
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.59.3844/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.59.3844/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/PRAD/1712869/1.GDAC_mergedClustering.Finished/PRAD.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/PRAD/1669681/1.GDAC_clinicalDataPicker.Finished/PRAD.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=127, in cluster file=153, common to both=124
[1]   5 124
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
36 41 47 
 1  2  3 
36 41 47 
[1] "MRNASEQ_CNMF"
[1] 3
1 2 3 4 5 6 7 8 9 
7 3 7 7 8 5 4 8 4 
1 2 3 4 5 6 7 8 9 
7 3 7 7 8 5 4 8 4 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3  4 
11 10  6 26 
 1  2  3  4 
11 10  6 26 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3  4 
18 28 19 16 
 1  2  3  4 
18 28 19 16 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
15 32 34 
 1  2  3 
15 32 34 
[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] "NEOADJUVANTTHERAPY"                    
[13] "BATCHNUMBER"                           

Input Data has 13 rows and 124 columns.

[1] "Batch" "13"   
[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-7327 TCGA-EJ-7328 TCGA-EJ-7330 TCGA-EJ-7331 TCGA-EJ-7781 TCGA-EJ-7782 
         175          170          191            9          169           64 
TCGA-EJ-7783 TCGA-EJ-7784 TCGA-EJ-7785 TCGA-EJ-7786 TCGA-EJ-7788 TCGA-EJ-7789 
         131          167          258           79           52           70 
TCGA-EJ-7791 TCGA-EJ-7792 TCGA-EJ-7794 TCGA-FC-7708 TCGA-G9-6329 TCGA-G9-6332 
         217          526          284           32          923         2328 
TCGA-G9-6333 TCGA-G9-6336 TCGA-G9-6338 TCGA-G9-6342 TCGA-G9-6343 TCGA-G9-6348 
        1925         1669         1649         1338          554         1144 
TCGA-G9-6351 TCGA-G9-6353 TCGA-G9-6356 TCGA-G9-6361 TCGA-G9-6362 TCGA-G9-6363 
        1215          847         1000         1008          822          993 
TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6366 TCGA-G9-6367 TCGA-G9-6369 TCGA-G9-6370 
         841          804          101          875          851          806 
TCGA-G9-6371 TCGA-G9-6373 TCGA-G9-6377 TCGA-G9-6378 TCGA-G9-6384 TCGA-G9-6385 
         846          505          518          664          390          356 
TCGA-G9-6494 TCGA-G9-6496 TCGA-G9-6499 TCGA-H9-7775 TCGA-HC-7230 TCGA-HC-7231 
        1442         1014         1109           31           51           72 
TCGA-HI-7168 TCGA-HI-7169 TCGA-HI-7170 TCGA-HI-7171 
        2315         1949         1899           NA 
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=110,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=TRUE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=2,	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:'NEOADJUVANT.THERAPY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'BATCH.NUMBER':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                                   
[2] "RADIATIONS.RADIATION.REGIMENINDICATION"
[3] "NEOADJUVANT.THERAPY"                   
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 124 columns, 1 survival variables, and 3 non-survival variables.
AGE, nv=28, binary=FALSE, numeric=TRUE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
NEOADJUVANT.THERAPY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = METHLYATION_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 36  0
  subtype2 41  0
  subtype3 46  1
subtype1 subtype2 subtype3 
      36       41       47 
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-5518 TCGA-EJ-5519 TCGA-EJ-5531 TCGA-EJ-5532 TCGA-EJ-7115 TCGA-EJ-7123 
       39.29        37.91        23.80        29.92        26.99        48.99 
TCGA-EJ-7125 TCGA-EJ-7315 TCGA-EJ-7317 TCGA-EJ-7330 TCGA-EJ-7331 TCGA-EJ-7782 
       61.15         9.50         9.37         6.28         0.30         2.10 
TCGA-EJ-7786 TCGA-EJ-7789 TCGA-EJ-7794 TCGA-G9-6333 TCGA-G9-6338 TCGA-G9-6343 
        2.60         2.30         9.34        63.29        54.21        18.21 
TCGA-G9-6369 TCGA-G9-6371 TCGA-G9-6494 TCGA-G9-6496 TCGA-G9-6499 TCGA-HI-7168 
       27.98        27.81        47.41        33.34        36.46        65.92 

$subtype2
TCGA-CH-5738 TCGA-CH-5743 TCGA-CH-5746 TCGA-CH-5762 TCGA-CH-5763 TCGA-CH-5766 
        6.97        13.94        24.03        44.02        12.00         1.02 
TCGA-CH-5771 TCGA-CH-5789 TCGA-EJ-5497 TCGA-EJ-5498 TCGA-EJ-5501 TCGA-EJ-5502 
       12.99         9.96        13.02        17.62        23.97         8.02 
TCGA-EJ-5503 TCGA-EJ-5506 TCGA-EJ-5508 TCGA-EJ-5510 TCGA-EJ-5512 TCGA-EJ-5515 
       17.42        11.70        29.82        24.23        25.71        34.88 
TCGA-EJ-5516 TCGA-EJ-5517 TCGA-EJ-5522 TCGA-EJ-5527 TCGA-EJ-7328 TCGA-EJ-7781 
       25.74        27.91        46.13        13.05         5.59         5.56 
TCGA-EJ-7785 TCGA-EJ-7791 TCGA-EJ-7792 TCGA-FC-7708 TCGA-G9-6329 TCGA-G9-6336 
        8.48         7.13        17.29         1.05        30.35        54.87 
TCGA-G9-6348 TCGA-G9-6351 TCGA-G9-6353 TCGA-G9-6356 TCGA-G9-6366 TCGA-G9-6367 
       37.61        39.95        27.85        32.88         3.32        28.77 
TCGA-G9-6370 TCGA-G9-6378 TCGA-G9-6384 TCGA-G9-6385 TCGA-HI-7170 
       26.50        21.83        12.82        11.70        62.43 

$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-5768 
       30.97         1.02         2.04         1.02        23.01        24.03 
TCGA-CH-5769 TCGA-CH-5788 TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5794 TCGA-EJ-5495 
        2.04        26.96        32.02        33.01        28.96        19.89 
TCGA-EJ-5496 TCGA-EJ-5499 TCGA-EJ-5507 TCGA-EJ-5511 TCGA-EJ-5521 TCGA-EJ-5524 
       19.53        17.49         5.98        25.91        27.68        27.42 
TCGA-EJ-5525 TCGA-EJ-5526 TCGA-EJ-5530 TCGA-EJ-5542 TCGA-EJ-7314 TCGA-EJ-7327 
       25.97        18.64        41.82        17.06         9.70         5.75 
TCGA-EJ-7783 TCGA-EJ-7784 TCGA-EJ-7788 TCGA-G9-6332 TCGA-G9-6342 TCGA-G9-6361 
        4.31         5.49         1.71        65.92        43.99        33.14 
TCGA-G9-6362 TCGA-G9-6363 TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6373 TCGA-G9-6377 
       27.02        32.65        27.65        26.43        16.60        17.03 
TCGA-H9-7775 TCGA-HC-7230 TCGA-HC-7231 TCGA-HI-7169 TCGA-HI-7171 
        1.02         1.68         2.37        64.08        66.02 

subtype1 subtype2 subtype3 
    0.30     1.02     1.02 
subtype1 subtype2 subtype3 
   65.92    62.43    66.02 
subtype1 subtype2 subtype3 
  21.005   17.620   19.530 
[1] "0.3 - 65.9 (21.0)" "1.0 - 62.4 (17.6)" "1.0 - 66.0 (19.5)"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [19] "subtype3" "subtype3" "subtype2" "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" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [55] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [73] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [85] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [91] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[121] "subtype1" "subtype3" "subtype2" "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" "subtype2" "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" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [55] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [73] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [85] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [91] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[121] "subtype1" "subtype3" "subtype2" "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" "subtype2" "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" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [55] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [73] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [85] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [91] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[121] "subtype1" "subtype3" "subtype2" "subtype3"
D1V2, continuous
D1V3, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   35
  subtype2    2   39
  subtype3    2   45
     clus
vv    subtype1 subtype2 subtype3
  NO         1        2        2
  YES       35       39       45
D1V4, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   35
  subtype2    0   41
  subtype3    3   44
     clus
vv    subtype1 subtype2 subtype3
  NO         1        0        3
  YES       35       41       44

Clustering(2) Variable = MRNASEQ_CNMF
D2V1, survival
          sevent
clus2      0
  subtype1 7
  subtype2 3
  subtype3 7
  subtype4 7
  subtype5 8
  subtype6 5
  subtype7 4
  subtype8 8
  subtype9 4
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
       7        3        7        7        8        5        4        8 
subtype9 
       4 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
       0        0        0        0        0        0        0        0 
subtype9 
       0 
$subtype1
TCGA-CH-5737 TCGA-CH-5767 TCGA-CH-5772 TCGA-EJ-5504 TCGA-G9-6371 TCGA-G9-6494 
        2.99        15.06        15.95         7.53        27.81        47.41 
TCGA-G9-6496 
       33.34 

$subtype2
TCGA-CH-5738 TCGA-CH-5753 TCGA-CH-5762 
        6.97         1.02        44.02 

$subtype3
TCGA-CH-5739 TCGA-CH-5750 TCGA-CH-5751 TCGA-CH-5768 TCGA-CH-5769 TCGA-CH-5788 
       22.06        12.99        35.01        24.03         2.04        26.96 
TCGA-EJ-5525 
       25.97 

$subtype4
TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5764 TCGA-CH-5765 TCGA-CH-5790 TCGA-EJ-5496 
        1.02        12.99         1.02        23.01        32.02        19.53 
TCGA-G9-6332 
       65.92 

$subtype5
TCGA-CH-5746 TCGA-CH-5748 TCGA-CH-5789 TCGA-EJ-5497 TCGA-EJ-5505 TCGA-EJ-5512 
       24.03         1.02         9.96        13.02        14.70        25.71 
TCGA-EJ-5515 TCGA-G9-6384 
       34.88        12.82 

$subtype6
TCGA-CH-5763 TCGA-EJ-5517 TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6378 
       12.00        27.91        27.65        26.43        21.83 

$subtype7
TCGA-CH-5766 TCGA-CH-5791 TCGA-EJ-5507 TCGA-G9-6373 
        1.02        33.01         5.98        16.60 

$subtype8
TCGA-EJ-5498 TCGA-EJ-5508 TCGA-EJ-5516 TCGA-EJ-5522 TCGA-EJ-5524 TCGA-EJ-5526 
       17.62        29.82        25.74        46.13        27.42        18.64 
TCGA-EJ-5527 TCGA-EJ-5542 
       13.05        17.06 

$subtype9
TCGA-EJ-5499 TCGA-G9-6336 TCGA-G9-6348 TCGA-G9-6356 
       17.49        54.87        37.61        32.88 

subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
    2.99     1.02     2.04     1.02     1.02    12.00     1.02    13.05 
subtype9 
   17.49 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
   47.41    44.02    35.01    65.92    34.88    27.91    33.01    46.13 
subtype9 
   54.87 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
  15.950    6.970   24.030   19.530   13.860   26.430   11.290   22.190 
subtype9 
  35.245 
[1] "3.0 - 47.4 (15.9)"  "1.0 - 44.0 (7.0)"   "2.0 - 35.0 (24.0)" 
[4] "1.0 - 65.9 (19.5)"  "1.0 - 34.9 (13.9)"  "12.0 - 27.9 (26.4)"
[7] "1.0 - 33.0 (11.3)"  "13.1 - 46.1 (22.2)" "17.5 - 54.9 (35.2)"
 [1] "subtype1" "subtype2" "subtype3" "subtype4" "subtype4" "subtype5"
 [7] "subtype5" "subtype3" "subtype3" "subtype2" "subtype2" "subtype6"
[13] "subtype4" "subtype4" "subtype7" "subtype1" "subtype3" "subtype3"
[19] "subtype1" "subtype3" "subtype5" "subtype4" "subtype7" "subtype4"
[25] "subtype5" "subtype8" "subtype9" "subtype1" "subtype5" "subtype7"
[31] "subtype8" "subtype5" "subtype5" "subtype8" "subtype6" "subtype8"
[37] "subtype8" "subtype3" "subtype8" "subtype8" "subtype8" "subtype4"
[43] "subtype9" "subtype9" "subtype9" "subtype6" "subtype6" "subtype1"
[49] "subtype7" "subtype6" "subtype5" "subtype1" "subtype1"
 [1] "subtype1" "subtype2" "subtype3" "subtype4" "subtype4" "subtype5"
 [7] "subtype5" "subtype3" "subtype3" "subtype2" "subtype2" "subtype6"
[13] "subtype4" "subtype4" "subtype7" "subtype1" "subtype3" "subtype3"
[19] "subtype1" "subtype3" "subtype5" "subtype4" "subtype7" "subtype4"
[25] "subtype5" "subtype8" "subtype9" "subtype1" "subtype5" "subtype7"
[31] "subtype8" "subtype5" "subtype5" "subtype8" "subtype6" "subtype8"
[37] "subtype8" "subtype3" "subtype8" "subtype8" "subtype8" "subtype4"
[43] "subtype9" "subtype9" "subtype9" "subtype6" "subtype6" "subtype1"
[49] "subtype7" "subtype6" "subtype5" "subtype1" "subtype1"
 [1] "subtype1" "subtype2" "subtype3" "subtype4" "subtype4" "subtype5"
 [7] "subtype5" "subtype3" "subtype3" "subtype2" "subtype2" "subtype6"
[13] "subtype4" "subtype4" "subtype7" "subtype1" "subtype3" "subtype3"
[19] "subtype1" "subtype3" "subtype5" "subtype4" "subtype7" "subtype4"
[25] "subtype5" "subtype8" "subtype9" "subtype1" "subtype5" "subtype7"
[31] "subtype8" "subtype5" "subtype5" "subtype8" "subtype6" "subtype8"
[37] "subtype8" "subtype3" "subtype8" "subtype8" "subtype8" "subtype4"
[43] "subtype9" "subtype9" "subtype9" "subtype6" "subtype6" "subtype1"
[49] "subtype7" "subtype6" "subtype5" "subtype1" "subtype1"
D2V2, continuous
D2V3, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1    6
  subtype2    1    2
  subtype3    0    7
  subtype4    1    6
  subtype5    1    7
  subtype6    0    5
  subtype7    0    4
  subtype8    0    8
  subtype9    0    4
D2V4, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0    7
  subtype2    0    3
  subtype3    2    5
  subtype4    1    6
  subtype5    0    8
  subtype6    0    5
  subtype7    0    4
  subtype8    0    8
  subtype9    0    4

Clustering(3) Variable = MRNASEQ_CHIERARCHICAL
D3V1, survival
          sevent
clus2       0
  subtype1 11
  subtype2 10
  subtype3  6
  subtype4 26
subtype1 subtype2 subtype3 subtype4 
      11       10        6       26 
subtype1 subtype2 subtype3 subtype4 
       0        0        0        0 
$subtype1
TCGA-CH-5737 TCGA-CH-5748 TCGA-CH-5767 TCGA-CH-5772 TCGA-EJ-5504 TCGA-EJ-5505 
        2.99         1.02        15.06        15.95         7.53        14.70 
TCGA-EJ-5517 TCGA-G9-6371 TCGA-G9-6378 TCGA-G9-6494 TCGA-G9-6496 
       27.91        27.81        21.83        47.41        33.34 

$subtype2
TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5766 TCGA-CH-5769 TCGA-CH-5790 TCGA-CH-5791 
        1.02        12.99         1.02         2.04        32.02        33.01 
TCGA-EJ-5507 TCGA-G9-6332 TCGA-G9-6364 TCGA-G9-6373 
        5.98        65.92        27.65        16.60 

$subtype3
TCGA-CH-5739 TCGA-CH-5750 TCGA-CH-5751 TCGA-CH-5753 TCGA-CH-5788 TCGA-EJ-5525 
       22.06        12.99        35.01         1.02        26.96        25.97 

$subtype4
TCGA-CH-5738 TCGA-CH-5746 TCGA-CH-5762 TCGA-CH-5763 TCGA-CH-5764 TCGA-CH-5765 
        6.97        24.03        44.02        12.00         1.02        23.01 
TCGA-CH-5768 TCGA-CH-5789 TCGA-EJ-5496 TCGA-EJ-5497 TCGA-EJ-5498 TCGA-EJ-5499 
       24.03         9.96        19.53        13.02        17.62        17.49 
TCGA-EJ-5508 TCGA-EJ-5512 TCGA-EJ-5515 TCGA-EJ-5516 TCGA-EJ-5522 TCGA-EJ-5524 
       29.82        25.71        34.88        25.74        46.13        27.42 
TCGA-EJ-5526 TCGA-EJ-5527 TCGA-EJ-5542 TCGA-G9-6336 TCGA-G9-6348 TCGA-G9-6356 
       18.64        13.05        17.06        54.87        37.61        32.88 
TCGA-G9-6365 TCGA-G9-6384 
       26.43        12.82 

subtype1 subtype2 subtype3 subtype4 
    1.02     1.02     1.02     1.02 
subtype1 subtype2 subtype3 subtype4 
   47.41    65.92    35.01    54.87 
subtype1 subtype2 subtype3 subtype4 
  15.950   14.795   24.015   23.520 
[1] "1.0 - 47.4 (15.9)" "1.0 - 65.9 (14.8)" "1.0 - 35.0 (24.0)"
[4] "1.0 - 54.9 (23.5)"
 [1] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype4"
 [7] "subtype1" "subtype3" "subtype3" "subtype3" "subtype4" "subtype4"
[13] "subtype4" "subtype4" "subtype2" "subtype1" "subtype4" "subtype2"
[19] "subtype1" "subtype3" "subtype4" "subtype2" "subtype2" "subtype4"
[25] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
[31] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
[37] "subtype4" "subtype3" "subtype4" "subtype4" "subtype4" "subtype2"
[43] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype1"
[49] "subtype2" "subtype1" "subtype4" "subtype1" "subtype1"
 [1] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype4"
 [7] "subtype1" "subtype3" "subtype3" "subtype3" "subtype4" "subtype4"
[13] "subtype4" "subtype4" "subtype2" "subtype1" "subtype4" "subtype2"
[19] "subtype1" "subtype3" "subtype4" "subtype2" "subtype2" "subtype4"
[25] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
[31] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
[37] "subtype4" "subtype3" "subtype4" "subtype4" "subtype4" "subtype2"
[43] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype1"
[49] "subtype2" "subtype1" "subtype4" "subtype1" "subtype1"
 [1] "subtype1" "subtype4" "subtype3" "subtype2" "subtype2" "subtype4"
 [7] "subtype1" "subtype3" "subtype3" "subtype3" "subtype4" "subtype4"
[13] "subtype4" "subtype4" "subtype2" "subtype1" "subtype4" "subtype2"
[19] "subtype1" "subtype3" "subtype4" "subtype2" "subtype2" "subtype4"
[25] "subtype4" "subtype4" "subtype4" "subtype1" "subtype1" "subtype2"
[31] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
[37] "subtype4" "subtype3" "subtype4" "subtype4" "subtype4" "subtype2"
[43] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype1"
[49] "subtype2" "subtype1" "subtype4" "subtype1" "subtype1"
D3V2, continuous
D3V3, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   10
  subtype2    1    9
  subtype3    0    6
  subtype4    2   24
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        1        0        2
  YES       10        9        6       24
D3V4, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   11
  subtype2    1    9
  subtype3    2    4
  subtype4    0   26
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         0        1        2        0
  YES       11        9        4       26

Clustering(4) Variable = MIRSEQ_CNMF
D4V1, survival
          sevent
clus2       0
  subtype1 18
  subtype2 28
  subtype3 19
  subtype4 16
subtype1 subtype2 subtype3 subtype4 
      18       28       19       16 
subtype1 subtype2 subtype3 subtype4 
       0        0        0        0 
$subtype1
TCGA-CH-5737 TCGA-CH-5738 TCGA-CH-5739 TCGA-CH-5748 TCGA-CH-5750 TCGA-CH-5762 
        2.99         6.97        22.06         1.02        12.99        44.02 
TCGA-CH-5764 TCGA-CH-5765 TCGA-CH-5767 TCGA-CH-5768 TCGA-CH-5789 TCGA-EJ-5496 
        1.02        23.01        15.06        24.03         9.96        19.53 
TCGA-EJ-5504 TCGA-EJ-5522 TCGA-EJ-5524 TCGA-G9-6332 TCGA-G9-6362 TCGA-G9-6371 
        7.53        46.13        27.42        65.92        27.02        27.81 

$subtype2
TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5744 TCGA-CH-5745 TCGA-CH-5752 TCGA-CH-5753 
        1.02        12.99         1.97         2.99        30.97         1.02 
TCGA-CH-5754 TCGA-CH-5761 TCGA-CH-5766 TCGA-CH-5769 TCGA-CH-5771 TCGA-CH-5788 
        2.04         0.92         1.02         2.04        12.99        26.96 
TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5792 TCGA-CH-5794 TCGA-EJ-5501 TCGA-EJ-5505 
       32.02        33.01         2.99        28.96        23.97        14.70 
TCGA-EJ-5507 TCGA-EJ-5508 TCGA-EJ-5509 TCGA-EJ-5510 TCGA-EJ-5518 TCGA-EJ-5519 
        5.98        29.82        36.03        24.23        39.29        37.91 
TCGA-EJ-5525 TCGA-EJ-5526 TCGA-EJ-5531 TCGA-G9-6348 
       25.97        18.64        23.80        37.61 

$subtype3
TCGA-CH-5743 TCGA-CH-5746 TCGA-CH-5763 TCGA-EJ-5495 TCGA-EJ-5497 TCGA-EJ-5498 
       13.94        24.03        12.00        19.89        13.02        17.62 
TCGA-EJ-5499 TCGA-EJ-5503 TCGA-EJ-5506 TCGA-EJ-5512 TCGA-EJ-5515 TCGA-EJ-5516 
       17.49        17.42        11.70        25.71        34.88        25.74 
TCGA-EJ-5521 TCGA-EJ-5527 TCGA-EJ-5542 TCGA-G9-6336 TCGA-G9-6356 TCGA-G9-6367 
       27.68        13.05        17.06        54.87        32.88        28.77 
TCGA-G9-6370 
       26.50 

$subtype4
TCGA-CH-5772 TCGA-EJ-5502 TCGA-EJ-5511 TCGA-EJ-5514 TCGA-EJ-5517 TCGA-EJ-5530 
       15.95         8.02        25.91        23.80        27.91        41.82 
TCGA-EJ-5532 TCGA-G9-6363 TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6373 TCGA-G9-6378 
       29.92        32.65        27.65        26.43        16.60        21.83 
TCGA-G9-6384 TCGA-G9-6385 TCGA-G9-6494 TCGA-G9-6496 
       12.82        11.70        47.41        33.34 

subtype1 subtype2 subtype3 subtype4 
    1.02     0.92    11.70     8.02 
subtype1 subtype2 subtype3 subtype4 
   65.92    39.29    54.87    47.41 
subtype1 subtype2 subtype3 subtype4 
  20.795   21.220   19.890   26.170 
[1] "1.0 - 65.9 (20.8)"  "0.9 - 39.3 (21.2)"  "11.7 - 54.9 (19.9)"
[4] "8.0 - 47.4 (26.2)" 
 [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [7] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[19] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[25] "subtype4" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[31] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[37] "subtype2" "subtype4" "subtype3" "subtype1" "subtype2" "subtype3"
[43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype3"
[49] "subtype4" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[55] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[61] "subtype4" "subtype2" "subtype4" "subtype3" "subtype1" "subtype3"
[67] "subtype2" "subtype3" "subtype1" "subtype4" "subtype4" "subtype4"
[73] "subtype3" "subtype3" "subtype1" "subtype4" "subtype4" "subtype4"
[79] "subtype4" "subtype4" "subtype4"
 [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [7] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[19] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[25] "subtype4" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[31] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[37] "subtype2" "subtype4" "subtype3" "subtype1" "subtype2" "subtype3"
[43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype3"
[49] "subtype4" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[55] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[61] "subtype4" "subtype2" "subtype4" "subtype3" "subtype1" "subtype3"
[67] "subtype2" "subtype3" "subtype1" "subtype4" "subtype4" "subtype4"
[73] "subtype3" "subtype3" "subtype1" "subtype4" "subtype4" "subtype4"
[79] "subtype4" "subtype4" "subtype4"
 [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [7] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[19] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[25] "subtype4" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[31] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[37] "subtype2" "subtype4" "subtype3" "subtype1" "subtype2" "subtype3"
[43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype4" "subtype3"
[49] "subtype4" "subtype3" "subtype3" "subtype4" "subtype2" "subtype2"
[55] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[61] "subtype4" "subtype2" "subtype4" "subtype3" "subtype1" "subtype3"
[67] "subtype2" "subtype3" "subtype1" "subtype4" "subtype4" "subtype4"
[73] "subtype3" "subtype3" "subtype1" "subtype4" "subtype4" "subtype4"
[79] "subtype4" "subtype4" "subtype4"
D4V2, continuous
D4V3, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   17
  subtype2    2   26
  subtype3    1   18
  subtype4    1   15
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        2        1        1
  YES       17       26       18       15
D4V4, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   18
  subtype2    3   25
  subtype3    0   19
  subtype4    0   16
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         0        3        0        0
  YES       18       25       19       16

Clustering(5) Variable = MIRSEQ_CHIERARCHICAL
D5V1, survival
          sevent
clus2       0
  subtype1 15
  subtype2 32
  subtype3 34
subtype1 subtype2 subtype3 
      15       32       34 
subtype1 subtype2 subtype3 
       0        0        0 
$subtype1
TCGA-CH-5745 TCGA-CH-5772 TCGA-EJ-5502 TCGA-EJ-5504 TCGA-EJ-5511 TCGA-EJ-5514 
        2.99        15.95         8.02         7.53        25.91        23.80 
TCGA-EJ-5517 TCGA-EJ-5518 TCGA-EJ-5530 TCGA-EJ-5532 TCGA-G9-6363 TCGA-G9-6365 
       27.91        39.29        41.82        29.92        32.65        26.43 
TCGA-G9-6378 TCGA-G9-6385 TCGA-G9-6494 
       21.83        11.70        47.41 

$subtype2
TCGA-CH-5737 TCGA-CH-5739 TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5744 TCGA-CH-5750 
        2.99        22.06         1.02        12.99         1.97        12.99 
TCGA-CH-5752 TCGA-CH-5753 TCGA-CH-5754 TCGA-CH-5761 TCGA-CH-5765 TCGA-CH-5766 
       30.97         1.02         2.04         0.92        23.01         1.02 
TCGA-CH-5767 TCGA-CH-5768 TCGA-CH-5769 TCGA-CH-5788 TCGA-CH-5790 TCGA-CH-5791 
       15.06        24.03         2.04        26.96        32.02        33.01 
TCGA-CH-5792 TCGA-CH-5794 TCGA-EJ-5501 TCGA-EJ-5507 TCGA-EJ-5519 TCGA-EJ-5525 
        2.99        28.96        23.97         5.98        37.91        25.97 
TCGA-G9-6332 TCGA-G9-6348 TCGA-G9-6362 TCGA-G9-6364 TCGA-G9-6371 TCGA-G9-6373 
       65.92        37.61        27.02        27.65        27.81        16.60 
TCGA-G9-6384 TCGA-G9-6496 
       12.82        33.34 

$subtype3
TCGA-CH-5738 TCGA-CH-5743 TCGA-CH-5746 TCGA-CH-5748 TCGA-CH-5762 TCGA-CH-5763 
        6.97        13.94        24.03         1.02        44.02        12.00 
TCGA-CH-5764 TCGA-CH-5771 TCGA-CH-5789 TCGA-EJ-5495 TCGA-EJ-5496 TCGA-EJ-5497 
        1.02        12.99         9.96        19.89        19.53        13.02 
TCGA-EJ-5498 TCGA-EJ-5499 TCGA-EJ-5503 TCGA-EJ-5505 TCGA-EJ-5506 TCGA-EJ-5508 
       17.62        17.49        17.42        14.70        11.70        29.82 
TCGA-EJ-5509 TCGA-EJ-5510 TCGA-EJ-5512 TCGA-EJ-5515 TCGA-EJ-5516 TCGA-EJ-5521 
       36.03        24.23        25.71        34.88        25.74        27.68 
TCGA-EJ-5522 TCGA-EJ-5524 TCGA-EJ-5526 TCGA-EJ-5527 TCGA-EJ-5531 TCGA-EJ-5542 
       46.13        27.42        18.64        13.05        23.80        17.06 
TCGA-G9-6336 TCGA-G9-6356 TCGA-G9-6367 TCGA-G9-6370 
       54.87        32.88        28.77        26.50 

subtype1 subtype2 subtype3 
    2.99     0.92     1.02 
subtype1 subtype2 subtype3 
   47.41    65.92    54.87 
subtype1 subtype2 subtype3 
  25.910   22.535   19.710 
[1] "3.0 - 47.4 (25.9)" "0.9 - 65.9 (22.5)" "1.0 - 54.9 (19.7)"
 [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[13] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[25] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[31] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[37] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[43] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[49] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[55] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[61] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[67] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[73] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[79] "subtype1" "subtype1" "subtype2"
 [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[13] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[25] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[31] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[37] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[43] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[49] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[55] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[61] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[67] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[73] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[79] "subtype1" "subtype1" "subtype2"
 [1] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [7] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[13] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[25] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[31] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[37] "subtype2" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[43] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[49] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
[55] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[61] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[67] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[73] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[79] "subtype1" "subtype1" "subtype2"
D5V2, continuous
D5V3, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   14
  subtype2    2   30
  subtype3    2   32
     clus
vv    subtype1 subtype2 subtype3
  NO         1        2        2
  YES       14       30       32
D5V4, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   15
  subtype2    3   29
  subtype3    0   34
     clus
vv    subtype1 subtype2 subtype3
  NO         0        3        0
  YES       15       29       34
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                      V4 
                   "NEOADJUVANT.THERAPY" 
> q(save="no")
