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

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.73.3976/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.73.3976/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/COAD/1929620/1.GDAC_mergedClustering.Finished/COAD.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/COAD/1764721/1.GDAC_clinicalDataPicker.Finished/COAD.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=1", "-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=423, in cluster file=423, common to both=422
[1]   8 422
[1] "MRNA_CNMF"
[1] 3
 1  2  3  4 
63 35 31 26 
 1  2  3  4 
63 35 31 26 
[1] "MRNA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
47 48 14 46 
 1  2  3  4 
47 48 14 46 
[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 
106  82  66 
  1   2   3 
106  82  66 
[1] "RPPA_CNMF"
[1] 3
  1   2   3   4 
 65 119   7  78 
  1   2   3   4 
 65 119   7  78 
[1] "RPPA_CHIERARCHICAL"
[1] 3
  1   2   3   4 
143  25  49  52 
  1   2   3   4 
143  25  49  52 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
156  46 176 
  1   2   3 
156  46 176 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3   4 
179  50 108  41 
  1   2   3   4 
179  50 108  41 
[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] "PATHOLOGICSPREAD(PT)"                  
[12] "PATHOLOGICSPREAD(PN)"                  
[13] "PATHOLOGICSPREAD(M)"                   
[14] "TUMORSTAGE"                            
[15] "RADIATIONS.RADIATION.REGIMENINDICATION"
[16] "NEOADJUVANTTHERAPY"                    
[17] "BATCHNUMBER"                           

Input Data has 17 rows and 422 columns.

[1] "Batch" "17"   
[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          424 
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          441          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           91 
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           31 
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           NA 
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 
          31           NA           NA           31           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          122          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 
        1158           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         1188         1580           89 
TCGA-AA-A02F TCGA-AA-A02H TCGA-AA-A02J TCGA-AA-A02K TCGA-AA-A02O TCGA-AA-A02R 
        1215           61          153          425           28          670 
TCGA-AA-A02W TCGA-AA-A02Y TCGA-AA-A03F TCGA-AA-A03J TCGA-AD-5900 TCGA-AD-6548 
        1246         1215          548         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           NA 
TCGA-AU-6004 TCGA-AY-4070 TCGA-AY-4071 TCGA-AY-5543 TCGA-AY-6196 TCGA-AY-6197 
          40          496           29          230            6          112 
TCGA-AY-6386 TCGA-AZ-4308 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4323 TCGA-AZ-4614 
         162         1714          957         1334           NA          172 
TCGA-AZ-4615 TCGA-AZ-4616 TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-5403 
         505           NA         2180          680         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 
         858          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=205,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=5,	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=110,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'HISTOLOGICAL.TYPE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'PATHOLOGY.T':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'PATHOLOGY.N':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'PATHOLOGICSPREAD(M)':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'TUMOR.STAGE':	nDistinctValues=13,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'NEOADJUVANT.THERAPY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'BATCH.NUMBER':	nDistinctValues=18,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                                   
[2] "GENDER"                                
[3] "HISTOLOGICAL.TYPE"                     
[4] "PATHOLOGY.T"                           
[5] "PATHOLOGY.N"                           
[6] "PATHOLOGICSPREAD(M)"                   
[7] "TUMOR.STAGE"                           
[8] "RADIATIONS.RADIATION.REGIMENINDICATION"
[9] "NEOADJUVANT.THERAPY"                   
[1] "TUMOR.?STAGE" "7"           
[1] "stage2"
vv
  1   2   3   4 
 68 164 116  57 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "4"          
[1] "PATHOLOGY.N" "5"          
Output Data has 422 columns, 1 survival variables, and 9 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
PATHOLOGY.T, nv=5, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
 T0  T1  T2  T3  T4 
  1  10  73 289  46 
[1] "table(vv)"
vv
T0+T1    T2    T3    T4 
   11    73   289    46 
$ClinVariableName
[1] "PATHOLOGY.T"

$Table
vv
 T0  T1  T2  T3  T4 
  1  10  73 289  46 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


T0+T1    T2    T3    T4 
   11    73   289    46 
PATHOLOGY.N, nv=3, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2 
253  95  72 
[1] "table(vv)"
vv
 N0  N1  N2 
253  95  72 
$ClinVariableName
[1] "PATHOLOGY.N"

$Table
vv
 N0  N1  N2 
253  95  72 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


 N0  N1  N2 
253  95  72 
PATHOLOGICSPREAD(M), nv=5, binary=FALSE, numeric=FALSE
TUMOR.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('TUMOR.?STAGE',vnm)"
vv
  I  II III  IV 
 68 164 116  57 
[1] "table(vv)"
vv
  I  II III  IV 
 68 164 116  57 
$ClinVariableName
[1] "TUMOR.STAGE"

$Table
vv
  I  II III  IV 
 68 164 116  57 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


  I  II III  IV 
 68 164 116  57 
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
NEOADJUVANT.THERAPY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = MRNA_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 21  6
  subtype2 21  1
  subtype3 15  3
  subtype4  7  1
subtype1 subtype2 subtype3 subtype4 
      27       22       18        8 
subtype1 subtype2 subtype3 subtype4 
       6        1        3        1 
$subtype1
TCGA-A6-2670 TCGA-A6-2677 TCGA-A6-2678 TCGA-A6-2683 TCGA-A6-3807 TCGA-AA-3666 
       13.91        17.79        14.37        15.52        10.92         1.02 
TCGA-AA-3679 TCGA-AA-3837 TCGA-AA-3848 TCGA-AA-3952 TCGA-AA-3975 TCGA-AA-A00F 
        0.99         1.02         0.99         1.02         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 

$subtype2
TCGA-A6-2672 TCGA-A6-2674 TCGA-A6-2676 TCGA-A6-3808 TCGA-A6-3809 TCGA-A6-3810 
       16.54        17.19        14.70         9.14        10.29         8.09 
TCGA-AA-3710 TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3842 TCGA-AA-3877 TCGA-AA-3947 
        1.02         0.99         0.99         1.02         0.99         0.99 
TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3966 TCGA-AA-3977 TCGA-AA-A00A TCGA-AA-A00D 
        0.99         1.02         1.02         1.02        18.02        19.00 
TCGA-AA-A00E TCGA-AA-A00R TCGA-AA-A01D TCGA-AA-A02R 
       30.02         0.99         0.99        22.03 

$subtype3
TCGA-AA-3518 TCGA-AA-3526 TCGA-AA-3555 TCGA-AA-3675 TCGA-AA-3818 TCGA-AA-3854 
        1.02         0.99         0.99         1.02         0.99         1.02 
TCGA-AA-3941 TCGA-AA-A004 TCGA-AA-A00J TCGA-AA-A00K TCGA-AA-A00N TCGA-AA-A00U 
        1.02        13.94        18.02        18.02         4.01        17.00 
TCGA-AA-A010 TCGA-AA-A01G TCGA-AA-A01I TCGA-AA-A01Q TCGA-AA-A024 TCGA-AA-A029 
       20.98        12.00        12.00         1.02        39.06        51.95 

$subtype4
TCGA-AA-3562 TCGA-AA-3685 TCGA-AA-3844 TCGA-AA-3846 TCGA-AA-3862 TCGA-AA-3939 
        1.02         0.99         0.92         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 
   40.96    30.02    51.95     1.02 
subtype1 subtype2 subtype3 subtype4 
  14.370    1.020    8.005    0.990 
[1] "1.0 - 41.0 (14.4)" "1.0 - 30.0 (1.0)"  "1.0 - 52.0 (8.0)" 
[4] "0.9 - 1.0 (1.0)"  
 [1] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [7] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[13] "subtype3" "subtype3" "subtype4" "subtype1" "subtype3" "subtype1"
[19] "subtype4" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[25] "subtype2" "subtype4" "subtype4" "subtype1" "subtype3" "subtype4"
[31] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
[37] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[49] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[55] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[67] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[73] "subtype1" "subtype1" "subtype4"
 [1] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [7] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[13] "subtype3" "subtype3" "subtype4" "subtype1" "subtype3" "subtype1"
[19] "subtype4" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[25] "subtype2" "subtype4" "subtype4" "subtype1" "subtype3" "subtype4"
[31] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
[37] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[49] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[55] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[67] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[73] "subtype1" "subtype1" "subtype4"
 [1] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [7] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[13] "subtype3" "subtype3" "subtype4" "subtype1" "subtype3" "subtype1"
[19] "subtype4" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[25] "subtype2" "subtype4" "subtype4" "subtype1" "subtype3" "subtype4"
[31] "subtype2" "subtype4" "subtype3" "subtype2" "subtype2" "subtype2"
[37] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
[43] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
[49] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[55] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[67] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[73] "subtype1" "subtype1" "subtype4"
D1V2, continuous
D1V3, binary
          cls
clus        0  1
  subtype1 32 31
  subtype2 23 12
  subtype3 11 20
  subtype4 10 16
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   32   31
  subtype2   23   12
  subtype3   11   20
  subtype4   10   16
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       32       23       11       10
  MALE         31       12       20       16
D1V4, binary
          cls
clus        0  1
  subtype1 62  1
  subtype2 22 12
  subtype3 21  9
  subtype4 23  2
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   62    1
  subtype2   22   12
  subtype3   21    9
  subtype4   23    2
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA                62       22       21       23
  COLON MUCINOUS ADENOCARCINOMA        1       12        9        2
D1V5, multiclass
D1V6, multiclass
D1V7, multiclass
D1V8, multiclass
D1V9, binary
          cls
clus        0
  subtype1 63
  subtype2 35
  subtype3 31
  subtype4 26
[1] "NOT AVAILABLE: table only has an event [0]"
D1V10, binary
          cls
clus        0  1
  subtype1  5 58
  subtype2  2 33
  subtype3  0 31
  subtype4  0 26
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5   58
  subtype2    2   33
  subtype3    0   31
  subtype4    0   26
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         5        2        0        0
  YES       58       33       31       26

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1 26  2
  subtype2 22  5
  subtype3  5  2
  subtype4 11  2
subtype1 subtype2 subtype3 subtype4 
      28       27        7       13 
subtype1 subtype2 subtype3 subtype4 
       2        5        2        2 
$subtype1
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         1.02 
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 

$subtype2
TCGA-A6-2677 TCGA-A6-2683 TCGA-AA-3666 TCGA-AA-3675 TCGA-AA-3837 TCGA-AA-3848 
       17.79        15.52         1.02         1.02         1.02         0.99 
TCGA-AA-3941 TCGA-AA-A004 TCGA-AA-A00K TCGA-AA-A00L TCGA-AA-A00O TCGA-AA-A00Q 
        1.02        13.94        18.02        17.00        27.02        27.02 
TCGA-AA-A00U TCGA-AA-A00Z TCGA-AA-A010 TCGA-AA-A017 TCGA-AA-A01C TCGA-AA-A01F 
       17.00        21.99        20.98        15.02        15.02        13.02 
TCGA-AA-A01G TCGA-AA-A01I TCGA-AA-A01K TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H 
       12.00        12.00        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-A6-2678 TCGA-AA-3818 TCGA-AA-3844 TCGA-AA-3939 TCGA-AA-A00W TCGA-AA-A024 
       14.37         0.99         0.92         0.99        14.99        39.06 
TCGA-AA-A029 
       51.95 

$subtype4
TCGA-A6-2670 TCGA-A6-3807 TCGA-A6-3810 TCGA-AA-3562 TCGA-AA-3679 TCGA-AA-3685 
       13.91        10.92         8.09         1.02         0.99         0.99 
TCGA-AA-3846 TCGA-AA-3862 TCGA-AA-3952 TCGA-AA-3975 TCGA-AA-3986 TCGA-AA-A00F 
        0.99         1.02         1.02         0.99         0.99        34.03 
TCGA-AY-4071 
        0.95 

subtype1 subtype2 subtype3 subtype4 
    0.99     0.99     0.92     0.95 
subtype1 subtype2 subtype3 subtype4 
   30.02    40.96    51.95    34.03 
subtype1 subtype2 subtype3 subtype4 
    1.02    15.02    14.37     1.02 
[1] "1.0 - 30.0 (1.0)"  "1.0 - 41.0 (15.0)" "0.9 - 52.0 (14.4)"
[4] "0.9 - 34.0 (1.0)" 
 [1] "subtype4" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [7] "subtype2" "subtype4" "subtype1" "subtype1" "subtype4" "subtype1"
[13] "subtype1" "subtype1" "subtype4" "subtype2" "subtype2" "subtype4"
[19] "subtype4" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[25] "subtype1" "subtype3" "subtype4" "subtype2" "subtype1" "subtype4"
[31] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[37] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype2"
[43] "subtype1" "subtype1" "subtype1" "subtype4" "subtype1" "subtype2"
[49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[55] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[67] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[73] "subtype2" "subtype2" "subtype4"
 [1] "subtype4" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [7] "subtype2" "subtype4" "subtype1" "subtype1" "subtype4" "subtype1"
[13] "subtype1" "subtype1" "subtype4" "subtype2" "subtype2" "subtype4"
[19] "subtype4" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[25] "subtype1" "subtype3" "subtype4" "subtype2" "subtype1" "subtype4"
[31] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[37] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype2"
[43] "subtype1" "subtype1" "subtype1" "subtype4" "subtype1" "subtype2"
[49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[55] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[67] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[73] "subtype2" "subtype2" "subtype4"
 [1] "subtype4" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [7] "subtype2" "subtype4" "subtype1" "subtype1" "subtype4" "subtype1"
[13] "subtype1" "subtype1" "subtype4" "subtype2" "subtype2" "subtype4"
[19] "subtype4" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[25] "subtype1" "subtype3" "subtype4" "subtype2" "subtype1" "subtype4"
[31] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
[37] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype2"
[43] "subtype1" "subtype1" "subtype1" "subtype4" "subtype1" "subtype2"
[49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[55] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[67] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[73] "subtype2" "subtype2" "subtype4"
D2V2, continuous
D2V3, binary
          cls
clus        0  1
  subtype1 27 20
  subtype2 27 21
  subtype3  6  8
  subtype4 16 30
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   27   20
  subtype2   27   21
  subtype3    6    8
  subtype4   16   30
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       27       27        6       16
  MALE         20       21        8       30
D2V4, binary
          cls
clus        0  1
  subtype1 25 20
  subtype2 46  2
  subtype3 12  2
  subtype4 45  0
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   25   20
  subtype2   46    2
  subtype3   12    2
  subtype4   45    0
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA                25       46       12       45
  COLON MUCINOUS ADENOCARCINOMA       20        2        2        0
D2V5, multiclass
D2V6, multiclass
D2V7, multiclass
D2V8, multiclass
D2V9, binary
          cls
clus        0
  subtype1 47
  subtype2 48
  subtype3 14
  subtype4 46
[1] "NOT AVAILABLE: table only has an event [0]"
D2V10, binary
          cls
clus        0  1
  subtype1  2 45
  subtype2  3 45
  subtype3  1 13
  subtype4  1 45
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   45
  subtype2    3   45
  subtype3    1   13
  subtype4    1   45
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         2        3        1        1
  YES       45       45       13       45

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2        0   1
  subtype1 104  23
  subtype2 130  19
  subtype3  19   4
  subtype4  17   3
subtype1 subtype2 subtype3 subtype4 
     127      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         2.99         1.02         1.02         1.02         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-3975 TCGA-AA-A00D TCGA-AA-A00F TCGA-AA-A00L TCGA-AA-A00Q TCGA-AA-A00U 
        0.99        19.00        34.03        17.00        27.02        17.00 
TCGA-AA-A00W TCGA-AA-A017 TCGA-AA-A01C TCGA-AA-A01F TCGA-AA-A01G TCGA-AA-A01K 
       14.99        15.02        15.02        13.02        12.00        13.02 
TCGA-AA-A01S TCGA-AA-A01T TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02H TCGA-AA-A02W 
        1.02        33.04         2.93        39.95         2.01        40.96 
TCGA-AA-A03J TCGA-AD-6888 TCGA-AD-6901 TCGA-AD-6963 TCGA-AD-6965 TCGA-AY-4070 
       40.93         4.21         1.02         0.10         0.20        16.31 
TCGA-AY-4071 TCGA-AY-5543 TCGA-AZ-4308 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-5403 
        0.95         7.56        56.35        22.36        56.05        62.79 
TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-6715 TCGA-CK-5912 
       29.56         5.23        11.74         1.94         0.07        48.03 
TCGA-CK-5914 TCGA-CK-6748 TCGA-CM-4750 TCGA-CM-4752 TCGA-CM-5344 TCGA-CM-5349 
       21.99         2.01         8.02         4.04         9.99        11.01 
TCGA-CM-5860 TCGA-CM-5862 TCGA-CM-5868 TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6166 
        9.99         5.03         9.99         2.96        16.01        13.94 
TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6172 TCGA-CM-6679 TCGA-D5-5538 TCGA-D5-5539 
        7.99         7.96         6.94         4.01         6.71         0.99 
TCGA-D5-5540 TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6535 TCGA-D5-6538 
        6.51         6.64         3.52         1.32         0.33         8.09 
TCGA-D5-6898 TCGA-D5-6922 TCGA-D5-6926 TCGA-D5-6929 TCGA-D5-6932 TCGA-DM-A0XF 
        1.48         4.37         3.12         4.77         0.62        38.20 
TCGA-DM-A1D0 TCGA-DM-A1D4 TCGA-DM-A1D6 TCGA-DM-A1HA TCGA-DM-A285 TCGA-DM-A288 
      119.05        92.75        49.91       129.11         6.08        14.01 
TCGA-DM-A28A TCGA-DM-A28E TCGA-DM-A28F TCGA-F4-6808 TCGA-F4-6809 TCGA-F4-6854 
       26.47       116.02        35.97         0.46         1.25         0.53 
TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6303 TCGA-G4-6306 
       28.21         8.35        75.22        23.51        61.87        44.65 
TCGA-G4-6307 TCGA-G4-6310 TCGA-G4-6311 TCGA-G4-6314 TCGA-G4-6315 TCGA-G4-6317 
       48.82        39.58        36.56        33.90        30.81        29.36 
TCGA-G4-6625 
       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 
        1.02         1.02         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         1.32 
TCGA-AY-6196 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4323 
        0.20         3.68         5.33        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     6.12     6.97     6.03 
[1] "0.1 - 129.1 (10.0)" "0.1 - 129.1 (6.1)"  "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" "subtype2" "subtype2" "subtype3" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [91] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[103] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[109] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[115] "subtype3" "subtype4" "subtype2" "subtype3" "subtype1" "subtype1"
[121] "subtype1" "subtype3" "subtype4" "subtype2" "subtype1" "subtype2"
[127] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[133] "subtype2" "subtype2" "subtype4" "subtype1" "subtype1" "subtype2"
[139] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype2" "subtype4" "subtype2" "subtype2" "subtype4"
[157] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[169] "subtype1" "subtype4" "subtype2" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[187] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[193] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[199] "subtype3" "subtype1" "subtype4" "subtype1" "subtype1" "subtype2"
[205] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[211] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[223] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[229] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[235] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[241] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[247] "subtype2" "subtype1" "subtype4" "subtype2" "subtype1" "subtype2"
[253] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[259] "subtype4" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[265] "subtype3" "subtype2" "subtype4" "subtype4" "subtype1" "subtype2"
[271] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype4" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[289] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[301] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[307] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[319] "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" "subtype2" "subtype2" "subtype3" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [91] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[103] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[109] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[115] "subtype3" "subtype4" "subtype2" "subtype3" "subtype1" "subtype1"
[121] "subtype1" "subtype3" "subtype4" "subtype2" "subtype1" "subtype2"
[127] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[133] "subtype2" "subtype2" "subtype4" "subtype1" "subtype1" "subtype2"
[139] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype2" "subtype4" "subtype2" "subtype2" "subtype4"
[157] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[169] "subtype1" "subtype4" "subtype2" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[187] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[193] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[199] "subtype3" "subtype1" "subtype4" "subtype1" "subtype1" "subtype2"
[205] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[211] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[223] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[229] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[235] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[241] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[247] "subtype2" "subtype1" "subtype4" "subtype2" "subtype1" "subtype2"
[253] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[259] "subtype4" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[265] "subtype3" "subtype2" "subtype4" "subtype4" "subtype1" "subtype2"
[271] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype4" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[289] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[301] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[307] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[319] "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" "subtype2" "subtype2" "subtype3" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [91] "subtype2" "subtype4" "subtype1" "subtype2" "subtype2" "subtype1"
 [97] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[103] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[109] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[115] "subtype3" "subtype4" "subtype2" "subtype3" "subtype1" "subtype1"
[121] "subtype1" "subtype3" "subtype4" "subtype2" "subtype1" "subtype2"
[127] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[133] "subtype2" "subtype2" "subtype4" "subtype1" "subtype1" "subtype2"
[139] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype2" "subtype4" "subtype2" "subtype2" "subtype4"
[157] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[169] "subtype1" "subtype4" "subtype2" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[187] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[193] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[199] "subtype3" "subtype1" "subtype4" "subtype1" "subtype1" "subtype2"
[205] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[211] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[217] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[223] "subtype4" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[229] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[235] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[241] "subtype4" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[247] "subtype2" "subtype1" "subtype4" "subtype2" "subtype1" "subtype2"
[253] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[259] "subtype4" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[265] "subtype3" "subtype2" "subtype4" "subtype4" "subtype1" "subtype2"
[271] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[277] "subtype1" "subtype1" "subtype2" "subtype4" "subtype2" "subtype2"
[283] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[289] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[295] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[301] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[307] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[313] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[319] "subtype2"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1 77 93
  subtype2 92 95
  subtype3 16 16
  subtype4  8 16
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   77   93
  subtype2   92   95
  subtype3   16   16
  subtype4    8   16
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       77       92       16        8
  MALE         93       95       16       16
D3V4, binary
          cls
clus         0   1
  subtype1 162   7
  subtype2 140  45
  subtype3  31   1
  subtype4  23   1
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  162    7
  subtype2  140   45
  subtype3   31    1
  subtype4   23    1
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA               162      140       31       23
  COLON MUCINOUS ADENOCARCINOMA        7       45        1        1
D3V5, multiclass
D3V6, multiclass
D3V7, multiclass
D3V8, multiclass
D3V9, 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
D3V10, binary
          cls
clus         0   1
  subtype1  28 142
  subtype2  26 161
  subtype3   3  29
  subtype4   1  23
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   28  142
  subtype2   26  161
  subtype3    3   29
  subtype4    1   23
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        28       26        3        1
  YES      142      161       29       23

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 80 15
  subtype2 65 12
  subtype3 55  9
subtype1 subtype2 subtype3 
      95       77       64 
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-A6-6782 TCGA-AA-3488 TCGA-AA-3494 
        8.32         5.65         4.41         5.39         2.99         1.02 
TCGA-AA-3495 TCGA-AA-3496 TCGA-AA-3660 TCGA-AA-3697 TCGA-AD-6888 TCGA-AD-6895 
        1.02         1.02         1.02         0.95         4.21         0.72 
TCGA-AD-6899 TCGA-AD-6901 TCGA-AD-6964 TCGA-AM-5820 TCGA-AY-5543 TCGA-AZ-4308 
        1.55         1.02         0.99         0.46         7.56        56.35 
TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-6603 TCGA-AZ-6608 TCGA-CA-6715 
       71.67        22.36        56.05        29.56         1.94         0.07 
TCGA-CA-6716 TCGA-CA-6719 TCGA-CK-5912 TCGA-CK-5914 TCGA-CK-6748 TCGA-CM-4746 
        0.26         1.35        48.03        21.99         2.01        22.98 
TCGA-CM-4750 TCGA-CM-5341 TCGA-CM-5344 TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-5868 
        8.02         6.02         9.99         5.03         2.01         9.99 
TCGA-CM-6161 TCGA-CM-6163 TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6169 TCGA-CM-6170 
        6.97         2.96         6.97        13.94         7.99         7.96 
TCGA-CM-6172 TCGA-CM-6676 TCGA-CM-6678 TCGA-CM-6679 TCGA-D5-5537 TCGA-D5-5540 
        6.94         5.00         4.01         4.01        14.99         6.51 
TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6537 TCGA-D5-6541 TCGA-D5-6922 
        6.64         3.52         1.32         4.47         3.55         4.37 
TCGA-D5-6931 TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D6 TCGA-DM-A1D9 TCGA-DM-A1DB 
        1.41        38.20       119.05        49.91       129.11        44.32 
TCGA-DM-A282 TCGA-DM-A28A TCGA-DM-A28C TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G 
      135.52        26.47        81.37       116.02        35.97        60.79 
TCGA-DM-A28H TCGA-F4-6808 TCGA-F4-6854 TCGA-F4-6855 TCGA-F4-6856 TCGA-G4-6294 
      112.50         0.46         0.53         1.38         0.66        28.21 
TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6303 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6310 
       75.22        23.51        61.87        44.65        48.82        39.58 
TCGA-G4-6311 TCGA-G4-6314 TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6626 
       36.56        33.90        30.81        29.36        46.75 

$subtype2
TCGA-A6-2679 TCGA-A6-2681 TCGA-A6-2686 TCGA-A6-4105 TCGA-A6-4107 TCGA-A6-5659 
       19.56        18.15        16.04        14.50         7.59         9.40 
TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6649 TCGA-A6-6653 TCGA-A6-6780 TCGA-AA-3502 
       10.06         9.40         4.80         2.96         2.83         1.02 
TCGA-AA-3663 TCGA-AA-3713 TCGA-AD-5900 TCGA-AD-6548 TCGA-AD-6890 TCGA-AM-5821 
        1.02         0.95         0.07         0.10         0.79         0.92 
TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4614 TCGA-AZ-4615 TCGA-AZ-5407 TCGA-AZ-6598 
        3.68         5.33         5.65        16.60        45.86        49.41 
TCGA-AZ-6599 TCGA-AZ-6606 TCGA-CA-5254 TCGA-CA-5796 TCGA-CK-4947 TCGA-CK-4950 
        6.74        11.74         0.16         0.39        17.52        40.31 
TCGA-CK-4951 TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-5916 TCGA-CK-6747 TCGA-CK-6751 
       49.02        15.58        28.04        21.01         2.93       103.04 
TCGA-CM-4744 TCGA-CM-4747 TCGA-CM-4751 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-6171 
        7.04         8.02        19.96         9.99        11.01         5.95 
TCGA-CM-6675 TCGA-CM-6677 TCGA-CM-6680 TCGA-D5-5538 TCGA-D5-5539 TCGA-D5-6531 
        5.00         5.00         2.99         6.71         0.99         0.56 
TCGA-D5-6535 TCGA-D5-6538 TCGA-D5-6540 TCGA-D5-6920 TCGA-D5-6923 TCGA-D5-6927 
        0.33         8.09         6.12         3.65         1.38         2.20 
TCGA-D5-6929 TCGA-D5-7000 TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A1D4 TCGA-DM-A1D8 
        4.77         1.35       112.73        24.43        92.75        12.59 
TCGA-DM-A1DA TCGA-DM-A1HA TCGA-DM-A1HB TCGA-DM-A285 TCGA-DM-A288 TCGA-DM-A28K 
        7.46       129.11       124.08         6.08        14.01        93.21 
TCGA-DM-A28M TCGA-F4-6806 TCGA-G4-6293 TCGA-G4-6299 TCGA-G4-6320 TCGA-G4-6321 
       91.20         0.66       105.30        68.28        22.29        18.77 
TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6628 
       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-A6-6781 TCGA-AA-3489 TCGA-AA-3510 TCGA-AD-6889 
        8.15         5.82         5.19         1.02         1.02        56.52 
TCGA-AD-6963 TCGA-AD-6965 TCGA-AU-6004 TCGA-AY-6196 TCGA-AZ-4313 TCGA-AZ-4315 
        0.10         0.20         1.32         0.20        31.46        43.86 
TCGA-AZ-4323 TCGA-AZ-4616 TCGA-AZ-5403 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6605 
        1.41         5.13        62.79        12.10        99.98         5.23 
TCGA-AZ-6607 TCGA-CA-5255 TCGA-CA-5797 TCGA-CA-6717 TCGA-CA-6718 TCGA-CK-4948 
        3.19         0.07         0.26         0.33         0.10       102.44 
TCGA-CM-4743 TCGA-CM-4748 TCGA-CM-4752 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5863 
        6.05         7.04         4.04        12.92        11.01         9.99 
TCGA-CM-6162 TCGA-CM-6164 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6674 TCGA-D5-6529 
        6.97        16.01         4.01         5.95         4.90         8.55 
TCGA-D5-6530 TCGA-D5-6534 TCGA-D5-6536 TCGA-D5-6539 TCGA-D5-6898 TCGA-D5-6924 
        8.91         7.92         9.44         4.73         1.48         2.89 
TCGA-D5-6926 TCGA-D5-6928 TCGA-D5-6930 TCGA-D5-6932 TCGA-DM-A280 TCGA-F4-6703 
        3.12         0.66         1.48         0.62         7.73         1.84 
TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6807 TCGA-F4-6809 TCGA-G4-6295 TCGA-G4-6302 
        1.51         0.53         0.53         1.25         8.35        43.04 
TCGA-G4-6304 TCGA-G4-6309 TCGA-G4-6625 TCGA-G4-6627 
       53.62        45.57        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 
   7.990    8.090    5.525 
[1] "0.1 - 135.5 (8.0)" "0.1 - 129.1 (8.1)" "0.1 - 102.4 (5.5)"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
  [7] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [13] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [19] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [31] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
 [37] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [43] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [49] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [55] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [61] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [67] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [73] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
 [79] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [85] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[109] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[133] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[139] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[151] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[157] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[163] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[169] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[175] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[187] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[199] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[205] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[211] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[217] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[235] "subtype3" "subtype2"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
  [7] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [13] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [19] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [31] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
 [37] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [43] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [49] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [55] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [61] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [67] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [73] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
 [79] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [85] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[109] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[133] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[139] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[151] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[157] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[163] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[169] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[175] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[187] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[199] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[205] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[211] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[217] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[235] "subtype3" "subtype2"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
  [7] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [13] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [19] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
 [31] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
 [37] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [43] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [49] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [55] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [61] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [67] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [73] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
 [79] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [85] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[109] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[133] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[139] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[151] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[157] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[163] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[169] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[175] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[187] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[193] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[199] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[205] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[211] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[217] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[235] "subtype3" "subtype2"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 41 65
  subtype2 46 36
  subtype3 27 39
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   41   65
  subtype2   46   36
  subtype3   27   39
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       41       46       27
  MALE         65       36       39
D4V4, binary
          cls
clus         0   1
  subtype1 100   6
  subtype2  69  13
  subtype3  55  11
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  100    6
  subtype2   69   13
  subtype3   55   11
                               clus
vv                              subtype1 subtype2 subtype3
  COLON ADENOCARCINOMA               100       69       55
  COLON MUCINOUS ADENOCARCINOMA        6       13       11
D4V5, multiclass
D4V6, multiclass
D4V7, multiclass
D4V8, multiclass
D4V9, binary
          cls
clus         0   1
  subtype1   2 104
  subtype2   0  82
  subtype3   1  65
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2  104
  subtype2    0   82
  subtype3    1   65
     clus
vv    subtype1 subtype2 subtype3
  NO         2        0        1
  YES      104       82       65
D4V10, binary
          cls
clus        0  1
  subtype1 19 87
  subtype2 18 64
  subtype3 14 52
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   19   87
  subtype2   18   64
  subtype3   14   52
     clus
vv    subtype1 subtype2 subtype3
  NO        19       18       14
  YES       87       64       52

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 54  2
  subtype2 75  7
  subtype3  2  0
  subtype4 56 10
subtype1 subtype2 subtype3 subtype4 
      56       82        2       66 
subtype1 subtype2 subtype3 subtype4 
       2        7        0       10 
$subtype1
TCGA-A6-2671 TCGA-A6-2677 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-3808 TCGA-A6-3810 
       21.30        17.79        12.72        15.25         9.14         8.09 
TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5660 TCGA-A6-6142 TCGA-A6-6649 TCGA-A6-6651 
       15.19        12.07        11.24         4.37         4.80         8.15 
TCGA-A6-6782 TCGA-AA-3489 TCGA-AA-3562 TCGA-AA-3715 TCGA-AA-3818 TCGA-AA-3837 
        5.39         1.02         1.02         0.99         0.99         1.02 
TCGA-AA-3947 TCGA-AA-3986 TCGA-AD-5900 TCGA-AM-5820 TCGA-AU-6004 TCGA-AY-6196 
        0.99         0.99         0.07         0.46         1.32         0.20 
TCGA-AZ-4308 TCGA-AZ-4615 TCGA-AZ-6607 TCGA-CA-5797 TCGA-CA-6717 TCGA-CA-6719 
       56.35        16.60         3.19         0.26         0.33         1.35 
TCGA-CK-6748 TCGA-CM-4747 TCGA-CM-4748 TCGA-CM-5341 TCGA-CM-5348 TCGA-CM-5349 
        2.01         8.02         7.04         6.02        12.92        11.01 
TCGA-CM-5863 TCGA-CM-5868 TCGA-CM-6162 TCGA-CM-6167 TCGA-CM-6677 TCGA-D5-5538 
        9.99         9.99         6.97         4.01         5.00         6.71 
TCGA-D5-6534 TCGA-D5-6922 TCGA-D5-6926 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6809 
        7.92         4.37         3.12         1.51         0.53         1.25 
TCGA-F4-6854 TCGA-F4-6855 TCGA-F4-6856 TCGA-G4-6299 TCGA-G4-6302 TCGA-G4-6310 
        0.53         1.38         0.66        68.28        43.04        39.58 
TCGA-G4-6314 TCGA-G4-6625 
       33.90        87.85 

$subtype2
TCGA-A6-2672 TCGA-A6-2676 TCGA-A6-2678 TCGA-A6-2680 TCGA-A6-2683 TCGA-A6-2686 
       16.54        14.70        14.37        17.16        15.52        16.04 
TCGA-A6-3809 TCGA-A6-5659 TCGA-A6-5662 TCGA-A6-5664 TCGA-A6-5665 TCGA-A6-5666 
       10.29         9.40         9.76        11.90         9.40         8.02 
TCGA-A6-5667 TCGA-A6-6137 TCGA-A6-6138 TCGA-A6-6140 TCGA-A6-6141 TCGA-A6-6650 
       10.52         6.41         5.95         4.08         4.24         5.65 
TCGA-A6-6652 TCGA-A6-6654 TCGA-AA-3496 TCGA-AA-3502 TCGA-AA-3510 TCGA-AA-3555 
        4.41         5.82         1.02         1.02         1.02         0.99 
TCGA-AA-3697 TCGA-AA-3713 TCGA-AA-3811 TCGA-AA-3844 TCGA-AA-3848 TCGA-AA-3854 
        0.95         0.95         0.99         0.92         0.99         1.02 
TCGA-AA-3975 TCGA-AD-6889 TCGA-AD-6899 TCGA-AD-6965 TCGA-AY-5543 TCGA-AY-6386 
        0.99        56.52         1.55         0.20         7.56         5.33 
TCGA-AZ-4614 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-AZ-5407 TCGA-AZ-6599 TCGA-AZ-6603 
        5.65        22.36        56.05        45.86         6.74        29.56 
TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-5796 TCGA-CA-6715 
       11.74         1.94         0.16         0.07         0.39         0.07 
TCGA-CA-6716 TCGA-CK-5914 TCGA-CK-6747 TCGA-CM-4746 TCGA-CM-5344 TCGA-CM-5860 
        0.26        21.99         2.93        22.98         9.99         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-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 TCGA-G4-6323 
       30.81        22.29        17.95         6.61 

$subtype3
TCGA-A6-2681 TCGA-D5-6531 
       18.15         0.56 

$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-AD-6548 TCGA-AM-5821 TCGA-AY-6197 
        1.02         1.02         1.02         0.10         0.92         3.68 
TCGA-AZ-4315 TCGA-AZ-4323 TCGA-AZ-4616 TCGA-AZ-6598 TCGA-AZ-6600 TCGA-AZ-6601 
       43.86         1.41         5.13        49.41        12.10        99.98 
TCGA-AZ-6605 TCGA-CA-6718 TCGA-CK-5916 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4744 
        5.23         0.10        21.01       103.04         6.05         7.04 
TCGA-CM-4750 TCGA-CM-4752 TCGA-CM-5861 TCGA-CM-5862 TCGA-CM-6163 TCGA-CM-6164 
        8.02         4.04        11.01         5.03         2.96        16.01 
TCGA-CM-6168 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6678 
        5.95         7.99         7.96         5.95         4.90         4.01 
TCGA-D5-5539 TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6533 TCGA-D5-6535 TCGA-D5-6536 
        0.99         8.55         8.91         1.32         0.33         9.44 
TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6541 TCGA-D5-6898 TCGA-D5-6927 TCGA-D5-6928 
        4.73         6.12         3.55         1.48         2.20         0.66 
TCGA-D5-6930 TCGA-D5-6932 TCGA-F4-6703 TCGA-F4-6807 TCGA-F4-6808 TCGA-G4-6293 
        1.48         0.62         1.84         0.53         0.46       105.30 
TCGA-G4-6298 TCGA-G4-6304 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6311 TCGA-G4-6317 
       23.51        53.62        44.65        48.82        36.56        29.36 
TCGA-G4-6321 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6626 TCGA-G4-6627 TCGA-G4-6628 
       18.77        24.36        21.17        46.75        47.15        52.96 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.07     0.56     0.10 
subtype1 subtype2 subtype3 subtype4 
   87.85    75.22    18.15   105.30 
subtype1 subtype2 subtype3 subtype4 
   5.195    6.460    9.355    6.000 
[1] "0.1 - 87.8 (5.2)"  "0.1 - 75.2 (6.5)"  "0.6 - 18.1 (9.4)" 
[4] "0.1 - 105.3 (6.0)"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
 [13] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "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" "subtype2" "subtype4" "subtype1" "subtype4" "subtype2"
 [61] "subtype1" "subtype1" "subtype4" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype4" "subtype1" "subtype2" "subtype1" "subtype4"
 [73] "subtype2" "subtype1" "subtype4" "subtype4" "subtype2" "subtype1"
 [79] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
 [85] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype1"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [97] "subtype2" "subtype1" "subtype4" "subtype1" "subtype2" "subtype4"
[103] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[109] "subtype1" "subtype1" "subtype4" "subtype4" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype2" "subtype4" "subtype4" "subtype1"
[121] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype4"
[127] "subtype2" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[133] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype1"
[139] "subtype4" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[145] "subtype2" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[151] "subtype1" "subtype4" "subtype4" "subtype2" "subtype2" "subtype4"
[157] "subtype4" "subtype4" "subtype4" "subtype2" "subtype1" "subtype2"
[163] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[169] "subtype4" "subtype4" "subtype1" "subtype1" "subtype2" "subtype4"
[175] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[181] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype1"
[187] "subtype2" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
[193] "subtype4" "subtype1" "subtype2" "subtype4" "subtype2" "subtype4"
[199] "subtype2" "subtype2" "subtype4" "subtype4" "subtype1" "subtype4"
[205] "subtype4" "subtype4"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
 [13] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "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" "subtype2" "subtype4" "subtype1" "subtype4" "subtype2"
 [61] "subtype1" "subtype1" "subtype4" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype4" "subtype1" "subtype2" "subtype1" "subtype4"
 [73] "subtype2" "subtype1" "subtype4" "subtype4" "subtype2" "subtype1"
 [79] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
 [85] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype1"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [97] "subtype2" "subtype1" "subtype4" "subtype1" "subtype2" "subtype4"
[103] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[109] "subtype1" "subtype1" "subtype4" "subtype4" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype2" "subtype4" "subtype4" "subtype1"
[121] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype4"
[127] "subtype2" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[133] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype1"
[139] "subtype4" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[145] "subtype2" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[151] "subtype1" "subtype4" "subtype4" "subtype2" "subtype2" "subtype4"
[157] "subtype4" "subtype4" "subtype4" "subtype2" "subtype1" "subtype2"
[163] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[169] "subtype4" "subtype4" "subtype1" "subtype1" "subtype2" "subtype4"
[175] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[181] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype1"
[187] "subtype2" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
[193] "subtype4" "subtype1" "subtype2" "subtype4" "subtype2" "subtype4"
[199] "subtype2" "subtype2" "subtype4" "subtype4" "subtype1" "subtype4"
[205] "subtype4" "subtype4"
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
 [13] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "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" "subtype2" "subtype4" "subtype1" "subtype4" "subtype2"
 [61] "subtype1" "subtype1" "subtype4" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype4" "subtype1" "subtype2" "subtype1" "subtype4"
 [73] "subtype2" "subtype1" "subtype4" "subtype4" "subtype2" "subtype1"
 [79] "subtype4" "subtype2" "subtype2" "subtype2" "subtype4" "subtype2"
 [85] "subtype4" "subtype4" "subtype2" "subtype4" "subtype2" "subtype1"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [97] "subtype2" "subtype1" "subtype4" "subtype1" "subtype2" "subtype4"
[103] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[109] "subtype1" "subtype1" "subtype4" "subtype4" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype2" "subtype4" "subtype4" "subtype1"
[121] "subtype2" "subtype1" "subtype2" "subtype1" "subtype4" "subtype4"
[127] "subtype2" "subtype2" "subtype1" "subtype4" "subtype4" "subtype4"
[133] "subtype4" "subtype2" "subtype4" "subtype2" "subtype2" "subtype1"
[139] "subtype4" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[145] "subtype2" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[151] "subtype1" "subtype4" "subtype4" "subtype2" "subtype2" "subtype4"
[157] "subtype4" "subtype4" "subtype4" "subtype2" "subtype1" "subtype2"
[163] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[169] "subtype4" "subtype4" "subtype1" "subtype1" "subtype2" "subtype4"
[175] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[181] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype1"
[187] "subtype2" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
[193] "subtype4" "subtype1" "subtype2" "subtype4" "subtype2" "subtype4"
[199] "subtype2" "subtype2" "subtype4" "subtype4" "subtype1" "subtype4"
[205] "subtype4" "subtype4"
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 subtype4 
      56       82        2       66 
  [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype4"
 [31] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype2"
 [37] "subtype4" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype1" "subtype2" "subtype4" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [55] "subtype2" "subtype4" "subtype1" "subtype4" "subtype2" "subtype1"
 [61] "subtype1" "subtype4" "subtype2" "subtype2" "subtype2" "subtype1"
 [67] "subtype4" "subtype1" "subtype2" "subtype1" "subtype4" "subtype2"
 [73] "subtype1" "subtype4" "subtype4" "subtype2" "subtype1" "subtype4"
 [79] "subtype2" "subtype2" "subtype2" "subtype4" "subtype2" "subtype4"
 [85] "subtype4" "subtype2" "subtype4" "subtype2" "subtype1" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [97] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[103] "subtype1" "subtype4" "subtype4" "subtype4" "subtype2" "subtype1"
[109] "subtype1" "subtype4" "subtype4" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype2" "subtype4" "subtype4" "subtype1" "subtype2"
[121] "subtype1" "subtype2" "subtype1" "subtype4" "subtype4" "subtype2"
[127] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
[133] "subtype2" "subtype4" "subtype2" "subtype2" "subtype1" "subtype4"
[139] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype2"
[145] "subtype4" "subtype4" "subtype2" "subtype4" "subtype1" "subtype4"
[151] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype4"
[157] "subtype4" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
[163] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
[169] "subtype1" "subtype1" "subtype2" "subtype4" "subtype4" "subtype1"
[175] "subtype1" "subtype1" "subtype1" "subtype4" "subtype2" "subtype2"
[181] "subtype2" "subtype4" "subtype1" "subtype1" "subtype2" "subtype4"
[187] "subtype4" "subtype4" "subtype2" "subtype1" "subtype4" "subtype1"
[193] "subtype2" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
[199] "subtype4" "subtype4" "subtype1" "subtype4" "subtype4" "subtype4"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 34 31
  subtype2 55 64
  subtype3  1  6
  subtype4 37 41
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   34   31
  subtype2   55   64
  subtype3    1    6
  subtype4   37   41
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       34       55        1       37
  MALE         31       64        6       41
D5V4, binary
          cls
clus         0   1
  subtype1  51  14
  subtype2 112   7
  subtype3   6   1
  subtype4  69   8
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   51   14
  subtype2  112    7
  subtype3    6    1
  subtype4   69    8
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA                51      112        6       69
  COLON MUCINOUS ADENOCARCINOMA       14        7        1        8
D5V5, multiclass
D5V6, multiclass
D5V7, multiclass
D5V8, multiclass
D5V9, binary
          cls
clus         0   1
  subtype1   2  63
  subtype2   1 118
  subtype3   0   7
  subtype4   0  78
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   63
  subtype2    1  118
  subtype3    0    7
  subtype4    0   78
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         2        1        0        0
  YES       63      118        7       78
D5V10, binary
          cls
clus        0  1
  subtype1 18 47
  subtype2 20 99
  subtype3  0  7
  subtype4 13 65
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   18   47
  subtype2   20   99
  subtype3    0    7
  subtype4   13   65
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        18       20        0       13
  YES       47       99        7       65

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 89 11
  subtype2 14  1
  subtype3 38  6
  subtype4 46  1
subtype1 subtype2 subtype3 subtype4 
     100       15       44       47 
subtype1 subtype2 subtype3 subtype4 
      11        1        6        1 
$subtype1
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-3947 TCGA-AA-3975 TCGA-AD-6889 TCGA-AD-6899 TCGA-AD-6965 TCGA-AY-5543 
        0.99         0.99        56.52         1.55         0.20         7.56 
TCGA-AY-6386 TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4615 TCGA-AZ-4682 TCGA-AZ-4684 
        5.33        43.86         5.65        16.60        22.36        56.05 
TCGA-AZ-5407 TCGA-AZ-6598 TCGA-AZ-6600 TCGA-AZ-6603 TCGA-AZ-6606 TCGA-AZ-6608 
       45.86        49.41        12.10        29.56        11.74         1.94 
TCGA-CA-5254 TCGA-CA-5796 TCGA-CA-6715 TCGA-CA-6716 TCGA-CK-5914 TCGA-CK-6747 
        0.16         0.39         0.07         0.26        21.99         2.93 
TCGA-CK-6748 TCGA-CK-6751 TCGA-CM-4746 TCGA-CM-5341 TCGA-CM-5344 TCGA-CM-5860 
        2.01       103.04        22.98         6.02         9.99         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-6677 TCGA-CM-6679 TCGA-CM-6680 TCGA-D5-5540 TCGA-D5-5541 
        5.00         5.00         4.01         2.99         6.51         6.64 
TCGA-D5-6532 TCGA-D5-6533 TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6920 
        3.52         1.32         0.33         4.47         8.09         3.65 
TCGA-D5-6923 TCGA-D5-6931 TCGA-D5-6932 TCGA-F4-6704 TCGA-F4-6806 TCGA-G4-6294 
        1.38         1.41         0.62         1.51         0.66        28.21 
TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 TCGA-G4-6303 TCGA-G4-6309 TCGA-G4-6315 
        8.35        75.22        23.51        61.87        45.57        30.81 
TCGA-G4-6320 TCGA-G4-6322 TCGA-G4-6323 TCGA-G4-6626 
       22.29        17.95         6.61        46.75 

$subtype2
TCGA-A6-5661 TCGA-AY-6197 TCGA-AZ-6599 TCGA-CA-5255 TCGA-CM-4748 TCGA-CM-5349 
       10.06         3.68         6.74         0.07         7.04        11.01 
TCGA-CM-5861 TCGA-CM-5863 TCGA-CM-6162 TCGA-CM-6170 TCGA-D5-6531 TCGA-D5-6536 
       11.01         9.99         6.97         7.96         0.56         9.44 
TCGA-F4-6855 TCGA-G4-6293 TCGA-G4-6304 
        1.38       105.30        53.62 

$subtype3
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-AD-6548 TCGA-AM-5821 TCGA-AZ-4323 TCGA-AZ-4616 TCGA-AZ-6601 
        1.02         0.10         0.92         1.41         5.13        99.98 
TCGA-AZ-6605 TCGA-CA-6718 TCGA-CK-5916 TCGA-CM-4743 TCGA-CM-4744 TCGA-CM-4752 
        5.23         0.10        21.01         6.05         7.04         4.04 
TCGA-CM-5862 TCGA-CM-6163 TCGA-CM-6171 TCGA-CM-6674 TCGA-CM-6678 TCGA-D5-5539 
        5.03         2.96         5.95         4.90         4.01         0.99 
TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6539 TCGA-D5-6540 TCGA-D5-6927 TCGA-D5-6928 
        8.55         8.91         4.73         6.12         2.20         0.66 
TCGA-D5-6930 TCGA-F4-6703 TCGA-F4-6807 TCGA-F4-6808 TCGA-F4-6856 TCGA-G4-6306 
        1.48         1.84         0.53         0.46         0.66        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-G4-6627 TCGA-G4-6628 
       47.15        52.96 

$subtype4
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-AD-5900 TCGA-AM-5820 TCGA-AU-6004 
        1.02         1.02         0.99         0.07         0.46         1.32 
TCGA-AY-6196 TCGA-AZ-4308 TCGA-AZ-6607 TCGA-CA-5797 TCGA-CA-6717 TCGA-CA-6719 
        0.20        56.35         3.19         0.26         0.33         1.35 
TCGA-CM-4747 TCGA-CM-4750 TCGA-CM-5348 TCGA-CM-5868 TCGA-CM-6164 TCGA-CM-6167 
        8.02         8.02        12.92         9.99        16.01         4.01 
TCGA-CM-6168 TCGA-CM-6169 TCGA-D5-5538 TCGA-D5-6534 TCGA-D5-6541 TCGA-D5-6898 
        5.95         7.99         6.71         7.92         3.55         1.48 
TCGA-D5-6922 TCGA-D5-6924 TCGA-D5-6926 TCGA-F4-6805 TCGA-F4-6809 TCGA-F4-6854 
        4.37         2.89         3.12         0.53         1.25         0.53 
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 

subtype1 subtype2 subtype3 subtype4 
    0.07     0.07     0.10     0.07 
subtype1 subtype2 subtype3 subtype4 
  103.04   105.30    99.98    87.85 
subtype1 subtype2 subtype3 subtype4 
    6.56     7.96     5.08     5.39 
[1] "0.1 - 103.0 (6.6)" "0.1 - 105.3 (8.0)" "0.1 - 100.0 (5.1)"
[4] "0.1 - 87.8 (5.4)" 
  [1] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype4" "subtype4" "subtype1" "subtype3"
 [13] "subtype4" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
 [19] "subtype4" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype4" "subtype1" "subtype1" "subtype4"
 [31] "subtype3" "subtype4" "subtype1" "subtype4" "subtype4" "subtype3"
 [37] "subtype1" "subtype3" "subtype3" "subtype4" "subtype4" "subtype1"
 [43] "subtype1" "subtype1" "subtype1" "subtype4" "subtype1" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [61] "subtype4" "subtype4" "subtype3" "subtype1" "subtype1" "subtype1"
 [67] "subtype4" "subtype3" "subtype4" "subtype1" "subtype4" "subtype2"
 [73] "subtype1" "subtype4" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype4"
 [91] "subtype1" "subtype1" "subtype2" "subtype1" "subtype4" "subtype1"
 [97] "subtype1" "subtype4" "subtype3" "subtype4" "subtype1" "subtype3"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[109] "subtype4" "subtype2" "subtype4" "subtype3" "subtype1" "subtype1"
[115] "subtype4" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[121] "subtype1" "subtype4" "subtype1" "subtype2" "subtype3" "subtype4"
[127] "subtype1" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[133] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype4" "subtype3" "subtype1"
[145] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[151] "subtype4" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[157] "subtype3" "subtype4" "subtype4" "subtype1" "subtype4" "subtype1"
[163] "subtype4" "subtype4" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype4" "subtype1" "subtype3"
[175] "subtype3" "subtype4" "subtype4" "subtype2" "subtype3" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype4"
[187] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype4"
[193] "subtype3" "subtype4" "subtype1" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
[205] "subtype3" "subtype3"
  [1] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype4" "subtype4" "subtype1" "subtype3"
 [13] "subtype4" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
 [19] "subtype4" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype4" "subtype1" "subtype1" "subtype4"
 [31] "subtype3" "subtype4" "subtype1" "subtype4" "subtype4" "subtype3"
 [37] "subtype1" "subtype3" "subtype3" "subtype4" "subtype4" "subtype1"
 [43] "subtype1" "subtype1" "subtype1" "subtype4" "subtype1" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [61] "subtype4" "subtype4" "subtype3" "subtype1" "subtype1" "subtype1"
 [67] "subtype4" "subtype3" "subtype4" "subtype1" "subtype4" "subtype2"
 [73] "subtype1" "subtype4" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype4"
 [91] "subtype1" "subtype1" "subtype2" "subtype1" "subtype4" "subtype1"
 [97] "subtype1" "subtype4" "subtype3" "subtype4" "subtype1" "subtype3"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[109] "subtype4" "subtype2" "subtype4" "subtype3" "subtype1" "subtype1"
[115] "subtype4" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[121] "subtype1" "subtype4" "subtype1" "subtype2" "subtype3" "subtype4"
[127] "subtype1" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[133] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype4" "subtype3" "subtype1"
[145] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[151] "subtype4" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[157] "subtype3" "subtype4" "subtype4" "subtype1" "subtype4" "subtype1"
[163] "subtype4" "subtype4" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype4" "subtype1" "subtype3"
[175] "subtype3" "subtype4" "subtype4" "subtype2" "subtype3" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype4"
[187] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype4"
[193] "subtype3" "subtype4" "subtype1" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
[205] "subtype3" "subtype3"
  [1] "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype4" "subtype4" "subtype1" "subtype3"
 [13] "subtype4" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
 [19] "subtype4" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype4" "subtype1" "subtype1" "subtype4"
 [31] "subtype3" "subtype4" "subtype1" "subtype4" "subtype4" "subtype3"
 [37] "subtype1" "subtype3" "subtype3" "subtype4" "subtype4" "subtype1"
 [43] "subtype1" "subtype1" "subtype1" "subtype4" "subtype1" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [61] "subtype4" "subtype4" "subtype3" "subtype1" "subtype1" "subtype1"
 [67] "subtype4" "subtype3" "subtype4" "subtype1" "subtype4" "subtype2"
 [73] "subtype1" "subtype4" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype4"
 [91] "subtype1" "subtype1" "subtype2" "subtype1" "subtype4" "subtype1"
 [97] "subtype1" "subtype4" "subtype3" "subtype4" "subtype1" "subtype3"
[103] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[109] "subtype4" "subtype2" "subtype4" "subtype3" "subtype1" "subtype1"
[115] "subtype4" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[121] "subtype1" "subtype4" "subtype1" "subtype2" "subtype3" "subtype4"
[127] "subtype1" "subtype1" "subtype4" "subtype4" "subtype4" "subtype2"
[133] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype4" "subtype3" "subtype1"
[145] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[151] "subtype4" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[157] "subtype3" "subtype4" "subtype4" "subtype1" "subtype4" "subtype1"
[163] "subtype4" "subtype4" "subtype3" "subtype3" "subtype3" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype4" "subtype1" "subtype3"
[175] "subtype3" "subtype4" "subtype4" "subtype2" "subtype3" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype4"
[187] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype4"
[193] "subtype3" "subtype4" "subtype1" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
[205] "subtype3" "subtype3"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 71 72
  subtype2 14 11
  subtype3 18 31
  subtype4 24 28
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   71   72
  subtype2   14   11
  subtype3   18   31
  subtype4   24   28
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       71       14       18       24
  MALE         72       11       31       28
D6V4, binary
          cls
clus         0   1
  subtype1 129  13
  subtype2  23   2
  subtype3  41   8
  subtype4  45   7
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  129   13
  subtype2   23    2
  subtype3   41    8
  subtype4   45    7
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA               129       23       41       45
  COLON MUCINOUS ADENOCARCINOMA       13        2        8        7
D6V5, multiclass
D6V6, multiclass
D6V7, multiclass
D6V8, multiclass
D6V9, binary
          cls
clus         0   1
  subtype1   1 142
  subtype2   0  25
  subtype3   0  49
  subtype4   2  50
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1  142
  subtype2    0   25
  subtype3    0   49
  subtype4    2   50
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        0        0        2
  YES      142       25       49       50
D6V10, binary
          cls
clus         0   1
  subtype1  23 120
  subtype2   5  20
  subtype3   9  40
  subtype4  14  38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   23  120
  subtype2    5   20
  subtype3    9   40
  subtype4   14   38
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        23        5        9       14
  YES      120       20       40       38

Clustering(7) Variable = MIRSEQ_CNMF
D7V1, survival
          sevent
clus2        0   1
  subtype1 119  25
  subtype2  34   9
  subtype3  78  15
subtype1 subtype2 subtype3 
     144       43       93 
subtype1 subtype2 subtype3 
      25        9       15 
$subtype1
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-A6-5665 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-A6-6142 TCGA-A6-6648 TCGA-A6-6650 TCGA-A6-6653 TCGA-A6-6780 
        4.08         4.37         8.32         5.65         2.96         2.83 
TCGA-A6-6782 TCGA-AA-3496 TCGA-AA-3660 TCGA-AA-3663 TCGA-AA-3697 TCGA-AA-3713 
        5.39         1.02         1.02         1.02         0.95         0.95 
TCGA-AD-5900 TCGA-AD-6548 TCGA-AM-5820 TCGA-AM-5821 TCGA-AU-6004 TCGA-AY-5543 
        0.07         0.10         0.46         0.92         1.32         7.56 
TCGA-AY-6196 TCGA-AY-6197 TCGA-AY-6386 TCGA-AZ-4616 TCGA-AZ-5407 TCGA-AZ-6598 
        0.20         3.68         5.33         5.13        45.86        49.41 
TCGA-AZ-6599 TCGA-AZ-6600 TCGA-AZ-6606 TCGA-AZ-6608 TCGA-CA-5254 TCGA-CA-5255 
        6.74        12.10        11.74         1.94         0.16         0.07 
TCGA-CA-5796 TCGA-CA-5797 TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6719 TCGA-CK-4947 
        0.39         0.26         0.07         0.26         1.35        17.52 
TCGA-CK-4948 TCGA-CK-4950 TCGA-CK-4952 TCGA-CK-5912 TCGA-CK-5913 TCGA-CK-5914 
      102.44        40.31        15.58        48.03        28.04        21.99 
TCGA-CK-5916 TCGA-CK-6747 TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-4751 TCGA-CM-5344 
       21.01         2.93       103.04         6.05        19.96         9.99 
TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-5861 TCGA-CM-5862 TCGA-CM-5863 
       12.92        11.01         9.99        11.01         5.03         9.99 
TCGA-CM-5864 TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6163 TCGA-CM-6164 TCGA-CM-6165 
        2.01         9.99         6.97         2.96        16.01         6.97 
TCGA-CM-6166 TCGA-CM-6169 TCGA-CM-6170 TCGA-CM-6171 TCGA-CM-6172 TCGA-CM-6675 
       13.94         7.99         7.96         5.95         6.94         5.00 
TCGA-CM-6676 TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6680 TCGA-D5-5538 TCGA-D5-5540 
        5.00         5.00         4.01         2.99         6.71         6.51 
TCGA-D5-5541 TCGA-D5-6529 TCGA-D5-6530 TCGA-D5-6531 TCGA-D5-6532 TCGA-D5-6533 
        6.64         8.55         8.91         0.56         3.52         1.32 
TCGA-D5-6535 TCGA-D5-6536 TCGA-D5-6537 TCGA-D5-6538 TCGA-D5-6539 TCGA-D5-6540 
        0.33         9.44         4.47         8.09         4.73         6.12 
TCGA-D5-6541 TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A0XF TCGA-DM-A1D0 TCGA-DM-A1D4 
        3.55       112.73        24.43        38.20       119.05        92.75 
TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A1DA TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A1HB 
       12.59       129.11         7.46        44.32       129.11       124.08 
TCGA-DM-A280 TCGA-DM-A282 TCGA-DM-A285 TCGA-DM-A288 TCGA-DM-A28A TCGA-DM-A28C 
        7.73       135.52         6.08        14.01        26.47        81.37 
TCGA-DM-A28E TCGA-DM-A28F TCGA-DM-A28G TCGA-DM-A28H TCGA-DM-A28K TCGA-DM-A28M 
      116.02        35.97        60.79       112.50        93.21        91.20 
TCGA-F4-6808 TCGA-G4-6293 TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6297 TCGA-G4-6298 
        0.46       105.30        28.21         8.35        75.22        23.51 
TCGA-G4-6299 TCGA-G4-6303 TCGA-G4-6306 TCGA-G4-6307 TCGA-G4-6309 TCGA-G4-6311 
       68.28        61.87        44.65        48.82        45.57        36.56 
TCGA-G4-6314 TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6320 TCGA-G4-6321 TCGA-G4-6322 
       33.90        30.81        29.36        22.29        18.77        17.95 
TCGA-G4-6323 TCGA-G4-6586 TCGA-G4-6588 TCGA-G4-6625 TCGA-G4-6626 TCGA-G4-6628 
        6.61        24.36        21.17        87.85        46.75        52.96 

$subtype2
TCGA-A6-2681 TCGA-A6-2684 TCGA-A6-2685 TCGA-A6-3808 TCGA-A6-5657 TCGA-A6-6138 
       18.15        12.72        15.25         9.14        12.07         5.95 
TCGA-A6-6141 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6652 TCGA-A6-6654 TCGA-AA-3489 
        4.24         4.80         8.15         4.41         5.82         1.02 
TCGA-AA-3818 TCGA-AA-A00O TCGA-AA-A01P TCGA-AA-A01X TCGA-AA-A02E TCGA-AZ-4323 
        0.99        27.02        38.07        26.01         2.93         1.41 
TCGA-AZ-5403 TCGA-AZ-6601 TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6607 TCGA-CA-6717 
       62.79        99.98        29.56         5.23         3.19         0.33 
TCGA-CA-6718 TCGA-CK-6748 TCGA-CM-4747 TCGA-CM-4748 TCGA-CM-6162 TCGA-CM-6167 
        0.10         2.01         8.02         7.04         6.97         4.01 
TCGA-CM-6168 TCGA-CM-6674 TCGA-CM-6679 TCGA-D5-5539 TCGA-F4-6703 TCGA-F4-6704 
        5.95         4.90         4.01         0.99         1.84         1.51 
TCGA-F4-6805 TCGA-F4-6806 TCGA-F4-6807 TCGA-F4-6809 TCGA-G4-6302 TCGA-G4-6310 
        0.53         0.66         0.53         1.25        43.04        39.58 
TCGA-G4-6627 
       47.15 

$subtype3
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-A6-2682 TCGA-A6-2683 TCGA-A6-2686 
       14.37        19.56        17.16        13.94        15.52        16.04 
TCGA-A6-3807 TCGA-A6-3809 TCGA-A6-3810 TCGA-A6-4107 TCGA-AA-3488 TCGA-AA-3494 
       10.92        10.29         8.09         7.59         2.99         1.02 
TCGA-AA-3495 TCGA-AA-3502 TCGA-AA-3510 TCGA-AA-3518 TCGA-AA-3526 TCGA-AA-3555 
        1.02         1.02         1.02         1.02         0.99         0.99 
TCGA-AA-3562 TCGA-AA-3666 TCGA-AA-3675 TCGA-AA-3679 TCGA-AA-3685 TCGA-AA-3710 
        1.02         1.02         1.02         0.99         0.99         1.02 
TCGA-AA-3715 TCGA-AA-3811 TCGA-AA-3837 TCGA-AA-3842 TCGA-AA-3844 TCGA-AA-3846 
        0.99         0.99         1.02         1.02         0.92         0.99 
TCGA-AA-3848 TCGA-AA-3854 TCGA-AA-3862 TCGA-AA-3877 TCGA-AA-3939 TCGA-AA-3941 
        0.99         1.02         1.02         0.99         0.99         1.02 
TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 TCGA-AA-3952 TCGA-AA-3966 TCGA-AA-3975 
        0.99         0.99         1.02         1.02         1.02         0.99 
TCGA-AA-3977 TCGA-AA-3986 TCGA-AA-A00D TCGA-AA-A00J TCGA-AA-A00L TCGA-AA-A00Q 
        1.02         0.99        19.00        18.02        17.00        27.02 
TCGA-AA-A00U TCGA-AA-A00W TCGA-AA-A010 TCGA-AA-A01D TCGA-AA-A01F TCGA-AA-A01G 
       17.00        14.99        20.98         0.99        13.02        12.00 
TCGA-AA-A01R TCGA-AA-A01S TCGA-AA-A01T TCGA-AA-A01V TCGA-AA-A01Z TCGA-AA-A024 
       35.01         1.02        33.04        35.01        20.98        39.06 
TCGA-AA-A029 TCGA-AA-A02F TCGA-AA-A02H TCGA-AA-A02J TCGA-AA-A02K TCGA-AA-A02O 
       51.95        39.95         2.01         5.03        13.97         0.92 
TCGA-AA-A02R TCGA-AA-A02Y TCGA-AA-A03F TCGA-AA-A03J TCGA-AY-4070 TCGA-AY-4071 
       22.03        39.95        18.02        40.93        16.31         0.95 
TCGA-AZ-4308 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4614 TCGA-AZ-4615 TCGA-AZ-4681 
       56.35        31.46        43.86         5.65        16.60        71.67 
TCGA-AZ-4682 TCGA-AZ-4684 TCGA-CK-4951 TCGA-CM-4744 TCGA-CM-4746 TCGA-CM-4750 
       22.36        56.05        49.02         7.04        22.98         8.02 
TCGA-CM-4752 TCGA-CM-5341 TCGA-DM-A1D6 
        4.04         6.02        49.91 

subtype1 subtype2 subtype3 
    0.07     0.10     0.92 
subtype1 subtype2 subtype3 
  135.52    99.98    71.67 
subtype1 subtype2 subtype3 
    9.60     5.23     8.09 
[1] "0.1 - 135.5 (9.6)" "0.1 - 100.0 (5.2)" "0.9 - 71.7 (8.1)" 
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [19] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [37] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[139] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[145] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[175] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[253] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[265] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[277] "subtype1" "subtype1" "subtype2" "subtype1"
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [19] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [37] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[139] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[145] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[175] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[253] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[265] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[277] "subtype1" "subtype1" "subtype2" "subtype1"
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
  [7] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [19] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
 [37] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [67] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[139] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[145] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[157] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[163] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[169] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[175] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[193] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[199] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[211] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[229] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[235] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[241] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[247] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[253] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[259] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[265] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[271] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[277] "subtype1" "subtype1" "subtype2" "subtype1"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 75 81
  subtype2 22 24
  subtype3 86 90
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   75   81
  subtype2   22   24
  subtype3   86   90
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       75       22       86
  MALE         81       24       90
D7V4, binary
          cls
clus         0   1
  subtype1 141  15
  subtype2  38   8
  subtype3 148  25
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  141   15
  subtype2   38    8
  subtype3  148   25
                               clus
vv                              subtype1 subtype2 subtype3
  COLON ADENOCARCINOMA               141       38      148
  COLON MUCINOUS ADENOCARCINOMA       15        8       25
D7V5, multiclass
D7V6, multiclass
D7V7, multiclass
D7V8, multiclass
D7V9, binary
          cls
clus         0   1
  subtype1   0 156
  subtype2   1  45
  subtype3   1 175
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0  156
  subtype2    1   45
  subtype3    1  175
     clus
vv    subtype1 subtype2 subtype3
  NO         0        1        1
  YES      156       45      175
D7V10, binary
          cls
clus         0   1
  subtype1  32 124
  subtype2  10  36
  subtype3  13 163
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   32  124
  subtype2   10   36
  subtype3   13  163
     clus
vv    subtype1 subtype2 subtype3
  NO        32       10       13
  YES      124       36      163

Clustering(8) Variable = MIRSEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 80 16
  subtype2 37  9
  subtype3 83 16
  subtype4 31  8
subtype1 subtype2 subtype3 subtype4 
      96       46       99       39 
subtype1 subtype2 subtype3 subtype4 
      16        9       16        8 
$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         2.99         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         1.02         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-3862 
        1.02         0.92         0.99         0.99         1.02         1.02 
TCGA-AA-3877 TCGA-AA-3939 TCGA-AA-3941 TCGA-AA-3947 TCGA-AA-3949 TCGA-AA-3950 
        0.99         0.99         1.02         0.99         0.99         1.02 
TCGA-AA-3952 TCGA-AA-3966 TCGA-AA-3975 TCGA-AA-3977 TCGA-AA-3986 TCGA-AA-A00D 
        1.02         1.02         0.99         1.02         0.99        19.00 
TCGA-AA-A00J TCGA-AA-A00L TCGA-AA-A00Q TCGA-AA-A00W TCGA-AA-A01D TCGA-AA-A01F 
       18.02        17.00        27.02        14.99         0.99        13.02 
TCGA-AA-A01G TCGA-AA-A01P TCGA-AA-A01R TCGA-AA-A01S TCGA-AA-A01T TCGA-AA-A01V 
       12.00        38.07        35.01         1.02        33.04        35.01 
TCGA-AA-A01Z TCGA-AA-A024 TCGA-AA-A029 TCGA-AA-A02E TCGA-AA-A02F TCGA-AA-A02J 
       20.98        39.06        51.95         2.93        39.95         5.03 
TCGA-AA-A02K TCGA-AA-A02O TCGA-AA-A02R TCGA-AA-A02Y TCGA-AA-A03F TCGA-AA-A03J 
       13.97         0.92        22.03        39.95        18.02        40.93 
TCGA-AY-4070 TCGA-AY-4071 TCGA-AZ-4308 TCGA-AZ-4313 TCGA-AZ-4315 TCGA-AZ-4614 
       16.31         0.95        56.35        31.46        43.86         5.65 
TCGA-AZ-4615 TCGA-AZ-4681 TCGA-AZ-4682 TCGA-AZ-4684 TCGA-CK-4951 TCGA-CM-4744 
       16.60        71.67        22.36        56.05        49.02         7.04 
TCGA-CM-4746 TCGA-CM-4747 TCGA-CM-4748 TCGA-CM-4750 TCGA-CM-4752 TCGA-CM-5341 
       22.98         8.02         7.04         8.02         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-3697 TCGA-AA-A010 TCGA-AA-A02H TCGA-AD-6548 
        1.02         1.02         0.95        20.98         2.01         0.10 
TCGA-AY-5543 TCGA-AZ-5407 TCGA-AZ-6599 TCGA-AZ-6606 TCGA-CA-5796 TCGA-CA-5797 
        7.56        45.86         6.74        11.74         0.39         0.26 
TCGA-CK-4948 TCGA-CK-5912 TCGA-CM-5862 TCGA-CM-5864 TCGA-CM-6172 TCGA-D5-5538 
      102.44        48.03         5.03         2.01         6.94         6.71 
TCGA-D5-5539 TCGA-D5-5541 TCGA-D5-6532 TCGA-D5-6535 TCGA-D5-6537 TCGA-D5-6541 
        0.99         6.64         3.52         0.33         4.47         3.55 
TCGA-DM-A0X9 TCGA-DM-A0XD TCGA-DM-A1D0 TCGA-DM-A1DB TCGA-DM-A1HA TCGA-DM-A285 
      112.73        24.43       119.05        44.32       129.11         6.08 
TCGA-DM-A28A TCGA-DM-A28F TCGA-DM-A28K TCGA-F4-6808 TCGA-G4-6293 TCGA-G4-6297 
       26.47        35.97        93.21         0.46       105.30        75.22 
TCGA-G4-6307 TCGA-G4-6311 TCGA-G4-6322 TCGA-G4-6323 
       48.82        36.56        17.95         6.61 

$subtype3
TCGA-A6-2675 TCGA-A6-5656 TCGA-A6-5657 TCGA-A6-5659 TCGA-A6-5660 TCGA-A6-5662 
       16.93        15.19        12.07         9.40        11.24         9.76 
TCGA-A6-5664 TCGA-A6-5667 TCGA-A6-6138 TCGA-A6-6649 TCGA-A6-6651 TCGA-A6-6652 
       11.90        10.52         5.95         4.80         8.15         4.41 
TCGA-A6-6654 TCGA-A6-6782 TCGA-AA-3489 TCGA-AA-A00O TCGA-AA-A00U TCGA-AA-A01X 
        5.82         5.39         1.02        27.02        17.00        26.01 
TCGA-AD-5900 TCGA-AM-5820 TCGA-AU-6004 TCGA-AY-6196 TCGA-AZ-4323 TCGA-AZ-4616 
        0.07         0.46         1.32         0.20         1.41         5.13 
TCGA-AZ-5403 TCGA-AZ-6600 TCGA-AZ-6601 TCGA-AZ-6603 TCGA-AZ-6605 TCGA-AZ-6607 
       62.79        12.10        99.98        29.56         5.23         3.19 
TCGA-CA-5254 TCGA-CA-5255 TCGA-CA-6715 TCGA-CA-6716 TCGA-CA-6717 TCGA-CA-6718 
        0.16         0.07         0.07         0.26         0.33         0.10 
TCGA-CA-6719 TCGA-CK-4947 TCGA-CK-4950 TCGA-CK-5914 TCGA-CK-5916 TCGA-CK-6748 
        1.35        17.52        40.31        21.99        21.01         2.01 
TCGA-CM-4751 TCGA-CM-5344 TCGA-CM-5348 TCGA-CM-5349 TCGA-CM-5860 TCGA-CM-5861 
       19.96         9.99        12.92        11.01         9.99        11.01 
TCGA-CM-5863 TCGA-CM-5868 TCGA-CM-6161 TCGA-CM-6162 TCGA-CM-6163 TCGA-CM-6164 
        9.99         9.99         6.97         6.97         2.96        16.01 
TCGA-CM-6165 TCGA-CM-6166 TCGA-CM-6167 TCGA-CM-6168 TCGA-CM-6169 TCGA-CM-6170 
        6.97        13.94         4.01         5.95         7.99         7.96 
TCGA-CM-6674 TCGA-CM-6676 TCGA-CM-6677 TCGA-CM-6678 TCGA-CM-6679 TCGA-CM-6680 
        4.90         5.00         5.00         4.01         4.01         2.99 
TCGA-D5-5540 TCGA-D5-6531 TCGA-D5-6533 TCGA-D5-6536 TCGA-D5-6538 TCGA-D5-6539 
        6.51         0.56         1.32         9.44         8.09         4.73 
TCGA-DM-A0XF TCGA-DM-A1D6 TCGA-DM-A1D8 TCGA-DM-A1D9 TCGA-DM-A282 TCGA-DM-A28C 
       38.20        49.91        12.59       129.11       135.52        81.37 
TCGA-DM-A28E TCGA-DM-A28G TCGA-F4-6703 TCGA-F4-6704 TCGA-F4-6805 TCGA-F4-6806 
      116.02        60.79         1.84         1.51         0.53         0.66 
TCGA-F4-6807 TCGA-F4-6809 TCGA-G4-6294 TCGA-G4-6295 TCGA-G4-6298 TCGA-G4-6302 
        0.53         1.25        28.21         8.35        23.51        43.04 
TCGA-G4-6303 TCGA-G4-6310 TCGA-G4-6314 TCGA-G4-6315 TCGA-G4-6317 TCGA-G4-6320 
       61.87        39.58        33.90        30.81        29.36        22.29 
TCGA-G4-6321 TCGA-G4-6625 TCGA-G4-6627 
       18.77        87.85        47.15 

$subtype4
TCGA-A6-4105 TCGA-A6-5661 TCGA-A6-5665 TCGA-A6-6140 TCGA-A6-6141 TCGA-A6-6648 
       14.50        10.06         9.40         4.08         4.24         8.32 
TCGA-A6-6650 TCGA-A6-6653 TCGA-AA-3663 TCGA-AA-3713 TCGA-AM-5821 TCGA-AY-6197 
        5.65         2.96         1.02         0.95         0.92         3.68 
TCGA-AY-6386 TCGA-AZ-6598 TCGA-AZ-6608 TCGA-CK-4952 TCGA-CK-5913 TCGA-CK-6747 
        5.33        49.41         1.94        15.58        28.04         2.93 
TCGA-CK-6751 TCGA-CM-4743 TCGA-CM-6171 TCGA-CM-6675 TCGA-D5-6529 TCGA-D5-6530 
      103.04         6.05         5.95         5.00         8.55         8.91 
TCGA-D5-6540 TCGA-DM-A1D4 TCGA-DM-A1DA TCGA-DM-A1HB TCGA-DM-A280 TCGA-DM-A288 
        6.12        92.75         7.46       124.08         7.73        14.01 
TCGA-DM-A28H TCGA-DM-A28M TCGA-G4-6299 TCGA-G4-6306 TCGA-G4-6309 TCGA-G4-6586 
      112.50        91.20        68.28        44.65        45.57        24.36 
TCGA-G4-6588 TCGA-G4-6626 TCGA-G4-6628 
       21.17        46.75        52.96 

subtype1 subtype2 subtype3 subtype4 
    0.92     0.10     0.07     0.92 
subtype1 subtype2 subtype3 subtype4 
   71.67   129.11   135.52   124.08 
subtype1 subtype2 subtype3 subtype4 
   8.615    6.675    9.400    8.910 
[1] "0.9 - 71.7 (8.6)"  "0.1 - 129.1 (6.7)" "0.1 - 135.5 (9.4)"
[4] "0.9 - 124.1 (8.9)"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype4" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype4" "subtype3" "subtype3" "subtype4"
 [31] "subtype2" "subtype3" "subtype2" "subtype3" "subtype4" "subtype4"
 [37] "subtype2" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
 [43] "subtype4" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [49] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype4"
 [67] "subtype1" "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] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[109] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[121] "subtype4" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[127] "subtype4" "subtype4" "subtype1" "subtype1" "subtype1" "subtype3"
[133] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[145] "subtype3" "subtype3" "subtype2" "subtype3" "subtype4" "subtype3"
[151] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[163] "subtype4" "subtype2" "subtype4" "subtype3" "subtype3" "subtype4"
[169] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[175] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[199] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[211] "subtype2" "subtype4" "subtype4" "subtype3" "subtype2" "subtype3"
[217] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype4"
[223] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
[229] "subtype3" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[235] "subtype4" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype4" "subtype2"
[247] "subtype4" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[253] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[259] "subtype3" "subtype4" "subtype3" "subtype3" "subtype4" "subtype2"
[265] "subtype4" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[271] "subtype3" "subtype3" "subtype2" "subtype2" "subtype4" "subtype4"
[277] "subtype3" "subtype4" "subtype3" "subtype4"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype4" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype4" "subtype3" "subtype3" "subtype4"
 [31] "subtype2" "subtype3" "subtype2" "subtype3" "subtype4" "subtype4"
 [37] "subtype2" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
 [43] "subtype4" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [49] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype4"
 [67] "subtype1" "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] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[109] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[121] "subtype4" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[127] "subtype4" "subtype4" "subtype1" "subtype1" "subtype1" "subtype3"
[133] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[145] "subtype3" "subtype3" "subtype2" "subtype3" "subtype4" "subtype3"
[151] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[163] "subtype4" "subtype2" "subtype4" "subtype3" "subtype3" "subtype4"
[169] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[175] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[199] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[211] "subtype2" "subtype4" "subtype4" "subtype3" "subtype2" "subtype3"
[217] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype4"
[223] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
[229] "subtype3" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[235] "subtype4" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype4" "subtype2"
[247] "subtype4" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[253] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[259] "subtype3" "subtype4" "subtype3" "subtype3" "subtype4" "subtype2"
[265] "subtype4" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[271] "subtype3" "subtype3" "subtype2" "subtype2" "subtype4" "subtype4"
[277] "subtype3" "subtype4" "subtype3" "subtype4"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype4" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype4" "subtype3" "subtype3" "subtype4"
 [31] "subtype2" "subtype3" "subtype2" "subtype3" "subtype4" "subtype4"
 [37] "subtype2" "subtype4" "subtype3" "subtype4" "subtype3" "subtype3"
 [43] "subtype4" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [49] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype1" "subtype2" "subtype4" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype4"
 [67] "subtype1" "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] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[109] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[121] "subtype4" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
[127] "subtype4" "subtype4" "subtype1" "subtype1" "subtype1" "subtype3"
[133] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[139] "subtype3" "subtype2" "subtype4" "subtype2" "subtype3" "subtype3"
[145] "subtype3" "subtype3" "subtype2" "subtype3" "subtype4" "subtype3"
[151] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[157] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[163] "subtype4" "subtype2" "subtype4" "subtype3" "subtype3" "subtype4"
[169] "subtype3" "subtype4" "subtype4" "subtype1" "subtype1" "subtype1"
[175] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[187] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[193] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[199] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[211] "subtype2" "subtype4" "subtype4" "subtype3" "subtype2" "subtype3"
[217] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype4"
[223] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype4"
[229] "subtype3" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[235] "subtype4" "subtype4" "subtype3" "subtype2" "subtype4" "subtype2"
[241] "subtype3" "subtype3" "subtype2" "subtype3" "subtype4" "subtype2"
[247] "subtype4" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[253] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[259] "subtype3" "subtype4" "subtype3" "subtype3" "subtype4" "subtype2"
[265] "subtype4" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[271] "subtype3" "subtype3" "subtype2" "subtype2" "subtype4" "subtype4"
[277] "subtype3" "subtype4" "subtype3" "subtype4"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 90 89
  subtype2 22 28
  subtype3 52 56
  subtype4 19 22
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   90   89
  subtype2   22   28
  subtype3   52   56
  subtype4   19   22
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       90       22       52       19
  MALE         89       28       56       22
D8V4, binary
          cls
clus         0   1
  subtype1 150  26
  subtype2  44   6
  subtype3  97  11
  subtype4  36   5
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  150   26
  subtype2   44    6
  subtype3   97   11
  subtype4   36    5
                               clus
vv                              subtype1 subtype2 subtype3 subtype4
  COLON ADENOCARCINOMA               150       44       97       36
  COLON MUCINOUS ADENOCARCINOMA       26        6       11        5
D8V5, multiclass
D8V6, multiclass
D8V7, multiclass
D8V8, multiclass
D8V9, binary
          cls
clus         0   1
  subtype1   1 178
  subtype2   0  50
  subtype3   1 107
  subtype4   0  41
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1  178
  subtype2    0   50
  subtype3    1  107
  subtype4    0   41
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        0        1        0
  YES      178       50      107       41
D8V10, binary
          cls
clus         0   1
  subtype1  15 164
  subtype2  11  39
  subtype3  22  86
  subtype4   7  34
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15  164
  subtype2   11   39
  subtype3   22   86
  subtype4    7   34
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        15       11       22        7
  YES      164       39       86       34
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
                                "GENDER" 
                                      V4 
                     "HISTOLOGICAL.TYPE" 
                                      V5 
                           "PATHOLOGY.T" 
                                      V6 
                           "PATHOLOGY.N" 
                                      V7 
                   "PATHOLOGICSPREAD(M)" 
                                      V8 
                           "TUMOR.STAGE" 
                                      V9 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                     V10 
                   "NEOADJUVANT.THERAPY" 
> q(save="no")
