
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.75.4002/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.75.4002/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/PRAD-TP/2286233/1.GDAC_mergedClustering.Finished/PRAD-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/PRAD-TP/2173614/1.GDAC_clinicalDataPicker.Finished/PRAD-TP.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=1", "-MF=ALL", "-oT=", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"  "-oT="
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  

nPatients in clinical file=148, in cluster file=172, common to both=147
[1]   6 147
[1] "CN_CNMF"
[1] 3
 1  2  3  4 
33 66 46  1 
 1  2  3 
33 66 46 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
47 43 57 
 1  2  3 
47 43 57 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3 
40 35 42 
 1  2  3 
40 35 42 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
34 36 47 
 1  2  3 
34 36 47 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3  4 
41 40 26 38 
 1  2  3  4 
41 40 26 38 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
25 68 52 
 1  2  3 
25 68 52 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "DAYSTOLASTKNOWNALIVE"                  
[10] "HISTOLOGICALTYPE"                      
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "BATCHNUMBER"                           

Input Data has 12 rows and 147 columns.

[1] "Batch" "12"   
[1] "Last Follow UP"
TCGA-CH-5737 TCGA-CH-5738 TCGA-CH-5739 TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5743 
          91          212          671           31          395          424 
TCGA-CH-5744 TCGA-CH-5745 TCGA-CH-5746 TCGA-CH-5748 TCGA-CH-5750 TCGA-CH-5751 
          60           91          731           31          395         1065 
TCGA-CH-5752 TCGA-CH-5753 TCGA-CH-5754 TCGA-CH-5761 TCGA-CH-5762 TCGA-CH-5763 
         942           31           62           28         1339          365 
TCGA-CH-5764 TCGA-CH-5765 TCGA-CH-5766 TCGA-CH-5767 TCGA-CH-5768 TCGA-CH-5769 
          31          700           31          458          731           62 
TCGA-CH-5771 TCGA-CH-5772 TCGA-CH-5788 TCGA-CH-5789 TCGA-CH-5790 TCGA-CH-5791 
         395          485          820          303          974         1004 
TCGA-CH-5792 TCGA-CH-5794 TCGA-EJ-5494 TCGA-EJ-5495 TCGA-EJ-5496 TCGA-EJ-5497 
          91          881          378          605          594          396 
TCGA-EJ-5498 TCGA-EJ-5499 TCGA-EJ-5501 TCGA-EJ-5502 TCGA-EJ-5503 TCGA-EJ-5504 
         536          532          729          244          530          229 
TCGA-EJ-5505 TCGA-EJ-5506 TCGA-EJ-5507 TCGA-EJ-5508 TCGA-EJ-5509 TCGA-EJ-5510 
         447          356          182          907         1096          737 
TCGA-EJ-5511 TCGA-EJ-5512 TCGA-EJ-5514 TCGA-EJ-5515 TCGA-EJ-5516 TCGA-EJ-5517 
         788          782          724         1061          783          849 
TCGA-EJ-5518 TCGA-EJ-5519 TCGA-EJ-5521 TCGA-EJ-5522 TCGA-EJ-5524 TCGA-EJ-5525 
        1195         1153          842         1403          834          790 
TCGA-EJ-5526 TCGA-EJ-5527 TCGA-EJ-5530 TCGA-EJ-5531 TCGA-EJ-5532 TCGA-EJ-5542 
         567          397         1272          724          910          519 
TCGA-EJ-7115 TCGA-EJ-7123 TCGA-EJ-7125 TCGA-EJ-7314 TCGA-EJ-7315 TCGA-EJ-7317 
         821         1490         1860          295          289          285 
TCGA-EJ-7321 TCGA-EJ-7327 TCGA-EJ-7328 TCGA-EJ-7330 TCGA-EJ-7331 TCGA-EJ-7781 
         233          175          170          191            9          169 
TCGA-EJ-7782 TCGA-EJ-7783 TCGA-EJ-7784 TCGA-EJ-7785 TCGA-EJ-7786 TCGA-EJ-7788 
          64          131          167          258           79           52 
TCGA-EJ-7789 TCGA-EJ-7791 TCGA-EJ-7792 TCGA-EJ-7793 TCGA-EJ-7794 TCGA-EJ-7797 
          70          217          526           43          284          187 
TCGA-FC-7708 TCGA-G9-6329 TCGA-G9-6332 TCGA-G9-6333 TCGA-G9-6336 TCGA-G9-6338 
          32          923         2328         1925         1669         1649 
TCGA-G9-6342 TCGA-G9-6343 TCGA-G9-6348 TCGA-G9-6351 TCGA-G9-6353 TCGA-G9-6356 
        1338          554         1144         1215          847         1000 
TCGA-G9-6361 TCGA-G9-6362 TCGA-G9-6363 TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6366 
        1008          822          993          841          804          101 
TCGA-G9-6367 TCGA-G9-6369 TCGA-G9-6370 TCGA-G9-6371 TCGA-G9-6373 TCGA-G9-6377 
         875          851          806          846          505          518 
TCGA-G9-6378 TCGA-G9-6384 TCGA-G9-6385 TCGA-G9-6494 TCGA-G9-6496 TCGA-G9-6499 
         664          390          356         1442         1014         1109 
TCGA-G9-7510 TCGA-G9-7519 TCGA-G9-7521 TCGA-G9-7522 TCGA-G9-7523 TCGA-G9-7525 
         674          457          486          451          324          512 
TCGA-H9-7775 TCGA-HC-7077 TCGA-HC-7078 TCGA-HC-7079 TCGA-HC-7080 TCGA-HC-7211 
          31           NA          162           89           61           30 
TCGA-HC-7213 TCGA-HC-7230 TCGA-HC-7231 TCGA-HC-7736 TCGA-HC-7737 TCGA-HC-7740 
          60           51           72           30           63           53 
TCGA-HC-7744 TCGA-HC-7747 TCGA-HC-7749 TCGA-HC-7750 TCGA-HI-7168 TCGA-HI-7169 
          51           57           61           34         2315         1949 
TCGA-HI-7170 TCGA-HI-7171 TCGA-J4-8198 
        1899           NA           98 
Variable 1:'AGE':	nDistinctValues=28,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=129,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=TRUE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=7,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'HISTOLOGICAL.TYPE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'BATCH.NUMBER':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                                   
[2] "RADIATIONS.RADIATION.REGIMENINDICATION"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 147 columns, 1 survival variables, and 2 non-survival variables.
AGE, nv=28, binary=FALSE, numeric=TRUE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = CN_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 33  0
  subtype2 66  0
  subtype3 45  1
subtype1 subtype2 subtype3 
      33       66       46 
subtype1 subtype2 subtype3 
       0        0        1 
$subtype1
TCGA-CH-5737 TCGA-CH-5740 TCGA-CH-5748 TCGA-CH-5767 TCGA-CH-5771 TCGA-CH-5772 
        2.99         1.02         1.02        15.06        12.99        15.95 
TCGA-CH-5792 TCGA-EJ-5504 TCGA-EJ-5505 TCGA-EJ-5509 TCGA-EJ-5531 TCGA-EJ-5532 
        2.99         7.53        14.70        36.03        23.80        29.92 
TCGA-EJ-7115 TCGA-EJ-7123 TCGA-EJ-7125 TCGA-EJ-7317 TCGA-EJ-7327 TCGA-EJ-7330 
       26.99        48.99        61.15         9.37         5.75         6.28 
TCGA-EJ-7331 TCGA-EJ-7782 TCGA-EJ-7786 TCGA-EJ-7792 TCGA-EJ-7794 TCGA-G9-6333 
        0.30         2.10         2.60        17.29         9.34        63.29 
TCGA-G9-6338 TCGA-G9-6369 TCGA-G9-6496 TCGA-G9-7510 TCGA-H9-7775 TCGA-HC-7080 
       54.21        27.98        33.34        22.16         1.02         2.01 
TCGA-HC-7736 TCGA-HC-7737 TCGA-HC-7747 
        0.99         2.07         1.87 

$subtype2
TCGA-CH-5738 TCGA-CH-5741 TCGA-CH-5743 TCGA-CH-5746 TCGA-CH-5750 TCGA-CH-5752 
        6.97        12.99        13.94        24.03        12.99        30.97 
TCGA-CH-5763 TCGA-CH-5764 TCGA-CH-5765 TCGA-CH-5768 TCGA-CH-5769 TCGA-CH-5789 
       12.00         1.02        23.01        24.03         2.04         9.96 
TCGA-CH-5790 TCGA-CH-5794 TCGA-EJ-5494 TCGA-EJ-5496 TCGA-EJ-5497 TCGA-EJ-5498 
       32.02        28.96        12.43        19.53        13.02        17.62 
TCGA-EJ-5499 TCGA-EJ-5502 TCGA-EJ-5503 TCGA-EJ-5506 TCGA-EJ-5508 TCGA-EJ-5512 
       17.49         8.02        17.42        11.70        29.82        25.71 
TCGA-EJ-5515 TCGA-EJ-5516 TCGA-EJ-5522 TCGA-EJ-5526 TCGA-EJ-5530 TCGA-EJ-5542 
       34.88        25.74        46.13        18.64        41.82        17.06 
TCGA-EJ-7321 TCGA-EJ-7328 TCGA-EJ-7783 TCGA-EJ-7785 TCGA-EJ-7791 TCGA-EJ-7793 
        7.66         5.59         4.31         8.48         7.13         1.41 
TCGA-EJ-7797 TCGA-FC-7708 TCGA-G9-6329 TCGA-G9-6332 TCGA-G9-6336 TCGA-G9-6343 
        6.15         1.05        30.35        65.92        54.87        18.21 
TCGA-G9-6348 TCGA-G9-6351 TCGA-G9-6353 TCGA-G9-6356 TCGA-G9-6362 TCGA-G9-6363 
       37.61        39.95        27.85        32.88        27.02        32.65 
TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6367 TCGA-G9-6370 TCGA-G9-6371 TCGA-G9-6378 
       27.65        26.43        28.77        26.50        27.81        21.83 
TCGA-G9-6385 TCGA-G9-7519 TCGA-G9-7522 TCGA-G9-7523 TCGA-G9-7525 TCGA-HC-7079 
       11.70        15.02        14.83        10.65        16.83         2.93 
TCGA-HC-7231 TCGA-HC-7740 TCGA-HC-7750 TCGA-HI-7169 TCGA-HI-7170 TCGA-J4-8198 
        2.37         1.74         1.12        64.08        62.43         3.22 

$subtype3
TCGA-CH-5739 TCGA-CH-5744 TCGA-CH-5751 TCGA-CH-5753 TCGA-CH-5754 TCGA-CH-5761 
       22.06         1.97        35.01         1.02         2.04         0.92 
TCGA-CH-5762 TCGA-CH-5766 TCGA-CH-5788 TCGA-CH-5791 TCGA-EJ-5495 TCGA-EJ-5501 
       44.02         1.02        26.96        33.01        19.89        23.97 
TCGA-EJ-5507 TCGA-EJ-5510 TCGA-EJ-5511 TCGA-EJ-5514 TCGA-EJ-5517 TCGA-EJ-5518 
        5.98        24.23        25.91        23.80        27.91        39.29 
TCGA-EJ-5519 TCGA-EJ-5521 TCGA-EJ-5524 TCGA-EJ-5525 TCGA-EJ-5527 TCGA-EJ-7314 
       37.91        27.68        27.42        25.97        13.05         9.70 
TCGA-EJ-7315 TCGA-EJ-7781 TCGA-EJ-7784 TCGA-EJ-7788 TCGA-EJ-7789 TCGA-G9-6342 
        9.50         5.56         5.49         1.71         2.30        43.99 
TCGA-G9-6361 TCGA-G9-6366 TCGA-G9-6373 TCGA-G9-6377 TCGA-G9-6384 TCGA-G9-6494 
       33.14         3.32        16.60        17.03        12.82        47.41 
TCGA-G9-6499 TCGA-G9-7521 TCGA-HC-7077 TCGA-HC-7078 TCGA-HC-7211 TCGA-HC-7213 
       36.46        15.98        65.98         5.33         0.99         1.97 
TCGA-HC-7230 TCGA-HC-7749 TCGA-HI-7168 TCGA-HI-7171 
        1.68         2.01        65.92        66.02 

subtype1 subtype2 subtype3 
    0.30     1.02     0.92 
subtype1 subtype2 subtype3 
   63.29    65.92    66.02 
subtype1 subtype2 subtype3 
   9.370   17.555   18.460 
[1] "0.3 - 63.3 (9.4)"  "1.0 - 65.9 (17.6)" "0.9 - 66.0 (18.5)"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [31] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [61] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [67] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [73] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [79] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [85] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[121] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[127] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[145] "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [31] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [61] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [67] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [73] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [79] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [85] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[121] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[127] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[145] "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [31] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [61] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [67] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [73] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [79] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [85] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[115] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[121] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[127] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[145] "subtype2"
D1V2, continuous
D1V3, binary
          cls
clus        0  1
  subtype1  1 32
  subtype2  3 63
  subtype3  1 45
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   32
  subtype2    3   63
  subtype3    1   45
     clus
vv    subtype1 subtype2 subtype3
  NO         1        3        1
  YES       32       63       45

Clustering(2) Variable = METHLYATION_CNMF
D2V1, survival
          sevent
clus2       0  1
  subtype1 47  0
  subtype2 43  0
  subtype3 56  1
subtype1 subtype2 subtype3 
      47       43       57 
subtype1 subtype2 subtype3 
       0        0        1 
$subtype1
TCGA-CH-5737 TCGA-CH-5748 TCGA-CH-5751 TCGA-CH-5761 TCGA-CH-5767 TCGA-CH-5772 
        2.99         1.02        35.01         0.92        15.06        15.95 
TCGA-CH-5792 TCGA-EJ-5494 TCGA-EJ-5504 TCGA-EJ-5505 TCGA-EJ-5509 TCGA-EJ-5514 
        2.99        12.43         7.53        14.70        36.03        23.80 
TCGA-EJ-5517 TCGA-EJ-5518 TCGA-EJ-5519 TCGA-EJ-5531 TCGA-EJ-5532 TCGA-EJ-7115 
       27.91        39.29        37.91        23.80        29.92        26.99 
TCGA-EJ-7123 TCGA-EJ-7125 TCGA-EJ-7315 TCGA-EJ-7317 TCGA-EJ-7330 TCGA-EJ-7331 
       48.99        61.15         9.50         9.37         6.28         0.30 
TCGA-EJ-7782 TCGA-EJ-7786 TCGA-EJ-7789 TCGA-EJ-7794 TCGA-G9-6333 TCGA-G9-6338 
        2.10         2.60         2.30         9.34        63.29        54.21 
TCGA-G9-6343 TCGA-G9-6369 TCGA-G9-6371 TCGA-G9-6494 TCGA-G9-6496 TCGA-G9-6499 
       18.21        27.98        27.81        47.41        33.34        36.46 
TCGA-G9-7510 TCGA-G9-7519 TCGA-G9-7521 TCGA-G9-7523 TCGA-HC-7078 TCGA-HC-7080 
       22.16        15.02        15.98        10.65         5.33         2.01 
TCGA-HC-7211 TCGA-HC-7736 TCGA-HC-7737 TCGA-HI-7168 TCGA-HI-7170 
        0.99         0.99         2.07        65.92        62.43 

$subtype2
TCGA-CH-5738 TCGA-CH-5743 TCGA-CH-5746 TCGA-CH-5762 TCGA-CH-5763 TCGA-CH-5771 
        6.97        13.94        24.03        44.02        12.00        12.99 
TCGA-CH-5789 TCGA-EJ-5497 TCGA-EJ-5498 TCGA-EJ-5501 TCGA-EJ-5502 TCGA-EJ-5503 
        9.96        13.02        17.62        23.97         8.02        17.42 
TCGA-EJ-5506 TCGA-EJ-5510 TCGA-EJ-5512 TCGA-EJ-5515 TCGA-EJ-5516 TCGA-EJ-5527 
       11.70        24.23        25.71        34.88        25.74        13.05 
TCGA-EJ-7328 TCGA-EJ-7781 TCGA-EJ-7785 TCGA-EJ-7791 TCGA-EJ-7792 TCGA-EJ-7793 
        5.59         5.56         8.48         7.13        17.29         1.41 
TCGA-EJ-7797 TCGA-FC-7708 TCGA-G9-6329 TCGA-G9-6336 TCGA-G9-6348 TCGA-G9-6351 
        6.15         1.05        30.35        54.87        37.61        39.95 
TCGA-G9-6353 TCGA-G9-6356 TCGA-G9-6366 TCGA-G9-6367 TCGA-G9-6370 TCGA-G9-6378 
       27.85        32.88         3.32        28.77        26.50        21.83 
TCGA-G9-6384 TCGA-G9-6385 TCGA-G9-7522 TCGA-HC-7079 TCGA-HC-7740 TCGA-HC-7747 
       12.82        11.70        14.83         2.93         1.74         1.87 
TCGA-HC-7750 
        1.12 

$subtype3
TCGA-CH-5739 TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5744 TCGA-CH-5745 TCGA-CH-5750 
       22.06         1.02        12.99         1.97         2.99        12.99 
TCGA-CH-5752 TCGA-CH-5753 TCGA-CH-5754 TCGA-CH-5764 TCGA-CH-5765 TCGA-CH-5766 
       30.97         1.02         2.04         1.02        23.01         1.02 
TCGA-CH-5768 TCGA-CH-5769 TCGA-CH-5788 TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5794 
       24.03         2.04        26.96        32.02        33.01        28.96 
TCGA-EJ-5495 TCGA-EJ-5496 TCGA-EJ-5499 TCGA-EJ-5507 TCGA-EJ-5508 TCGA-EJ-5511 
       19.89        19.53        17.49         5.98        29.82        25.91 
TCGA-EJ-5521 TCGA-EJ-5522 TCGA-EJ-5524 TCGA-EJ-5525 TCGA-EJ-5526 TCGA-EJ-5530 
       27.68        46.13        27.42        25.97        18.64        41.82 
TCGA-EJ-5542 TCGA-EJ-7314 TCGA-EJ-7321 TCGA-EJ-7327 TCGA-EJ-7783 TCGA-EJ-7784 
       17.06         9.70         7.66         5.75         4.31         5.49 
TCGA-EJ-7788 TCGA-G9-6332 TCGA-G9-6342 TCGA-G9-6361 TCGA-G9-6362 TCGA-G9-6363 
        1.71        65.92        43.99        33.14        27.02        32.65 
TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6373 TCGA-G9-6377 TCGA-G9-7525 TCGA-H9-7775 
       27.65        26.43        16.60        17.03        16.83         1.02 
TCGA-HC-7077 TCGA-HC-7213 TCGA-HC-7230 TCGA-HC-7231 TCGA-HC-7744 TCGA-HC-7749 
       65.98         1.97         1.68         2.37         1.68         2.01 
TCGA-HI-7169 TCGA-HI-7171 TCGA-J4-8198 
       64.08        66.02         3.22 

subtype1 subtype2 subtype3 
    0.30     1.05     1.02 
subtype1 subtype2 subtype3 
   65.92    54.87    66.02 
subtype1 subtype2 subtype3 
   15.95    13.05    17.49 
[1] "0.3 - 65.9 (15.9)" "1.1 - 54.9 (13.1)" "1.0 - 66.0 (17.5)"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [19] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [43] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [85] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [91] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[115] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[127] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[133] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [19] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [43] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [85] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [91] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[115] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[127] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[133] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [19] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [43] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [85] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [91] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[115] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[127] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[133] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[145] "subtype1" "subtype3" "subtype3"
D2V2, continuous
D2V3, binary
          cls
clus        0  1
  subtype1  1 46
  subtype2  2 41
  subtype3  2 55
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   46
  subtype2    2   41
  subtype3    2   55
     clus
vv    subtype1 subtype2 subtype3
  NO         1        2        2
  YES       46       41       55

Clustering(3) Variable = MRNASEQ_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1 40  0
  subtype2 35  0
  subtype3 41  1
subtype1 subtype2 subtype3 
      40       35       42 
subtype1 subtype2 subtype3 
       0        0        1 
$subtype1
TCGA-CH-5737 TCGA-CH-5748 TCGA-CH-5750 TCGA-CH-5751 TCGA-CH-5767 TCGA-CH-5772 
        2.99         1.02        12.99        35.01        15.06        15.95 
TCGA-CH-5788 TCGA-EJ-5494 TCGA-EJ-5504 TCGA-EJ-5505 TCGA-EJ-5509 TCGA-EJ-5511 
       26.96        12.43         7.53        14.70        36.03        25.91 
TCGA-EJ-5514 TCGA-EJ-5515 TCGA-EJ-5517 TCGA-EJ-5518 TCGA-EJ-5519 TCGA-EJ-5532 
       23.80        34.88        27.91        39.29        37.91        29.92 
TCGA-EJ-7115 TCGA-EJ-7317 TCGA-EJ-7331 TCGA-EJ-7782 TCGA-EJ-7786 TCGA-EJ-7788 
       26.99         9.37         0.30         2.10         2.60         1.71 
TCGA-EJ-7789 TCGA-EJ-7791 TCGA-EJ-7792 TCGA-G9-6366 TCGA-G9-6371 TCGA-G9-6378 
        2.30         7.13        17.29         3.32        27.81        21.83 
TCGA-G9-6494 TCGA-G9-6496 TCGA-G9-7510 TCGA-G9-7519 TCGA-G9-7521 TCGA-G9-7523 
       47.41        33.34        22.16        15.02        15.98        10.65 
TCGA-HC-7078 TCGA-HC-7750 TCGA-HI-7168 TCGA-HI-7169 
        5.33         1.12        65.92        64.08 

$subtype2
TCGA-CH-5738 TCGA-CH-5746 TCGA-CH-5762 TCGA-CH-5763 TCGA-CH-5771 TCGA-CH-5789 
        6.97        24.03        44.02        12.00        12.99         9.96 
TCGA-CH-5792 TCGA-EJ-5497 TCGA-EJ-5498 TCGA-EJ-5499 TCGA-EJ-5501 TCGA-EJ-5508 
        2.99        13.02        17.62        17.49        23.97        29.82 
TCGA-EJ-5510 TCGA-EJ-5512 TCGA-EJ-5522 TCGA-EJ-5526 TCGA-EJ-5527 TCGA-EJ-5531 
       24.23        25.71        46.13        18.64        13.05        23.80 
TCGA-EJ-7328 TCGA-EJ-7330 TCGA-EJ-7781 TCGA-EJ-7783 TCGA-EJ-7785 TCGA-EJ-7793 
        5.59         6.28         5.56         4.31         8.48         1.41 
TCGA-EJ-7794 TCGA-EJ-7797 TCGA-FC-7708 TCGA-G9-6336 TCGA-G9-6348 TCGA-G9-6356 
        9.34         6.15         1.05        54.87        37.61        32.88 
TCGA-G9-6384 TCGA-G9-7522 TCGA-HC-7211 TCGA-HC-7736 TCGA-HC-7747 
       12.82        14.83         0.99         0.99         1.87 

$subtype3
TCGA-CH-5739 TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5744 TCGA-CH-5752 TCGA-CH-5753 
       22.06         1.02        12.99         1.97        30.97         1.02 
TCGA-CH-5754 TCGA-CH-5764 TCGA-CH-5765 TCGA-CH-5766 TCGA-CH-5768 TCGA-CH-5769 
        2.04         1.02        23.01         1.02        24.03         2.04 
TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5794 TCGA-EJ-5495 TCGA-EJ-5496 TCGA-EJ-5507 
       32.02        33.01        28.96        19.89        19.53         5.98 
TCGA-EJ-5516 TCGA-EJ-5521 TCGA-EJ-5524 TCGA-EJ-5525 TCGA-EJ-5530 TCGA-EJ-5542 
       25.74        27.68        27.42        25.97        41.82        17.06 
TCGA-EJ-7314 TCGA-EJ-7315 TCGA-EJ-7321 TCGA-EJ-7327 TCGA-EJ-7784 TCGA-G9-6332 
        9.70         9.50         7.66         5.75         5.49        65.92 
TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6373 TCGA-G9-7525 TCGA-H9-7775 TCGA-HC-7213 
       27.65        26.43        16.60        16.83         1.02         1.97 
TCGA-HC-7230 TCGA-HC-7231 TCGA-HC-7744 TCGA-HC-7749 TCGA-HI-7171 TCGA-J4-8198 
        1.68         2.37         1.68         2.01        66.02         3.22 

subtype1 subtype2 subtype3 
    0.30     0.99     1.02 
subtype1 subtype2 subtype3 
   65.92    54.87    66.02 
subtype1 subtype2 subtype3 
  15.965   12.990   14.795 
[1] "0.3 - 65.9 (16.0)" "1.0 - 54.9 (13.0)" "1.0 - 66.0 (14.8)"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [19] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
 [25] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
 [31] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [67] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [73] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [91] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[115] "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [19] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
 [25] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
 [31] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [67] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [73] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [91] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[115] "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [19] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
 [25] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
 [31] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [67] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
 [73] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [91] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[103] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
[115] "subtype1" "subtype3" "subtype3"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1  1 39
  subtype2  2 33
  subtype3  2 40
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   39
  subtype2    2   33
  subtype3    2   40
     clus
vv    subtype1 subtype2 subtype3
  NO         1        2        2
  YES       39       33       40

Clustering(4) Variable = MRNASEQ_CHIERARCHICAL
D4V1, survival
          sevent
clus2       0  1
  subtype1 34  0
  subtype2 35  1
  subtype3 47  0
subtype1 subtype2 subtype3 
      34       36       47 
subtype1 subtype2 subtype3 
       0        1        0 
$subtype1
TCGA-CH-5737 TCGA-CH-5748 TCGA-CH-5767 TCGA-CH-5772 TCGA-CH-5788 TCGA-EJ-5494 
        2.99         1.02        15.06        15.95        26.96        12.43 
TCGA-EJ-5504 TCGA-EJ-5505 TCGA-EJ-5511 TCGA-EJ-5514 TCGA-EJ-5517 TCGA-EJ-5518 
        7.53        14.70        25.91        23.80        27.91        39.29 
TCGA-EJ-5519 TCGA-EJ-5532 TCGA-EJ-7115 TCGA-EJ-7317 TCGA-EJ-7782 TCGA-EJ-7786 
       37.91        29.92        26.99         9.37         2.10         2.60 
TCGA-EJ-7788 TCGA-EJ-7789 TCGA-EJ-7792 TCGA-G9-6366 TCGA-G9-6371 TCGA-G9-6378 
        1.71         2.30        17.29         3.32        27.81        21.83 
TCGA-G9-6494 TCGA-G9-6496 TCGA-G9-7519 TCGA-G9-7521 TCGA-G9-7523 TCGA-HC-7078 
       47.41        33.34        15.02        15.98        10.65         5.33 
TCGA-HC-7749 TCGA-HC-7750 TCGA-HI-7168 TCGA-HI-7169 
        2.01         1.12        65.92        64.08 

$subtype2
TCGA-CH-5739 TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5744 TCGA-CH-5750 TCGA-CH-5751 
       22.06         1.02        12.99         1.97        12.99        35.01 
TCGA-CH-5752 TCGA-CH-5753 TCGA-CH-5754 TCGA-CH-5764 TCGA-CH-5765 TCGA-CH-5766 
       30.97         1.02         2.04         1.02        23.01         1.02 
TCGA-CH-5768 TCGA-CH-5769 TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5794 TCGA-EJ-5507 
       24.03         2.04        32.02        33.01        28.96         5.98 
TCGA-EJ-5521 TCGA-EJ-5525 TCGA-EJ-5530 TCGA-EJ-7315 TCGA-EJ-7321 TCGA-EJ-7784 
       27.68        25.97        41.82         9.50         7.66         5.49 
TCGA-G9-6332 TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6373 TCGA-G9-7525 TCGA-H9-7775 
       65.92        27.65        26.43        16.60        16.83         1.02 
TCGA-HC-7213 TCGA-HC-7230 TCGA-HC-7231 TCGA-HC-7744 TCGA-HI-7171 TCGA-J4-8198 
        1.97         1.68         2.37         1.68        66.02         3.22 

$subtype3
TCGA-CH-5738 TCGA-CH-5746 TCGA-CH-5762 TCGA-CH-5763 TCGA-CH-5771 TCGA-CH-5789 
        6.97        24.03        44.02        12.00        12.99         9.96 
TCGA-CH-5792 TCGA-EJ-5495 TCGA-EJ-5496 TCGA-EJ-5497 TCGA-EJ-5498 TCGA-EJ-5499 
        2.99        19.89        19.53        13.02        17.62        17.49 
TCGA-EJ-5501 TCGA-EJ-5508 TCGA-EJ-5509 TCGA-EJ-5510 TCGA-EJ-5512 TCGA-EJ-5515 
       23.97        29.82        36.03        24.23        25.71        34.88 
TCGA-EJ-5516 TCGA-EJ-5522 TCGA-EJ-5524 TCGA-EJ-5526 TCGA-EJ-5527 TCGA-EJ-5531 
       25.74        46.13        27.42        18.64        13.05        23.80 
TCGA-EJ-5542 TCGA-EJ-7314 TCGA-EJ-7327 TCGA-EJ-7328 TCGA-EJ-7330 TCGA-EJ-7331 
       17.06         9.70         5.75         5.59         6.28         0.30 
TCGA-EJ-7781 TCGA-EJ-7783 TCGA-EJ-7785 TCGA-EJ-7791 TCGA-EJ-7793 TCGA-EJ-7794 
        5.56         4.31         8.48         7.13         1.41         9.34 
TCGA-EJ-7797 TCGA-FC-7708 TCGA-G9-6336 TCGA-G9-6348 TCGA-G9-6356 TCGA-G9-6384 
        6.15         1.05        54.87        37.61        32.88        12.82 
TCGA-G9-7510 TCGA-G9-7522 TCGA-HC-7211 TCGA-HC-7736 TCGA-HC-7747 
       22.16        14.83         0.99         0.99         1.87 

subtype1 subtype2 subtype3 
    1.02     1.02     0.30 
subtype1 subtype2 subtype3 
   65.92    66.02    54.87 
subtype1 subtype2 subtype3 
  15.505   12.990   13.050 
[1] "1.0 - 65.9 (15.5)" "1.0 - 66.0 (13.0)" "0.3 - 54.9 (13.1)"
  [1] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
  [7] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [25] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [31] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [49] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [61] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [73] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [79] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [85] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [91] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [97] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype2" "subtype2"
  [1] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
  [7] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [25] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [31] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [49] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [61] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [73] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [79] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [85] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [91] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [97] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype2" "subtype2"
  [1] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
  [7] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [25] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [31] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [49] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [61] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [73] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [79] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [85] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype1"
 [91] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [97] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype2" "subtype2"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1  1 33
  subtype2  2 34
  subtype3  2 45
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   33
  subtype2    2   34
  subtype3    2   45
     clus
vv    subtype1 subtype2 subtype3
  NO         1        2        2
  YES       33       34       45

Clustering(5) Variable = MIRSEQ_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 41  0
  subtype2 40  0
  subtype3 26  0
  subtype4 37  1
subtype1 subtype2 subtype3 subtype4 
      41       40       26       38 
subtype1 subtype2 subtype3 subtype4 
       0        0        0        1 
$subtype1
TCGA-CH-5737 TCGA-CH-5739 TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5744 TCGA-CH-5745 
        2.99        22.06         1.02        12.99         1.97         2.99 
TCGA-CH-5748 TCGA-CH-5752 TCGA-CH-5753 TCGA-CH-5754 TCGA-CH-5761 TCGA-CH-5764 
        1.02        30.97         1.02         2.04         0.92         1.02 
TCGA-CH-5765 TCGA-CH-5766 TCGA-CH-5767 TCGA-CH-5768 TCGA-CH-5769 TCGA-CH-5788 
       23.01         1.02        15.06        24.03         2.04        26.96 
TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5794 TCGA-EJ-5501 TCGA-EJ-5504 TCGA-EJ-5505 
       32.02        33.01        28.96        23.97         7.53        14.70 
TCGA-EJ-5507 TCGA-EJ-5511 TCGA-EJ-5518 TCGA-EJ-5519 TCGA-EJ-5525 TCGA-EJ-7321 
        5.98        25.91        39.29        37.91        25.97         7.66 
TCGA-EJ-7789 TCGA-G9-6332 TCGA-G9-6348 TCGA-G9-6362 TCGA-G9-6364 TCGA-G9-6369 
        2.30        65.92        37.61        27.02        27.65        27.98 
TCGA-G9-6371 TCGA-G9-6373 TCGA-G9-6496 TCGA-HC-7077 TCGA-HC-7080 
       27.81        16.60        33.34        65.98         2.01 

$subtype2
TCGA-CH-5738 TCGA-CH-5743 TCGA-CH-5746 TCGA-CH-5750 TCGA-CH-5762 TCGA-CH-5763 
        6.97        13.94        24.03        12.99        44.02        12.00 
TCGA-CH-5771 TCGA-CH-5789 TCGA-CH-5792 TCGA-EJ-5495 TCGA-EJ-5496 TCGA-EJ-5497 
       12.99         9.96         2.99        19.89        19.53        13.02 
TCGA-EJ-5498 TCGA-EJ-5499 TCGA-EJ-5503 TCGA-EJ-5506 TCGA-EJ-5508 TCGA-EJ-5509 
       17.62        17.49        17.42        11.70        29.82        36.03 
TCGA-EJ-5510 TCGA-EJ-5512 TCGA-EJ-5515 TCGA-EJ-5516 TCGA-EJ-5521 TCGA-EJ-5522 
       24.23        25.71        34.88        25.74        27.68        46.13 
TCGA-EJ-5524 TCGA-EJ-5526 TCGA-EJ-5527 TCGA-EJ-5531 TCGA-EJ-5542 TCGA-EJ-7797 
       27.42        18.64        13.05        23.80        17.06         6.15 
TCGA-G9-6329 TCGA-G9-6336 TCGA-G9-6353 TCGA-G9-6356 TCGA-G9-6367 TCGA-G9-6370 
       30.35        54.87        27.85        32.88        28.77        26.50 
TCGA-G9-6384 TCGA-G9-7510 TCGA-G9-7522 TCGA-J4-8198 
       12.82        22.16        14.83         3.22 

$subtype3
TCGA-CH-5772 TCGA-EJ-5502 TCGA-EJ-5514 TCGA-EJ-5517 TCGA-EJ-5530 TCGA-EJ-5532 
       15.95         8.02        23.80        27.91        41.82        29.92 
TCGA-EJ-7330 TCGA-EJ-7331 TCGA-EJ-7786 TCGA-EJ-7788 TCGA-EJ-7791 TCGA-EJ-7792 
        6.28         0.30         2.60         1.71         7.13        17.29 
TCGA-G9-6342 TCGA-G9-6363 TCGA-G9-6365 TCGA-G9-6378 TCGA-G9-6385 TCGA-G9-6494 
       43.99        32.65        26.43        21.83        11.70        47.41 
TCGA-G9-7519 TCGA-G9-7521 TCGA-G9-7523 TCGA-H9-7775 TCGA-HC-7740 TCGA-HC-7750 
       15.02        15.98        10.65         1.02         1.74         1.12 
TCGA-HI-7169 TCGA-HI-7170 
       64.08        62.43 

$subtype4
TCGA-EJ-7115 TCGA-EJ-7123 TCGA-EJ-7125 TCGA-EJ-7314 TCGA-EJ-7315 TCGA-EJ-7317 
       26.99        48.99        61.15         9.70         9.50         9.37 
TCGA-EJ-7327 TCGA-EJ-7328 TCGA-EJ-7781 TCGA-EJ-7782 TCGA-EJ-7783 TCGA-EJ-7784 
        5.75         5.59         5.56         2.10         4.31         5.49 
TCGA-EJ-7785 TCGA-EJ-7793 TCGA-EJ-7794 TCGA-FC-7708 TCGA-G9-6333 TCGA-G9-6338 
        8.48         1.41         9.34         1.05        63.29        54.21 
TCGA-G9-6343 TCGA-G9-6351 TCGA-G9-6361 TCGA-G9-6366 TCGA-G9-6377 TCGA-G9-6499 
       18.21        39.95        33.14         3.32        17.03        36.46 
TCGA-G9-7525 TCGA-HC-7078 TCGA-HC-7079 TCGA-HC-7211 TCGA-HC-7213 TCGA-HC-7230 
       16.83         5.33         2.93         0.99         1.97         1.68 
TCGA-HC-7231 TCGA-HC-7736 TCGA-HC-7737 TCGA-HC-7744 TCGA-HC-7747 TCGA-HC-7749 
        2.37         0.99         2.07         1.68         1.87         2.01 
TCGA-HI-7168 TCGA-HI-7171 
       65.92        66.02 

subtype1 subtype2 subtype3 subtype4 
    0.92     2.99     0.30     0.99 
subtype1 subtype2 subtype3 subtype4 
   65.98    54.87    64.08    66.02 
subtype1 subtype2 subtype3 subtype4 
  22.060   19.710   15.965    5.670 
[1] "0.9 - 66.0 (22.1)" "3.0 - 54.9 (19.7)" "0.3 - 64.1 (16.0)"
[4] "1.0 - 66.0 (5.7)" 
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [25] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [61] "subtype3" "subtype2" "subtype3" "subtype2" "subtype4" "subtype4"
 [67] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
 [73] "subtype4" "subtype3" "subtype3" "subtype4" "subtype4" "subtype4"
 [79] "subtype4" "subtype4" "subtype3" "subtype3" "subtype1" "subtype3"
 [85] "subtype3" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
 [91] "subtype1" "subtype4" "subtype2" "subtype4" "subtype3" "subtype4"
 [97] "subtype1" "subtype4" "subtype2" "subtype2" "subtype4" "subtype1"
[103] "subtype3" "subtype1" "subtype3" "subtype4" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype1" "subtype4" "subtype3" "subtype2"
[115] "subtype3" "subtype3" "subtype1" "subtype4" "subtype2" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype4" "subtype3" "subtype1"
[127] "subtype4" "subtype4" "subtype1" "subtype4" "subtype4" "subtype4"
[133] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
[139] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype4"
[145] "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [25] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [61] "subtype3" "subtype2" "subtype3" "subtype2" "subtype4" "subtype4"
 [67] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
 [73] "subtype4" "subtype3" "subtype3" "subtype4" "subtype4" "subtype4"
 [79] "subtype4" "subtype4" "subtype3" "subtype3" "subtype1" "subtype3"
 [85] "subtype3" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
 [91] "subtype1" "subtype4" "subtype2" "subtype4" "subtype3" "subtype4"
 [97] "subtype1" "subtype4" "subtype2" "subtype2" "subtype4" "subtype1"
[103] "subtype3" "subtype1" "subtype3" "subtype4" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype1" "subtype4" "subtype3" "subtype2"
[115] "subtype3" "subtype3" "subtype1" "subtype4" "subtype2" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype4" "subtype3" "subtype1"
[127] "subtype4" "subtype4" "subtype1" "subtype4" "subtype4" "subtype4"
[133] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
[139] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype4"
[145] "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [25] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [61] "subtype3" "subtype2" "subtype3" "subtype2" "subtype4" "subtype4"
 [67] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
 [73] "subtype4" "subtype3" "subtype3" "subtype4" "subtype4" "subtype4"
 [79] "subtype4" "subtype4" "subtype3" "subtype3" "subtype1" "subtype3"
 [85] "subtype3" "subtype4" "subtype4" "subtype2" "subtype4" "subtype2"
 [91] "subtype1" "subtype4" "subtype2" "subtype4" "subtype3" "subtype4"
 [97] "subtype1" "subtype4" "subtype2" "subtype2" "subtype4" "subtype1"
[103] "subtype3" "subtype1" "subtype3" "subtype4" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype1" "subtype4" "subtype3" "subtype2"
[115] "subtype3" "subtype3" "subtype1" "subtype4" "subtype2" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype4" "subtype3" "subtype1"
[127] "subtype4" "subtype4" "subtype1" "subtype4" "subtype4" "subtype4"
[133] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype4"
[139] "subtype4" "subtype3" "subtype4" "subtype3" "subtype3" "subtype4"
[145] "subtype2"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1  2 39
  subtype2  2 38
  subtype3  1 25
  subtype4  0 38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   39
  subtype2    2   38
  subtype3    1   25
  subtype4    0   38
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         2        2        1        0
  YES       39       38       25       38

Clustering(6) Variable = MIRSEQ_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 25  0
  subtype2 68  0
  subtype3 51  1
subtype1 subtype2 subtype3 
      25       68       52 
subtype1 subtype2 subtype3 
       0        0        1 
$subtype1
TCGA-CH-5772 TCGA-EJ-5502 TCGA-EJ-5511 TCGA-EJ-5514 TCGA-EJ-5517 TCGA-EJ-5518 
       15.95         8.02        25.91        23.80        27.91        39.29 
TCGA-EJ-5530 TCGA-EJ-5532 TCGA-EJ-7331 TCGA-EJ-7786 TCGA-EJ-7788 TCGA-EJ-7791 
       41.82        29.92         0.30         2.60         1.71         7.13 
TCGA-EJ-7792 TCGA-G9-6338 TCGA-G9-6343 TCGA-G9-6363 TCGA-G9-6365 TCGA-G9-6378 
       17.29        54.21        18.21        32.65        26.43        21.83 
TCGA-G9-6385 TCGA-G9-6494 TCGA-G9-7519 TCGA-G9-7521 TCGA-G9-7523 TCGA-HC-7750 
       11.70        47.41        15.02        15.98        10.65         1.12 
TCGA-HI-7169 
       64.08 

$subtype2
TCGA-CH-5737 TCGA-CH-5738 TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5743 TCGA-CH-5744 
        2.99         6.97         1.02        12.99        13.94         1.97 
TCGA-CH-5745 TCGA-CH-5746 TCGA-CH-5750 TCGA-CH-5752 TCGA-CH-5753 TCGA-CH-5754 
        2.99        24.03        12.99        30.97         1.02         2.04 
TCGA-CH-5761 TCGA-CH-5762 TCGA-CH-5763 TCGA-CH-5764 TCGA-CH-5765 TCGA-CH-5766 
        0.92        44.02        12.00         1.02        23.01         1.02 
TCGA-CH-5767 TCGA-CH-5768 TCGA-CH-5769 TCGA-CH-5771 TCGA-CH-5788 TCGA-CH-5789 
       15.06        24.03         2.04        12.99        26.96         9.96 
TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5792 TCGA-CH-5794 TCGA-EJ-5495 TCGA-EJ-5496 
       32.02        33.01         2.99        28.96        19.89        19.53 
TCGA-EJ-5497 TCGA-EJ-5498 TCGA-EJ-5499 TCGA-EJ-5501 TCGA-EJ-5503 TCGA-EJ-5505 
       13.02        17.62        17.49        23.97        17.42        14.70 
TCGA-EJ-5506 TCGA-EJ-5507 TCGA-EJ-5508 TCGA-EJ-5509 TCGA-EJ-5510 TCGA-EJ-5512 
       11.70         5.98        29.82        36.03        24.23        25.71 
TCGA-EJ-5515 TCGA-EJ-5516 TCGA-EJ-5519 TCGA-EJ-5521 TCGA-EJ-5522 TCGA-EJ-5524 
       34.88        25.74        37.91        27.68        46.13        27.42 
TCGA-EJ-5525 TCGA-EJ-5526 TCGA-EJ-5527 TCGA-EJ-5531 TCGA-EJ-5542 TCGA-G9-6329 
       25.97        18.64        13.05        23.80        17.06        30.35 
TCGA-G9-6332 TCGA-G9-6336 TCGA-G9-6348 TCGA-G9-6356 TCGA-G9-6362 TCGA-G9-6364 
       65.92        54.87        37.61        32.88        27.02        27.65 
TCGA-G9-6367 TCGA-G9-6369 TCGA-G9-6370 TCGA-G9-6371 TCGA-G9-6373 TCGA-G9-6384 
       28.77        27.98        26.50        27.81        16.60        12.82 
TCGA-G9-6496 TCGA-G9-7510 
       33.34        22.16 

$subtype3
TCGA-CH-5739 TCGA-CH-5748 TCGA-EJ-5504 TCGA-EJ-7115 TCGA-EJ-7123 TCGA-EJ-7125 
       22.06         1.02         7.53        26.99        48.99        61.15 
TCGA-EJ-7314 TCGA-EJ-7315 TCGA-EJ-7317 TCGA-EJ-7321 TCGA-EJ-7327 TCGA-EJ-7328 
        9.70         9.50         9.37         7.66         5.75         5.59 
TCGA-EJ-7330 TCGA-EJ-7781 TCGA-EJ-7782 TCGA-EJ-7783 TCGA-EJ-7784 TCGA-EJ-7785 
        6.28         5.56         2.10         4.31         5.49         8.48 
TCGA-EJ-7789 TCGA-EJ-7793 TCGA-EJ-7794 TCGA-EJ-7797 TCGA-FC-7708 TCGA-G9-6333 
        2.30         1.41         9.34         6.15         1.05        63.29 
TCGA-G9-6342 TCGA-G9-6351 TCGA-G9-6353 TCGA-G9-6361 TCGA-G9-6366 TCGA-G9-6377 
       43.99        39.95        27.85        33.14         3.32        17.03 
TCGA-G9-6499 TCGA-G9-7522 TCGA-G9-7525 TCGA-H9-7775 TCGA-HC-7077 TCGA-HC-7078 
       36.46        14.83        16.83         1.02        65.98         5.33 
TCGA-HC-7079 TCGA-HC-7080 TCGA-HC-7211 TCGA-HC-7213 TCGA-HC-7230 TCGA-HC-7231 
        2.93         2.01         0.99         1.97         1.68         2.37 
TCGA-HC-7736 TCGA-HC-7737 TCGA-HC-7740 TCGA-HC-7744 TCGA-HC-7747 TCGA-HC-7749 
        0.99         2.07         1.74         1.68         1.87         2.01 
TCGA-HI-7168 TCGA-HI-7170 TCGA-HI-7171 TCGA-J4-8198 
       65.92        62.43        66.02         3.22 

subtype1 subtype2 subtype3 
    0.30     0.92     0.99 
subtype1 subtype2 subtype3 
   64.08    65.92    66.02 
subtype1 subtype2 subtype3 
  18.210   22.585    5.950 
[1] "0.3 - 64.1 (18.2)" "0.9 - 65.9 (22.6)" "1.0 - 66.0 (6.0)" 
  [1] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [67] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [85] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [97] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[121] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[145] "subtype3"
  [1] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [67] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [85] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [97] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[121] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[145] "subtype3"
  [1] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [67] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [85] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [97] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[103] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[121] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[145] "subtype3"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1  1 24
  subtype2  4 64
  subtype3  0 52
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   24
  subtype2    4   64
  subtype3    0   52
     clus
vv    subtype1 subtype2 subtype3
  NO         1        4        0
  YES       24       64       52
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
> q(save="no")
