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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.84.4098/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.84.4098/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/SKCM-TM/2908175/1.GDAC_mergedClustering.Finished/SKCM-TM.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/SKCM-TM/2844285/1.GDAC_clinicalDataPicker.Finished/SKCM-TM.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"  "-oT="
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  

nPatients in clinical file=165, in cluster file=260, common to both=165
[1]   8 165
[1] "CN_CNMF"
[1] 3
 1  2  3 
59 41 58 
 1  2  3 
59 41 58 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
46 64 55 
 1  2  3 
46 64 55 
[1] "RPPA_CNMF"
[1] 3
 1  2  3  4 
26 16 24 34 
 1  2  3  4 
26 16 24 34 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3  4  5 
18 15 32 19 16 
 1  2  3  4  5 
18 15 32 19 16 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3 
55 41 55 
 1  2  3 
55 41 55 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
39 72 40 
 1  2  3 
39 72 40 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3 
33 68 53 
 1  2  3 
33 68 53 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 19  33 102 
  1   2   3 
 19  33 102 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "GENDER"                                
 [7] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [8] "RADIATIONTHERAPY"                      
 [9] "RADIATIONS.RADIATION.REGIMENINDICATION"
[10] "DISTANT.METASTASIS"                    
[11] "LYMPH.NODE.METASTASIS"                 
[12] "TUMOR.STAGECODE"                       
[13] "NEOPLASM.DISEASESTAGE"                 
[14] "BATCHNUMBER"                           

Input Data has 14 rows and 165 columns.

[1] "Batch" "14"   
[1] "Last Follow UP"
TCGA-D3-A1Q7 TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 
        3687           NA         2167           NA          653         4511 
TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV 
        1513           82          194          345           98         1487 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
          NA         3564           NA         5926           NA           NA 
TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC 
        3265         1861           NA           NA          713           NA 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EB-A44Q TCGA-EB-A44R 
         870           NA         6553          477           28          309 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A185 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29D 
        3335         2399           NA           NA         1455           NA 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P 
        1205          979           NA         1349           NA         1716 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A29X 
        1136          440         1700        10523           NA           NA 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB 
          NA         2401          743           NA         1787         1446 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ 
        1315         9567         4134         5536          686         2717 
TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP 
        1664         1673         2296         2766         3101           NA 
TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 
         435         1691          595         2042           NA         3931 
TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM 
          NA           NA           NA         4403         6175           NA 
TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT 
          NA         7562           NA         3150         4150         1265 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE 
        1620          129         3733          786          112          813 
TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
          NA          714           NA           NA           NA           NA 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A19O TCGA-ER-A1A1 TCGA-ER-A3ET 
          NA           NA         1340           NA         2433         2443 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1YY TCGA-FS-A1Z0 
        1010         2448           NA           NA           NA           NA 
TCGA-FS-A1Z3 TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZA TCGA-FS-A1ZB TCGA-FS-A1ZC 
          NA           NA           NA           NA           NA           NA 
TCGA-FS-A1ZD TCGA-FS-A1ZE TCGA-FS-A1ZF TCGA-FS-A1ZG TCGA-FS-A1ZH TCGA-FS-A1ZJ 
          NA         1225           NA           NA           NA           NA 
TCGA-FS-A1ZK TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZQ TCGA-FS-A1ZR TCGA-FS-A1ZS 
          NA         3080           NA           NA           NA         4525 
TCGA-FS-A1ZT TCGA-FS-A1ZU TCGA-FS-A1ZW TCGA-FS-A1ZY TCGA-FS-A1ZZ TCGA-FS-A4F0 
        1617           NA         1505           NA           NA         2366 
TCGA-FS-A4F2 TCGA-FS-A4F4 TCGA-FS-A4F5 TCGA-FS-A4F8 TCGA-FS-A4F9 TCGA-FS-A4FB 
          NA           NA           NA           NA          378           NA 
TCGA-FS-A4FC TCGA-FS-A4FD TCGA-FW-A3I3 TCGA-FW-A3R5 TCGA-FW-A3TU TCGA-FW-A3TV 
        1504         2369            6          699         1446           NA 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
          NA         3664           NA         2577           NA           NA 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
          NA           NA         1204 
Variable 1:'AGE':	nDistinctValues=61,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=77,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=84,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=26,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 8:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 9:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'DISTANT.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'LYMPH.NODE.METASTASIS':	nDistinctValues=10,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'TUMOR.STAGECODE':	nDistinctValues=15,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'NEOPLASM.DISEASESTAGE':	nDistinctValues=12,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'BATCH.NUMBER':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                   "GENDER"                "DISTANT.METASTASIS"   
[4] "LYMPH.NODE.METASTASIS" "TUMOR.STAGECODE"       "NEOPLASM.DISEASESTAGE"
[1] "TUMOR.?STAGE" "5"           
[1] "stage2"
vv
 T0  T1 T1A T1B  T2 T2A T2B  T3 T3A T3B  T4 T4A T4B TIS  TX 
  4   5  13   2  19  16   7   4  21  12   4   7  22   1  11 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 165 columns, 1 survival variables, and 6 non-survival variables.
AGE, nv=61, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
DISTANT.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=10, binary=FALSE, numeric=FALSE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=12, binary=FALSE, numeric=FALSE

Clustering(1) Variable = CN_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 29 30
  subtype2 17 22
  subtype3 35 21
subtype1 subtype2 subtype3 
      59       39       56 
subtype1 subtype2 subtype3 
      30       22       21 
$subtype1
TCGA-D3-A3C6 TCGA-D3-A3MO TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z3 TCGA-DA-A1HV 
       58.03         9.30         2.70         6.38         3.22        48.89 
TCGA-DA-A1I1 TCGA-DA-A1IA TCGA-DA-A1IC TCGA-DA-A3F3 TCGA-EE-A17Z TCGA-EE-A185 
      194.83        65.92        68.09        10.49         8.65         4.93 
TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R 
      109.64       168.26        13.97         2.56        56.42        14.47 
TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A2A5 TCGA-EE-A2GB TCGA-EE-A2GI TCGA-EE-A2GJ 
       55.89        25.87        39.25        47.54        22.55        89.33 
TCGA-EE-A2GN TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GU TCGA-EE-A2MD TCGA-EE-A2MI 
       90.94        14.30        55.59        67.13        47.28       204.62 
TCGA-EE-A2MK TCGA-EE-A2MN TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A3AB TCGA-EE-A3AD 
      144.76        47.54       136.44        41.59       122.73         3.68 
TCGA-EE-A3AG TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19N TCGA-ER-A3PL TCGA-FR-A3YN 
       23.47        12.59        26.37        44.05        33.21        80.48 
TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z0 TCGA-FS-A1ZA TCGA-FS-A1ZH TCGA-FS-A1ZJ 
      216.92        48.59       202.62        27.68        32.71        47.38 
TCGA-FS-A1ZK TCGA-FS-A1ZP TCGA-FS-A1ZT TCGA-FS-A1ZU TCGA-FS-A1ZY TCGA-FS-A1ZZ 
       23.93        74.73        53.16        26.56        27.06        27.02 
TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
        0.20        47.54        64.41        62.76        39.58 

$subtype2
TCGA-D3-A3CC TCGA-D3-A3MV TCGA-D9-A148 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 
       71.24        21.47       148.31        36.03       117.17       176.55 
TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A3F5 TCGA-EE-A181 
       35.93       107.34        61.18        53.92       215.44        33.73 
TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A6 
       47.84        39.62        32.19       345.96        17.92        58.75 
TCGA-EE-A2GM TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2M6 TCGA-EE-A2MH TCGA-EE-A3AE 
       75.48       101.95        13.87       129.24        16.96        26.73 
TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-FS-A1YY 
       13.81       138.77         6.41       131.08        61.05       228.59 
TCGA-FS-A1Z3 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZF TCGA-FS-A1ZM TCGA-FS-A1ZR 
       20.91         7.76        53.52        15.45       101.26        11.41 
TCGA-FS-A4F2 TCGA-GN-A264 TCGA-GN-A26A 
       50.14       117.93        32.48 

$subtype3
TCGA-D3-A1Q7 TCGA-D9-A149 TCGA-D9-A3Z1 TCGA-DA-A1I0 TCGA-DA-A1IB TCGA-DA-A3F2 
      121.22        49.74        11.34        20.38        23.44        28.60 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A182 TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29A 
       15.68        29.82        14.70        26.86        78.87        63.32 
TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
       44.35        18.58        37.35        46.82        78.94        24.43 
TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GK TCGA-EE-A2GL 
       43.23       314.53       135.91       182.01        54.71        55.00 
TCGA-EE-A2GT TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2ME 
       19.56        21.67        28.80        19.76        61.51       103.27 
TCGA-EE-A2MG TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MP TCGA-EE-A2MQ 
      103.17        96.23       203.01       167.87       248.61        43.23 
TCGA-EE-A2MR TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AC TCGA-ER-A1A1 TCGA-ER-A3ET 
      103.56        53.26         4.24        25.84        79.99        80.32 
TCGA-FS-A1Z4 TCGA-FS-A1ZB TCGA-FS-A1ZE TCGA-FS-A1ZG TCGA-FS-A1ZS TCGA-FS-A1ZW 
       28.08        48.85        40.27         9.70       148.77        49.48 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       77.79        12.43        49.45        22.98        76.41       120.46 
TCGA-GN-A265 TCGA-GN-A266 
       84.72        10.09 

subtype1 subtype2 subtype3 
    0.20     6.41     4.24 
subtype1 subtype2 subtype3 
  216.92   345.96   314.53 
subtype1 subtype2 subtype3 
   47.28    53.52    49.15 
[1] "0.2 - 216.9 (47.3)" "6.4 - 346.0 (53.5)" "4.2 - 314.5 (49.2)"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [13] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [31] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [43] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [55] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [73] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [79] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [85] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [97] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[121] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[133] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[139] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[145] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype2" "subtype1"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [13] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [31] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [43] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [55] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [73] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [79] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [85] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [97] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[121] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[133] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[139] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[145] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype2" "subtype1"
  [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [13] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
 [25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [31] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [43] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [55] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [73] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [79] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [85] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [97] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[121] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[133] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[139] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[145] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype2" "subtype1"
D1V2, continuous
D1V3, binary
          cls
clus        0  1
  subtype1 23 36
  subtype2 18 23
  subtype3 21 37
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   23   36
  subtype2   18   23
  subtype3   21   37
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       23       18       21
  MALE         36       23       37
          vv
clus       M0 M1 M1A M1B M1C
  subtype1 50  1   1   0   1
  subtype2 32  1   0   1   1
  subtype3 52  0   1   0   0
D1V4, multiclass
          vv
clus       N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  subtype1 35  0   2   6  0   1   2   4  3  1
  subtype2 19  0   2   3  0   1   3   1  5  1
  subtype3 33  2   3   4  1   1   5   0  4  0
D1V5, multiclass
D1V6, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIC
  subtype1       4        4        7        7         2         5         3
  subtype2       1        3        3        5         2         0         4
  subtype3      12        2        3        6         4         4         1
          vv
clus       STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  subtype1         2          2          6          6        3
  subtype2         1          1          6          5        2
  subtype3         4          3          5          7        0
D1V7, multiclass

Clustering(2) Variable = METHLYATION_CNMF
D2V1, survival
          sevent
clus2       0  1
  subtype1 19 27
  subtype2 35 27
  subtype3 30 23
subtype1 subtype2 subtype3 
      46       62       53 
subtype1 subtype2 subtype3 
      27       27       23 
$subtype1
TCGA-D3-A3CC TCGA-D3-A3MO TCGA-DA-A1I2 TCGA-DA-A1IA TCGA-DA-A3F3 TCGA-EB-A44R 
       71.24         9.30       176.55        65.92        10.49        10.16 
TCGA-EE-A17Z TCGA-EE-A182 TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29R 
        8.65        14.70       109.64       168.26        13.97        14.47 
TCGA-EE-A2A5 TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2M7 
       39.25        90.94        13.87        14.30        55.59        28.80 
TCGA-EE-A2MI TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A3AC TCGA-ER-A19D TCGA-ER-A19L 
      204.62       136.44        41.59        25.84        12.59       131.08 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FS-A1YX TCGA-FS-A1Z0 TCGA-FS-A1Z3 TCGA-FS-A1Z7 
       80.32        33.21        48.59       202.62        20.91         7.76 
TCGA-FS-A1ZD TCGA-FS-A1ZE TCGA-FS-A1ZJ TCGA-FS-A1ZK TCGA-FS-A1ZP TCGA-FS-A1ZR 
       53.52        40.27        47.38        23.93        74.73        11.41 
TCGA-FS-A1ZS TCGA-FS-A1ZT TCGA-FS-A1ZU TCGA-FS-A1ZY TCGA-FS-A4FB TCGA-FS-A4FD 
      148.77        53.16        26.56        27.06        26.73        77.88 
TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A267 TCGA-GN-A26D 
        0.20        47.54        64.41        39.58 

$subtype2
TCGA-D3-A3C6 TCGA-D3-A3MV TCGA-D9-A148 TCGA-D9-A1JX TCGA-DA-A1HV TCGA-DA-A1HY 
       58.03        21.47       148.31         6.38        48.89       117.17 
TCGA-DA-A1I1 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-EB-A44Q TCGA-EE-A17X 
      194.83        61.18        53.92        68.09         0.92        29.82 
TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A29A TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29P 
       33.73         4.93        63.32        32.19         2.56        56.42 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A2 TCGA-EE-A2GB TCGA-EE-A2GC 
       37.35        55.89        17.92        24.43        47.54        43.23 
TCGA-EE-A2GJ TCGA-EE-A2GM TCGA-EE-A2GO TCGA-EE-A2GU TCGA-EE-A2M6 TCGA-EE-A2MK 
       89.33        75.48       101.95        67.13       129.24       144.76 
TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A3AB 
      203.01       167.87        47.54       248.61        43.23       122.73 
TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19F 
        3.68        26.73        13.81        23.47       138.77        26.37 
TCGA-ER-A19J TCGA-FR-A3YN TCGA-FS-A1YW TCGA-FS-A1YY TCGA-FS-A1ZA TCGA-FS-A1ZF 
        6.41        80.48       216.92       228.59        27.68        15.45 
TCGA-FS-A1ZG TCGA-FS-A1ZM TCGA-FS-A1ZW TCGA-FS-A1ZZ TCGA-FS-A4F0 TCGA-FS-A4F2 
        9.70       101.26        49.48        27.02        77.79        50.14 
TCGA-FS-A4F4 TCGA-FS-A4F5 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A262 
       66.67        28.73        12.43        49.45        22.98       120.46 
TCGA-GN-A264 TCGA-GN-A268 
      117.93        62.76 

$subtype3
TCGA-D3-A1Q7 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW 
      121.22        49.74         2.70        11.34         3.22        36.03 
TCGA-DA-A1I0 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F5 
       20.38        35.93       107.34        23.44        28.60       215.44 
TCGA-DA-A3F8 TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29M 
       15.68        26.86        78.87        47.84        39.62        44.35 
TCGA-EE-A29N TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 
       18.58       345.96        25.87        46.82        78.94        58.75 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GK TCGA-EE-A2GL 
      314.53       135.91       182.01        22.55        54.71        55.00 
TCGA-EE-A2GT TCGA-EE-A2M5 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MD TCGA-EE-A2ME 
       19.56        21.67        19.76        61.51        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MJ TCGA-EE-A2MR TCGA-EE-A2MU TCGA-EE-A3AA 
      103.17        16.96        96.23       103.56        53.26         4.24 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FS-A1Z4 TCGA-FS-A1ZB TCGA-FS-A1ZH 
       61.05        44.05        79.99        28.08        48.85        32.71 
TCGA-FS-A4F8 TCGA-GN-A261 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A26A 
      174.84        76.41        84.72        10.09        32.48 

subtype1 subtype2 subtype3 
    0.20     0.92     2.70 
subtype1 subtype2 subtype3 
  204.62   248.61   345.96 
subtype1 subtype2 subtype3 
  39.925   49.810   47.280 
[1] "0.2 - 204.6 (39.9)" "0.9 - 248.6 (49.8)" "2.7 - 346.0 (47.3)"
  [1] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [13] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [19] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [31] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [37] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
 [43] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
 [61] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [67] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [97] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[115] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[127] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[139] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[151] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
  [1] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [13] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [19] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [31] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [37] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
 [43] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
 [61] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [67] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [97] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[115] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[127] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[139] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[151] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
  [1] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [13] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [19] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [31] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [37] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
 [43] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
 [61] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [67] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [97] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[115] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[127] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[139] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
[151] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1"
D2V2, continuous
D2V3, binary
          cls
clus        0  1
  subtype1 17 29
  subtype2 32 32
  subtype3 16 39
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   17   29
  subtype2   32   32
  subtype3   16   39
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       17       32       16
  MALE         29       32       39
          vv
clus       M0 M1 M1A M1B M1C
  subtype1 39  1   1   0   0
  subtype2 54  1   0   1   0
  subtype3 48  0   1   0   2
D2V4, multiclass
          vv
clus       N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  subtype1 27  0   4   6  0   0   3   1  1  0
  subtype2 33  0   3   1  1   2   3   3  9  1
  subtype3 30  2   1   6  0   1   5   1  4  1
D2V5, multiclass
D2V6, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIC
  subtype1       3        1        4        8         2         3         4
  subtype2       4        5        5        5         4         5         4
  subtype3      11        3        5        5         3         1         0
          vv
clus       STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  subtype1         3          2          4          6        2
  subtype2         2          3          7          8        1
  subtype3         3          1          7          6        2
D2V7, multiclass

Clustering(3) Variable = RPPA_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1  9 17
  subtype2 13  3
  subtype3 12 10
  subtype4 16 17
subtype1 subtype2 subtype3 subtype4 
      26       16       22       33 
subtype1 subtype2 subtype3 subtype4 
      17        3       10       17 
$subtype1
TCGA-DA-A1HY TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1I8 TCGA-EE-A182 TCGA-EE-A20F 
      117.17        35.93       107.34        53.92        14.70        78.87 
TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29R TCGA-EE-A2A0 TCGA-EE-A2GP TCGA-EE-A2M5 
       47.84        39.62        14.47        46.82        13.87        21.67 
TCGA-EE-A2MC TCGA-EE-A2MI TCGA-EE-A2ML TCGA-EE-A2MU TCGA-ER-A19D TCGA-FS-A1ZA 
       61.51       204.62       203.01        53.26        12.59        27.68 
TCGA-FS-A1ZD TCGA-FS-A1ZH TCGA-FS-A1ZZ TCGA-GN-A261 TCGA-GN-A265 TCGA-GN-A266 
       53.52        32.71        27.02        76.41        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A26A 
       64.41        32.48 

$subtype2
TCGA-D3-A1Q7 TCGA-DA-A1HV TCGA-DA-A1IB TCGA-EE-A181 TCGA-EE-A29M TCGA-EE-A29N 
      121.22        48.89        23.44        33.73        44.35        18.58 
TCGA-EE-A29P TCGA-EE-A29T TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GK TCGA-EE-A2GT 
       56.42       345.96        58.75        43.23        54.71        19.56 
TCGA-EE-A2GU TCGA-EE-A2M8 TCGA-EE-A2MR TCGA-EE-A3AA 
       67.13        19.76       103.56         4.24 

$subtype3
TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-DA-A1HW TCGA-DA-A1I2 
      148.31        49.74         2.70         6.38        36.03       176.55 
TCGA-DA-A1IA TCGA-DA-A1IC TCGA-EE-A185 TCGA-EE-A29H TCGA-EE-A29V TCGA-EE-A2GH 
       65.92        68.09         4.93        32.19        25.87       182.01 
TCGA-EE-A2GI TCGA-EE-A2GR TCGA-EE-A2MP TCGA-EE-A3AD TCGA-ER-A1A1 TCGA-FS-A1Z3 
       22.55        14.30       248.61         3.68        79.99        20.91 
TCGA-FS-A1ZG TCGA-FS-A1ZK TCGA-FS-A1ZM TCGA-GN-A268 
        9.70        23.93       101.26        62.76 

$subtype4
TCGA-EE-A17X TCGA-EE-A29L TCGA-EE-A29S TCGA-EE-A2A2 TCGA-EE-A2GL TCGA-EE-A2GS 
       29.82         2.56        55.89        24.43        55.00        55.59 
TCGA-EE-A2M6 TCGA-EE-A2MD TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2MM TCGA-EE-A2MN 
      129.24        47.28        96.23       144.76       167.87        47.54 
TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AE TCGA-EE-A3AF 
      136.44        41.59       122.73        25.84        26.73        13.81 
TCGA-EE-A3AG TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N TCGA-FS-A1YW 
       23.47        26.37         6.41       131.08        44.05       216.92 
TCGA-FS-A1Z0 TCGA-FS-A1Z4 TCGA-FS-A1ZJ TCGA-FS-A1ZP TCGA-FS-A1ZT TCGA-FS-A1ZU 
      202.62        28.08        47.38        74.73        53.16        26.56 
TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A26D 
      120.46       117.93        39.58 

subtype1 subtype2 subtype3 subtype4 
   10.09     4.24     2.70     2.56 
subtype1 subtype2 subtype3 subtype4 
  204.62   345.96   248.61   216.92 
subtype1 subtype2 subtype3 subtype4 
   47.33    46.62    34.11    47.54 
[1] "10.1 - 204.6 (47.3)" "4.2 - 346.0 (46.6)"  "2.7 - 248.6 (34.1)" 
[4] "2.6 - 216.9 (47.5)" 
 [1] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [7] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[13] "subtype3" "subtype2" "subtype3" "subtype4" "subtype2" "subtype1"
[19] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype4"
[25] "subtype2" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[31] "subtype3" "subtype1" "subtype4" "subtype2" "subtype2" "subtype3"
[37] "subtype3" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
[43] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype1"
[49] "subtype4" "subtype1" "subtype4" "subtype4" "subtype1" "subtype4"
[55] "subtype4" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
[61] "subtype2" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
[67] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
[73] "subtype3" "subtype4" "subtype4" "subtype3" "subtype4" "subtype1"
[79] "subtype1" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[85] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype4"
[91] "subtype4" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[97] "subtype4"
 [1] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [7] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[13] "subtype3" "subtype2" "subtype3" "subtype4" "subtype2" "subtype1"
[19] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype4"
[25] "subtype2" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[31] "subtype3" "subtype1" "subtype4" "subtype2" "subtype2" "subtype3"
[37] "subtype3" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
[43] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype1"
[49] "subtype4" "subtype1" "subtype4" "subtype4" "subtype1" "subtype4"
[55] "subtype4" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
[61] "subtype2" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
[67] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
[73] "subtype3" "subtype4" "subtype4" "subtype3" "subtype4" "subtype1"
[79] "subtype1" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[85] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype4"
[91] "subtype4" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[97] "subtype4"
 [1] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [7] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[13] "subtype3" "subtype2" "subtype3" "subtype4" "subtype2" "subtype1"
[19] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype4"
[25] "subtype2" "subtype2" "subtype2" "subtype1" "subtype4" "subtype2"
[31] "subtype3" "subtype1" "subtype4" "subtype2" "subtype2" "subtype3"
[37] "subtype3" "subtype2" "subtype4" "subtype1" "subtype3" "subtype4"
[43] "subtype2" "subtype2" "subtype1" "subtype4" "subtype2" "subtype1"
[49] "subtype4" "subtype1" "subtype4" "subtype4" "subtype1" "subtype4"
[55] "subtype4" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
[61] "subtype2" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
[67] "subtype4" "subtype1" "subtype4" "subtype4" "subtype4" "subtype4"
[73] "subtype3" "subtype4" "subtype4" "subtype3" "subtype4" "subtype1"
[79] "subtype1" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[85] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype4"
[91] "subtype4" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[97] "subtype4"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1 11 15
  subtype2 10  6
  subtype3 10 14
  subtype4 11 23
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   11   15
  subtype2   10    6
  subtype3   10   14
  subtype4   11   23
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       11       10       10       11
  MALE         15        6       14       23
          vv
clus       M0 M1 M1B M1C
  subtype1 22  0   0   2
  subtype2 15  0   0   0
  subtype3 20  0   1   0
  subtype4 23  1   0   0
D3V4, multiclass
          vv
clus       N0 N1 N1A N1B N2A N2B N2C N3 NX
  subtype1 12  1   3   3   0   1   2  2  0
  subtype2 11  1   0   0   0   2   0  0  1
  subtype3  7  0   0   5   1   2   2  3  1
  subtype4 21  0   0   2   0   0   0  2  0
D3V5, multiclass
D3V6, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIC
  subtype1       2        1        2        2         2         2         0
  subtype2       2        2        2        1         1         1         1
  subtype3       2        2        0        2         0         1         0
  subtype4       5        3        3        5         2         0         2
          vv
clus       STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  subtype1         1          2          4          4        2
  subtype2         1          0          1          1        0
  subtype3         1          0          4          5        0
  subtype4         1          0          1          1        1
D3V7, multiclass

Clustering(4) Variable = RPPA_CHIERARCHICAL
D4V1, survival
          sevent
clus2       0  1
  subtype1  6 11
  subtype2 12  3
  subtype3 16 15
  subtype4  7 11
  subtype5  9  7
subtype1 subtype2 subtype3 subtype4 subtype5 
      17       15       31       18       16 
subtype1 subtype2 subtype3 subtype4 subtype5 
      11        3       15       11        7 
$subtype1
TCGA-DA-A1I8 TCGA-EE-A29S TCGA-EE-A2GL TCGA-EE-A2MI TCGA-EE-A2MM TCGA-EE-A2MN 
       53.92        55.89        55.00       204.62       167.87        47.54 
TCGA-EE-A3AB TCGA-EE-A3AC TCGA-EE-A3AG TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
      122.73        25.84        23.47        12.59        26.37         6.41 
TCGA-FS-A1ZD TCGA-FS-A1ZP TCGA-FS-A1ZU TCGA-GN-A266 TCGA-GN-A26D 
       53.52        74.73        26.56        10.09        39.58 

$subtype2
TCGA-D3-A1Q7 TCGA-DA-A1HV TCGA-EE-A29P TCGA-EE-A29T TCGA-EE-A2A2 TCGA-EE-A2GK 
      121.22        48.89        56.42       345.96        24.43        54.71 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M6 TCGA-EE-A2MR TCGA-EE-A3AA TCGA-EE-A3AF 
       19.56        67.13       129.24       103.56         4.24        13.81 
TCGA-ER-A19N TCGA-FS-A1Z0 TCGA-FS-A1Z4 
       44.05       202.62        28.08 

$subtype3
TCGA-D9-A148 TCGA-D9-A149 TCGA-DA-A1IA TCGA-DA-A1IC TCGA-EE-A17X TCGA-EE-A185 
      148.31        49.74        65.92        68.09        29.82         4.93 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A2GI TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2MD 
       32.19         2.56        22.55        14.30        55.59        47.28 
TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A3AD TCGA-EE-A3AE 
      144.76       203.01       136.44        41.59         3.68        26.73 
TCGA-ER-A19L TCGA-ER-A1A1 TCGA-FS-A1YW TCGA-FS-A1Z3 TCGA-FS-A1ZG TCGA-FS-A1ZJ 
      131.08        79.99       216.92        20.91         9.70        47.38 
TCGA-FS-A1ZK TCGA-FS-A1ZM TCGA-FS-A1ZT TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       23.93       101.26        53.16        76.41       120.46       117.93 
TCGA-GN-A268 
       62.76 

$subtype4
TCGA-DA-A1HY TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-EE-A182 TCGA-EE-A29C TCGA-EE-A29E 
      117.17        35.93       107.34        14.70        47.84        39.62 
TCGA-EE-A29R TCGA-EE-A29V TCGA-EE-A2A0 TCGA-EE-A2GP TCGA-EE-A2M5 TCGA-EE-A2MC 
       14.47        25.87        46.82        13.87        21.67        61.51 
TCGA-EE-A2MU TCGA-FS-A1ZA TCGA-FS-A1ZZ TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A 
       53.26        27.68        27.02        84.72        64.41        32.48 

$subtype5
TCGA-D9-A1JW TCGA-D9-A1JX TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-EE-A181 
        2.70         6.38        36.03       176.55        23.44        33.73 
TCGA-EE-A20F TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GH 
       78.87        44.35        18.58        58.75        43.23       182.01 
TCGA-EE-A2M8 TCGA-EE-A2MJ TCGA-EE-A2MP TCGA-FS-A1ZH 
       19.76        96.23       248.61        32.71 

subtype1 subtype2 subtype3 subtype4 subtype5 
    6.41     4.24     2.56    13.87     2.70 
subtype1 subtype2 subtype3 subtype4 subtype5 
  204.62   345.96   216.92   117.17   248.61 
subtype1 subtype2 subtype3 subtype4 subtype5 
  47.540   54.710   53.160   37.775   39.630 
[1] "6.4 - 204.6 (47.5)"  "4.2 - 346.0 (54.7)"  "2.6 - 216.9 (53.2)" 
[4] "13.9 - 117.2 (37.8)" "2.7 - 248.6 (39.6)" 
 [1] "subtype2" "subtype3" "subtype3" "subtype5" "subtype5" "subtype2"
 [7] "subtype5" "subtype4" "subtype5" "subtype4" "subtype4" "subtype1"
[13] "subtype3" "subtype5" "subtype3" "subtype3" "subtype5" "subtype4"
[19] "subtype3" "subtype5" "subtype4" "subtype4" "subtype3" "subtype3"
[25] "subtype5" "subtype5" "subtype2" "subtype4" "subtype1" "subtype2"
[31] "subtype4" "subtype4" "subtype2" "subtype5" "subtype5" "subtype5"
[37] "subtype3" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[43] "subtype2" "subtype2" "subtype4" "subtype2" "subtype5" "subtype4"
[49] "subtype3" "subtype1" "subtype5" "subtype3" "subtype3" "subtype1"
[55] "subtype1" "subtype5" "subtype2" "subtype3" "subtype3" "subtype4"
[61] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[73] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype4"
[79] "subtype1" "subtype3" "subtype5" "subtype3" "subtype3" "subtype3"
[85] "subtype1" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[91] "subtype3" "subtype4" "subtype1" "subtype4" "subtype3" "subtype4"
[97] "subtype1"
 [1] "subtype2" "subtype3" "subtype3" "subtype5" "subtype5" "subtype2"
 [7] "subtype5" "subtype4" "subtype5" "subtype4" "subtype4" "subtype1"
[13] "subtype3" "subtype5" "subtype3" "subtype3" "subtype5" "subtype4"
[19] "subtype3" "subtype5" "subtype4" "subtype4" "subtype3" "subtype3"
[25] "subtype5" "subtype5" "subtype2" "subtype4" "subtype1" "subtype2"
[31] "subtype4" "subtype4" "subtype2" "subtype5" "subtype5" "subtype5"
[37] "subtype3" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[43] "subtype2" "subtype2" "subtype4" "subtype2" "subtype5" "subtype4"
[49] "subtype3" "subtype1" "subtype5" "subtype3" "subtype3" "subtype1"
[55] "subtype1" "subtype5" "subtype2" "subtype3" "subtype3" "subtype4"
[61] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[73] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype4"
[79] "subtype1" "subtype3" "subtype5" "subtype3" "subtype3" "subtype3"
[85] "subtype1" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[91] "subtype3" "subtype4" "subtype1" "subtype4" "subtype3" "subtype4"
[97] "subtype1"
 [1] "subtype2" "subtype3" "subtype3" "subtype5" "subtype5" "subtype2"
 [7] "subtype5" "subtype4" "subtype5" "subtype4" "subtype4" "subtype1"
[13] "subtype3" "subtype5" "subtype3" "subtype3" "subtype5" "subtype4"
[19] "subtype3" "subtype5" "subtype4" "subtype4" "subtype3" "subtype3"
[25] "subtype5" "subtype5" "subtype2" "subtype4" "subtype1" "subtype2"
[31] "subtype4" "subtype4" "subtype2" "subtype5" "subtype5" "subtype5"
[37] "subtype3" "subtype2" "subtype1" "subtype4" "subtype3" "subtype3"
[43] "subtype2" "subtype2" "subtype4" "subtype2" "subtype5" "subtype4"
[49] "subtype3" "subtype1" "subtype5" "subtype3" "subtype3" "subtype1"
[55] "subtype1" "subtype5" "subtype2" "subtype3" "subtype3" "subtype4"
[61] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[73] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype4"
[79] "subtype1" "subtype3" "subtype5" "subtype3" "subtype3" "subtype3"
[85] "subtype1" "subtype3" "subtype1" "subtype4" "subtype3" "subtype3"
[91] "subtype3" "subtype4" "subtype1" "subtype4" "subtype3" "subtype4"
[97] "subtype1"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1  6 12
  subtype2  8  7
  subtype3 13 19
  subtype4  7 12
  subtype5  8  8
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   12
  subtype2    8    7
  subtype3   13   19
  subtype4    7   12
  subtype5    8    8
          vv
clus       M0 M1 M1B M1C
  subtype1 11  1   0   0
  subtype2 12  0   0   0
  subtype3 25  0   1   0
  subtype4 17  0   0   1
  subtype5 15  0   0   1
D4V4, multiclass
          vv
clus       N0 N1 N1A N1B N2A N2B N2C N3 NX
  subtype1 11  0   0   0   0   0   0  2  0
  subtype2  9  0   0   1   0   1   0  0  1
  subtype3 15  1   0   3   0   1   2  4  0
  subtype4  7  0   3   5   0   1   1  1  0
  subtype5  9  1   0   1   1   2   1  0  1
D4V5, multiclass
D4V6, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIC
  subtype1       2        0        1        1         3         1         2
  subtype2       4        2        1        0         1         0         1
  subtype3       1        4        3        6         0         1         0
  subtype4       2        1        1        0         1         1         0
  subtype5       2        1        1        3         0         1         0
          vv
clus       STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  subtype1         0          0          0          1        1
  subtype2         0          0          2          0        0
  subtype3         3          0          2          4        0
  subtype4         0          2          5          4        1
  subtype5         1          0          1          2        1
D4V7, multiclass

Clustering(5) Variable = MRNASEQ_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 24 30
  subtype2 30 10
  subtype3 21 32
subtype1 subtype2 subtype3 
      54       40       53 
subtype1 subtype2 subtype3 
      30       10       32 
$subtype1
TCGA-D3-A3C6 TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A1JX TCGA-DA-A1HY TCGA-DA-A1I2 
       58.03         9.30        21.47         6.38       117.17       176.55 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A20B TCGA-EE-A20H 
       61.18        53.92        10.49       215.44       109.64       168.26 
TCGA-EE-A29A TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A5 TCGA-EE-A2GD 
       63.32        37.35        14.47       345.96        39.25       314.53 
TCGA-EE-A2GE TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2M5 
      135.91        90.94       101.95        13.87        55.59        21.67 
TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2MC TCGA-EE-A2MI TCGA-EE-A2MK TCGA-EE-A2MM 
      129.24        28.80        61.51       204.62       144.76       167.87 
TCGA-EE-A2MP TCGA-EE-A2MS TCGA-EE-A3AB TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D 
      248.61       136.44       122.73        23.47       138.77        12.59 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A3PL TCGA-FS-A1YX TCGA-FS-A1Z0 TCGA-FS-A1Z3 
      131.08        61.05        33.21        48.59       202.62        20.91 
TCGA-FS-A1Z7 TCGA-FS-A1ZA TCGA-FS-A1ZD TCGA-FS-A1ZF TCGA-FS-A1ZH TCGA-FS-A1ZM 
        7.76        27.68        53.52        15.45        32.71       101.26 
TCGA-FS-A1ZR TCGA-FS-A1ZS TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A266 TCGA-GN-A26A 
       11.41       148.77        76.41       120.46        10.09        32.48 

$subtype2
TCGA-D3-A1Q7 TCGA-D9-A149 TCGA-DA-A1HV TCGA-DA-A1I1 TCGA-DA-A1I5 TCGA-DA-A1IB 
      121.22        49.74        48.89       194.83       107.34        23.44 
TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A20F TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29S 
       15.68        33.73        78.87        18.58        56.42        55.89 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GH 
       46.82        78.94        24.43        58.75        43.23       182.01 
TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GT TCGA-EE-A2M8 
       22.55        89.33        54.71        55.00        19.56        19.76 
TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MJ TCGA-EE-A2ML TCGA-EE-A2MR 
      103.27       103.17        16.96        96.23       203.01       103.56 
TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AE TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FS-A1Z4 
       53.26         4.24        26.73        44.05        79.99        28.08 
TCGA-FS-A1ZP TCGA-FS-A1ZT TCGA-FS-A1ZW TCGA-GN-A265 
       74.73        53.16        49.48        84.72 

$subtype3
TCGA-D3-A3CC TCGA-D9-A148 TCGA-D9-A1JW TCGA-D9-A3Z1 TCGA-DA-A1HW TCGA-DA-A1I0 
       71.24       148.31         2.70        11.34        36.03        20.38 
TCGA-DA-A1I4 TCGA-DA-A1IA TCGA-DA-A1IC TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A182 
       35.93        65.92        68.09        29.82         8.65        14.70 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
       26.86         4.93        47.84        13.97        39.62        32.19 
TCGA-EE-A29L TCGA-EE-A29M TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2GB TCGA-EE-A2GM 
        2.56        44.35        25.87        17.92        47.54        75.48 
TCGA-EE-A2GR TCGA-EE-A2GU TCGA-EE-A2MD TCGA-EE-A2MN TCGA-EE-A2MQ TCGA-EE-A2MT 
       14.30        67.13        47.28        47.54        43.23        41.59 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AF TCGA-ER-A19F TCGA-ER-A19J TCGA-FR-A3YN 
       25.84         3.68        13.81        26.37         6.41        80.48 
TCGA-FS-A1YW TCGA-FS-A1YY TCGA-FS-A1ZB TCGA-FS-A1ZE TCGA-FS-A1ZG TCGA-FS-A1ZJ 
      216.92       228.59        48.85        40.27         9.70        47.38 
TCGA-FS-A1ZK TCGA-FS-A1ZU TCGA-FS-A1ZY TCGA-FS-A1ZZ TCGA-FW-A3I3 TCGA-FW-A3R5 
       23.93        26.56        27.06        27.02         0.20        22.98 
TCGA-FW-A3TU TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       47.54       117.93        64.41        62.76        39.58 

subtype1 subtype2 subtype3 
    6.38     4.24     0.20 
subtype1 subtype2 subtype3 
  345.96   203.01   228.59 
subtype1 subtype2 subtype3 
  61.115   53.985   35.930 
[1] "6.4 - 346.0 (61.1)" "4.2 - 203.0 (54.0)" "0.2 - 228.6 (35.9)"
  [1] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [13] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
 [19] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
 [25] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [49] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [67] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [73] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [85] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [91] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[121] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype1" "subtype3"
  [1] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [13] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
 [19] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
 [25] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [49] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [67] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [73] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [85] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [91] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[121] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype1" "subtype3"
  [1] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [13] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
 [19] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype1"
 [25] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [49] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [67] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [73] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [85] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [91] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[103] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[115] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[121] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype1" "subtype3"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 24 31
  subtype2 12 29
  subtype3 22 33
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   24   31
  subtype2   12   29
  subtype3   22   33
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       24       12       22
  MALE         31       29       33
          vv
clus       M0 M1 M1A M1B M1C
  subtype1 46  0   1   0   1
  subtype2 37  0   0   0   1
  subtype3 44  2   1   1   0
D5V4, multiclass
          vv
clus       N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  subtype1 29  1   3   2  0   1   3   4  3  2
  subtype2 27  1   1   4  0   0   3   0  2  0
  subtype3 28  0   2   6  1   2   3   1  6  0
D5V5, multiclass
D5V6, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIC
  subtype1       8        1        5        8         2         3         1
  subtype2       6        5        2        6         4         1         1
  subtype3       3        3        6        4         1         4         5
          vv
clus       STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  subtype1         3          2          5          6        2
  subtype2         2          0          5          3        1
  subtype3         2          3          5          8        2
D5V7, multiclass

Clustering(6) Variable = MRNASEQ_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 15 23
  subtype2 45 26
  subtype3 15 23
subtype1 subtype2 subtype3 
      38       71       38 
subtype1 subtype2 subtype3 
      23       26       23 
$subtype1
TCGA-D3-A3C6 TCGA-D3-A3MO TCGA-D3-A3MV TCGA-DA-A1HY TCGA-DA-A1I7 TCGA-DA-A1I8 
       58.03         9.30        21.47       117.17        61.18        53.92 
TCGA-DA-A3F5 TCGA-EE-A20B TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29R TCGA-EE-A29T 
      215.44       109.64       168.26        63.32        14.47       345.96 
TCGA-EE-A2A5 TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GS 
       39.25       314.53       135.91       101.95        13.87        55.59 
TCGA-EE-A2M5 TCGA-EE-A2M7 TCGA-EE-A2MC TCGA-EE-A2MI TCGA-EE-A2MM TCGA-EE-A3AB 
       21.67        28.80        61.51       204.62       167.87       122.73 
TCGA-EE-A3AG TCGA-EE-A3AH TCGA-ER-A19D TCGA-ER-A19L TCGA-FS-A1YX TCGA-FS-A1Z7 
       23.47       138.77        12.59       131.08        48.59         7.76 
TCGA-FS-A1ZA TCGA-FS-A1ZD TCGA-FS-A1ZF TCGA-FS-A1ZH TCGA-FS-A1ZS TCGA-GN-A262 
       27.68        53.52        15.45        32.71       148.77       120.46 
TCGA-GN-A266 TCGA-GN-A26A 
       10.09        32.48 

$subtype2
TCGA-D3-A1Q7 TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 
      121.22       148.31        49.74         2.70         6.38        11.34 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I5 
       48.89        36.03        20.38       194.83       176.55       107.34 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A183 
       23.44        68.09        10.49        15.68        33.73        26.86 
TCGA-EE-A20F TCGA-EE-A29H TCGA-EE-A29M TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29S 
       78.87        32.19        44.35        18.58        56.42        55.89 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-EE-A2GB 
       17.92        46.82        78.94        24.43        58.75        47.54 
TCGA-EE-A2GC TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL 
       43.23       182.01        22.55        89.33        54.71        55.00 
TCGA-EE-A2GT TCGA-EE-A2GU TCGA-EE-A2M6 TCGA-EE-A2M8 TCGA-EE-A2MD TCGA-EE-A2ME 
       19.56        67.13       129.24        19.76        47.28       103.27 
TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MJ TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MN 
      103.17        16.96        96.23       144.76       203.01        47.54 
TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MR TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AC 
      248.61        43.23       103.56        53.26         4.24        25.84 
TCGA-EE-A3AE TCGA-ER-A19F TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A3YN 
       26.73        26.37        61.05        44.05        79.99        80.48 
TCGA-FS-A1Z0 TCGA-FS-A1Z4 TCGA-FS-A1ZB TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR 
      202.62        28.08        48.85       101.26        74.73        11.41 
TCGA-FS-A1ZT TCGA-FS-A1ZW TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A265 
       53.16        49.48        22.98        76.41        84.72 

$subtype3
TCGA-D3-A3CC TCGA-DA-A1I4 TCGA-DA-A1IA TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A182 
       71.24        35.93        65.92        29.82         8.65        14.70 
TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29Q 
        4.93        47.84        13.97        39.62         2.56        37.35 
TCGA-EE-A29V TCGA-EE-A2GM TCGA-EE-A2GN TCGA-EE-A2GR TCGA-EE-A2MS TCGA-EE-A2MT 
       25.87        75.48        90.94        14.30       136.44        41.59 
TCGA-EE-A3AD TCGA-EE-A3AF TCGA-ER-A19J TCGA-ER-A3PL TCGA-FS-A1YW TCGA-FS-A1YY 
        3.68        13.81         6.41        33.21       216.92       228.59 
TCGA-FS-A1Z3 TCGA-FS-A1ZE TCGA-FS-A1ZG TCGA-FS-A1ZJ TCGA-FS-A1ZK TCGA-FS-A1ZU 
       20.91        40.27         9.70        47.38        23.93        26.56 
TCGA-FS-A1ZY TCGA-FS-A1ZZ TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A264 TCGA-GN-A267 
       27.06        27.02         0.20        47.54       117.93        64.41 
TCGA-GN-A268 TCGA-GN-A26D 
       62.76        39.58 

subtype1 subtype2 subtype3 
    7.76     2.70     0.20 
subtype1 subtype2 subtype3 
  345.96   248.61   228.59 
subtype1 subtype2 subtype3 
   56.81    49.48    34.57 
[1] "7.8 - 346.0 (56.8)" "2.7 - 248.6 (49.5)" "0.2 - 228.6 (34.6)"
  [1] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [19] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [37] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [43] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [49] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [67] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [73] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [97] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[139] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype1" "subtype3"
  [1] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [19] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [37] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [43] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [49] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [67] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [73] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [97] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[139] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype1" "subtype3"
  [1] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [19] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [31] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [37] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [43] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [49] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [67] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [73] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [97] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[121] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[127] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[139] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype1" "subtype3"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 17 22
  subtype2 23 49
  subtype3 18 22
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   17   22
  subtype2   23   49
  subtype3   18   22
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       17       23       18
  MALE         22       49       22
          vv
clus       M0 M1 M1A M1B M1C
  subtype1 32  0   0   0   1
  subtype2 65  0   1   1   1
  subtype3 30  2   1   0   0
D6V4, multiclass
          vv
clus       N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  subtype1 19  0   3   2  0   1   1   3  3  1
  subtype2 43  2   2   5  1   2   5   2  5  1
  subtype3 22  0   1   5  0   0   3   0  3  0
D6V5, multiclass
D6V6, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIC
  subtype1       6        0        4        5         1         2         1
  subtype2      10        8        6       10         4         1         1
  subtype3       1        1        3        3         2         5         5
          vv
clus       STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  subtype1         1          2          4          5        1
  subtype2         5          2          8          6        1
  subtype3         1          1          3          6        3
D6V7, multiclass

Clustering(7) Variable = MIRSEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 22  9
  subtype2 31 36
  subtype3 25 27
subtype1 subtype2 subtype3 
      31       67       52 
subtype1 subtype2 subtype3 
       9       36       27 
$subtype1
TCGA-D3-A3MV TCGA-D9-A1JX TCGA-DA-A1I0 TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 
       21.47         6.38        20.38        28.60       215.44        15.68 
TCGA-EE-A17X TCGA-EE-A182 TCGA-EE-A20B TCGA-EE-A29P TCGA-EE-A29X TCGA-EE-A2A0 
       29.82        14.70       109.64        56.42        17.92        46.82 
TCGA-EE-A2A2 TCGA-EE-A2GB TCGA-EE-A2GI TCGA-EE-A2GU TCGA-EE-A2M6 TCGA-EE-A2M7 
       24.43        47.54        22.55        67.13       129.24        28.80 
TCGA-EE-A2MD TCGA-EE-A2ML TCGA-EE-A2MP TCGA-EE-A3AB TCGA-EE-A3AG TCGA-ER-A19F 
       47.28       203.01       248.61       122.73        23.47        26.37 
TCGA-ER-A1A1 TCGA-FS-A1ZH TCGA-FW-A3I3 TCGA-FW-A3TU TCGA-GN-A262 TCGA-GN-A265 
       79.99        32.71         0.20        47.54       120.46        84.72 
TCGA-GN-A26D 
       39.58 

$subtype2
TCGA-D3-A3C6 TCGA-D9-A148 TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       58.03       148.31        49.74         2.70        11.34         3.22 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1IA TCGA-DA-A1IB 
       48.89        36.03       194.83       176.55        65.92        23.44 
TCGA-DA-A1IC TCGA-DA-A3F3 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       68.09        10.49         8.65        33.73        26.86         4.93 
TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M 
       78.87        13.97        39.62        32.19         2.56        44.35 
TCGA-EE-A29R TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GJ TCGA-EE-A2GL TCGA-EE-A2GN 
       14.47        58.75        43.23        89.33        55.00        90.94 
TCGA-EE-A2GR TCGA-EE-A2GT TCGA-EE-A2ME TCGA-EE-A2MH TCGA-EE-A2MJ TCGA-EE-A2MK 
       14.30        19.56       103.27        16.96        96.23       144.76 
TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MQ TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A3AA 
      167.87        47.54        43.23       136.44        41.59         4.24 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19J 
       25.84         3.68        26.73        13.81       138.77         6.41 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1YW TCGA-FS-A1Z0 TCGA-FS-A1Z3 TCGA-FS-A1ZF 
       33.21        80.48       216.92       202.62        20.91        15.45 
TCGA-FS-A1ZG TCGA-FS-A1ZJ TCGA-FS-A1ZK TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZT 
        9.70        47.38        23.93        74.73        11.41        53.16 
TCGA-FS-A1ZU TCGA-FS-A1ZW TCGA-FS-A1ZY TCGA-FS-A1ZZ TCGA-GN-A264 TCGA-GN-A267 
       26.56        49.48        27.06        27.02       117.93        64.41 
TCGA-GN-A268 
       62.76 

$subtype3
TCGA-D3-A1Q7 TCGA-D3-A3CC TCGA-D3-A3MO TCGA-DA-A1HY TCGA-DA-A1I4 TCGA-DA-A1I5 
      121.22        71.24         9.30       117.17        35.93       107.34 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-EE-A20H TCGA-EE-A29A TCGA-EE-A29C TCGA-EE-A29N 
       61.18        53.92       168.26        63.32        47.84        18.58 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29V TCGA-EE-A2A1 TCGA-EE-A2A5 
       37.35        55.89       345.96        25.87        78.94        39.25 
TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GK TCGA-EE-A2GM TCGA-EE-A2GO 
      314.53       135.91       182.01        54.71        75.48       101.95 
TCGA-EE-A2GP TCGA-EE-A2GS TCGA-EE-A2M5 TCGA-EE-A2M8 TCGA-EE-A2MC TCGA-EE-A2MG 
       13.87        55.59        21.67        19.76        61.51       103.17 
TCGA-EE-A2MI TCGA-EE-A2MR TCGA-EE-A2MU TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A19M 
      204.62       103.56        53.26        12.59       131.08        61.05 
TCGA-ER-A19N TCGA-ER-A3ET TCGA-FS-A1YX TCGA-FS-A1YY TCGA-FS-A1Z4 TCGA-FS-A1Z7 
       44.05        80.32        48.59       228.59        28.08         7.76 
TCGA-FS-A1ZA TCGA-FS-A1ZB TCGA-FS-A1ZD TCGA-FS-A1ZE TCGA-FS-A1ZM TCGA-FS-A1ZS 
       27.68        48.85        53.52        40.27       101.26       148.77 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A266 TCGA-GN-A26A 
       22.98        76.41        10.09        32.48 

subtype1 subtype2 subtype3 
    0.20     2.56     7.76 
subtype1 subtype2 subtype3 
  248.61   216.92   345.96 
subtype1 subtype2 subtype3 
   39.58    41.59    55.74 
[1] "0.2 - 248.6 (39.6)" "2.6 - 216.9 (41.6)" "7.8 - 346.0 (55.7)"
  [1] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [37] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [91] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[133] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[145] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
  [1] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [37] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [91] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[133] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[145] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
  [1] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [37] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
 [67] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [91] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [97] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[103] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[133] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
[145] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 14 19
  subtype2 25 43
  subtype3 20 33
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   14   19
  subtype2   25   43
  subtype3   20   33
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       14       25       20
  MALE         19       43       33
          vv
clus       M0 M1 M1A M1B M1C
  subtype1 23  1   1   0   1
  subtype2 58  1   1   1   0
  subtype3 49  0   0   0   1
D7V4, multiclass
          vv
clus       N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  subtype1 15  0   1   3  0   1   2   1  3  1
  subtype2 37  0   2   8  0   2   5   1  6  0
  subtype3 32  2   4   2  1   0   3   3  2  1
D7V5, multiclass
D7V6, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIC
  subtype1       2        3        1        4         1         0         2
  subtype2       5        5        5       11         3         5         2
  subtype3      10        1        7        3         3         3         3
          vv
clus       STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  subtype1         0          1          5          4        2
  subtype2         1          2          8          9        2
  subtype3         6          3          4          4        1
D7V7, multiclass

Clustering(8) Variable = MIRSEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 13  4
  subtype2 18 15
  subtype3 47 53
subtype1 subtype2 subtype3 
      17       33      100 
subtype1 subtype2 subtype3 
       4       15       53 
$subtype1
TCGA-D3-A3MV TCGA-D9-A1JX TCGA-DA-A1I0 TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A182 
       21.47         6.38        20.38        28.60        15.68        14.70 
TCGA-EE-A20B TCGA-EE-A29P TCGA-EE-A2A0 TCGA-EE-A2A2 TCGA-EE-A2GB TCGA-EE-A2GU 
      109.64        56.42        46.82        24.43        47.54        67.13 
TCGA-EE-A2M7 TCGA-EE-A2ML TCGA-EE-A3AG TCGA-FW-A3I3 TCGA-GN-A265 
       28.80       203.01        23.47         0.20        84.72 

$subtype2
TCGA-DA-A1HY TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A29A 
      117.17        61.18        53.92       215.44        29.82        63.32 
TCGA-EE-A29C TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2GK TCGA-EE-A2GM 
       47.84        37.35       345.96        78.94        54.71        75.48 
TCGA-EE-A2GO TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2MC TCGA-EE-A2MG TCGA-EE-A2MI 
      101.95        21.67       129.24        61.51       103.17       204.62 
TCGA-EE-A2MR TCGA-EE-A3AB TCGA-ER-A19D TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FS-A1Z4 
      103.56       122.73        12.59        44.05        79.99        28.08 
TCGA-FS-A1ZA TCGA-FS-A1ZD TCGA-FS-A1ZE TCGA-FS-A1ZH TCGA-FS-A1ZS TCGA-FW-A3R5 
       27.68        53.52        40.27        32.71       148.77        22.98 
TCGA-GN-A261 TCGA-GN-A266 TCGA-GN-A26A 
       76.41        10.09        32.48 

$subtype3
TCGA-D3-A1Q7 TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3MO TCGA-D9-A148 TCGA-D9-A149 
      121.22        58.03        71.24         9.30       148.31        49.74 
TCGA-D9-A1JW TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I1 
        2.70        11.34         3.22        48.89        36.03       194.83 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I5 TCGA-DA-A1IA TCGA-DA-A1IB TCGA-DA-A1IC 
      176.55        35.93       107.34        65.92        23.44        68.09 
TCGA-DA-A3F3 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F 
       10.49         8.65        33.73        26.86         4.93        78.87 
TCGA-EE-A20H TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29M 
      168.26        13.97        39.62        32.19         2.56        44.35 
TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29V TCGA-EE-A29X TCGA-EE-A2A5 
       18.58        14.47        55.89        25.87        17.92        39.25 
TCGA-EE-A2A6 TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE TCGA-EE-A2GH TCGA-EE-A2GI 
       58.75        43.23       314.53       135.91       182.01        22.55 
TCGA-EE-A2GJ TCGA-EE-A2GL TCGA-EE-A2GN TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS 
       89.33        55.00        90.94        13.87        14.30        55.59 
TCGA-EE-A2GT TCGA-EE-A2M8 TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MH TCGA-EE-A2MJ 
       19.56        19.76        47.28       103.27        16.96        96.23 
TCGA-EE-A2MK TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ TCGA-EE-A2MS 
      144.76       167.87        47.54       248.61        43.23       136.44 
TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE 
       41.59        53.26         4.24        25.84         3.68        26.73 
TCGA-EE-A3AF TCGA-EE-A3AH TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       13.81       138.77        26.37         6.41       131.08        61.05 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1YY 
       80.32        33.21        80.48       216.92        48.59       228.59 
TCGA-FS-A1Z0 TCGA-FS-A1Z3 TCGA-FS-A1Z7 TCGA-FS-A1ZB TCGA-FS-A1ZF TCGA-FS-A1ZG 
      202.62        20.91         7.76        48.85        15.45         9.70 
TCGA-FS-A1ZJ TCGA-FS-A1ZK TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZT 
       47.38        23.93       101.26        74.73        11.41        53.16 
TCGA-FS-A1ZU TCGA-FS-A1ZW TCGA-FS-A1ZY TCGA-FS-A1ZZ TCGA-FW-A3TU TCGA-GN-A262 
       26.56        49.48        27.06        27.02        47.54       120.46 
TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
      117.93        64.41        62.76        39.58 

subtype1 subtype2 subtype3 
    0.20    10.09     2.56 
subtype1 subtype2 subtype3 
  203.01   345.96   314.53 
subtype1 subtype2 subtype3 
   28.60    61.18    47.33 
[1] "0.2 - 203.0 (28.6)"  "10.1 - 346.0 (61.2)" "2.6 - 314.5 (47.3)" 
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
  [7] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [19] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
 [49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
 [55] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [67] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[145] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
  [7] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [19] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
 [49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
 [55] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [67] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[145] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
  [7] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [19] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
 [49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
 [55] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [67] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [79] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [85] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[103] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[145] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1  8 11
  subtype2 11 22
  subtype3 40 62
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8   11
  subtype2   11   22
  subtype3   40   62
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        8       11       40
  MALE         11       22       62
          vv
clus       M0 M1 M1A M1B M1C
  subtype1 14  1   1   0   0
  subtype2 29  0   0   0   1
  subtype3 87  1   1   1   1
D8V4, multiclass
          vv
clus       N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  subtype1  7  0   1   3  0   1   2   0  1  1
  subtype2 18  1   2   0  1   0   1   2  4  1
  subtype3 59  1   4  10  0   2   7   3  6  0
D8V5, multiclass
D8V6, continuous
          vv
clus       STAGE I STAGE IA STAGE IB STAGE II STAGE IIA STAGE IIB STAGE IIC
  subtype1       0        1        0        3         1         0         1
  subtype2       7        1        3        2         1         2         2
  subtype3      10        7       10       13         5         6         4
          vv
clus       STAGE III STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  subtype1         0          1          5          2        1
  subtype2         2          2          2          4        1
  subtype3         5          3         10         11        3
D8V7, multiclass
                   V1.D                      V2                      V3 
        "Time to Death"                   "AGE"                "GENDER" 
                     V4                      V5                      V6 
   "DISTANT.METASTASIS" "LYMPH.NODE.METASTASIS"       "TUMOR.STAGECODE" 
                     V7 
"NEOPLASM.DISEASESTAGE" 
> q(save="no")
