5" "subtype3" "subtype5" "subtype3" "subtype3" "subtype5"
 [37] "subtype4" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
 [43] "subtype4" "subtype5" "subtype5" "subtype2" "subtype3" "subtype5"
 [49] "subtype3" "subtype5" "subtype2" "subtype3" "subtype4" "subtype2"
 [55] "subtype3" "subtype2" "subtype5" "subtype4" "subtype5" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype4"
 [67] "subtype2" "subtype2" "subtype3" "subtype5" "subtype1" "subtype1"
 [73] "subtype2" "subtype3" "subtype2" "subtype5" "subtype5" "subtype5"
 [79] "subtype3" "subtype5" "subtype3" "subtype1" "subtype3" "subtype4"
 [85] "subtype2" "subtype3" "subtype3" "subtype3" "subtype5" "subtype2"
 [91] "subtype5" "subtype5" "subtype3" "subtype5" "subtype3" "subtype5"
 [97] "subtype2" "subtype1" "subtype3" "subtype5" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype5" "subtype5" "subtype3"
[109] "subtype5" "subtype3" "subtype3" "subtype4" "subtype4" "subtype3"
[115] "subtype2" "subtype3" "subtype4" "subtype5" "subtype3" "subtype1"
[121] "subtype5" "subtype4" "subtype3" "subtype2" "subtype4" "subtype1"
[127] "subtype2" "subtype4" "subtype3" "subtype4" "subtype1" "subtype5"
[133] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
[139] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype2" "subtype3" "subtype4" "subtype3" "subtype1"
[151] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
[157] "subtype4" "subtype3" "subtype3" "subtype3" "subtype1" "subtype5"
[163] "subtype4" "subtype4" "subtype4" "subtype4" "subtype5" "subtype1"
[169] "subtype4" "subtype3" "subtype4" "subtype3" "subtype2" "subtype2"
[175] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype2"
[181] "subtype3" "subtype5" "subtype4" "subtype1" "subtype5" "subtype1"
[187] "subtype3" "subtype2" "subtype2" "subtype3" "subtype4" "subtype5"
[193] "subtype3" "subtype2" "subtype5" "subtype1" "subtype1" "subtype4"
[199] "subtype5" "subtype5" "subtype5" "subtype5" "subtype3" "subtype3"
[205] "subtype4" "subtype4" "subtype2" "subtype3"
D12V2, continuous
D12V3, binary
          cls
clus        0  1
  subtype1 10 12
  subtype2 21 28
  subtype3 26 36
  subtype4 18 28
  subtype5 22 20
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   10   12
  subtype2   21   28
  subtype3   26   36
  subtype4   18   28
  subtype5   22   20
D12V4, binary
          cls
clus        0  1
  subtype1 20  2
  subtype2 41  8
  subtype3 46 16
  subtype4 45  1
  subtype5 40  2
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   20    2
  subtype2   41    8
  subtype3   46   16
  subtype4   45    1
  subtype5   40    2
D12V5, binary
          cls
clus        0  1
  subtype1  0 22
  subtype2  2 47
  subtype3  0 62
  subtype4  0 46
  subtype5  0 42
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   22
  subtype2    2   47
  subtype3    0   62
  subtype4    0   46
  subtype5    0   42
          vv
clus       M0 M1 M1A M1B MX
  subtype1 15  3   0   0  4
  subtype2 33  6   1   0  8
  subtype3 47  5   1   1  7
  subtype4 34  2   1   0  8
  subtype5 26  4   2   0  9
D12V6, multiclass
          vv
clus       N0 N1 N1A N1B N1C N2 N2A N2B NX
  subtype1 11  6   0   0   0  3   1   1  0
  subtype2 26 10   3   1   0  3   1   5  0
  subtype3 40  5   2   4   1  8   1   1  0
  subtype4 33  4   2   0   1  5   0   0  1
  subtype5 19 10   5   2   0  4   0   2  0
D12V7, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 12  0  0  4
  subtype2 32  0  0  5
  subtype3 37  0  1  6
  subtype4 19  0  0  3
  subtype5 29  1  1  2
D12V8, multiclass
D12V9, continuous
D12V10, continuous
          vv
clus       STAGE I STAGE IA STAGE II STAGE IIA STAGE IIB STAGE IIC STAGE III
  subtype1       3        0        2         5         0         0         1
  subtype2       5        0        5        14         1         0         0
  subtype3      11        0        3        23         2         0         1
  subtype4       4        0        3        21         0         0         0
  subtype5       7        1        2         6         0         1         6
          vv
clus       STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV STAGE IVA STAGE IVB
  subtype1          0          5          3        3         0         0
  subtype2          2          8          5        3         4         0
  subtype3          1          8          5        5         1         1
  subtype4          2          5          5        1         2         0
  subtype5          3          7          0        3         4         0
D12V11, multiclass
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
                                "GENDER" 
                                      V4 
                     "HISTOLOGICAL.TYPE" 
                                      V5 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                      V6 
                    "DISTANT.METASTASIS" 
                                      V7 
                 "LYMPH.NODE.METASTASIS" 
                                      V8 
             "COMPLETENESS.OF.RESECTION" 
                                      V9 
                 "NUMBER.OF.LYMPH.NODES" 
                                     V10 
                       "TUMOR.STAGECODE" 
                                     V11 
                 "NEOPLASM.DISEASESTAGE" 
> q(save="no")
