
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/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/PRAD-TP/4430172/PRAD-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/PRAD-TP/4401844/PRAD-TP.clin.merged.picked.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=.05", "-cQ=0.25", "-MF=ALL", "-oT=PRAD-TP", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"         "-oT=PRAD-TP"
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/PRAD-TP/4401844/PRAD-TP.clin.merged.picked.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/PRAD-TP/4430172/PRAD-TP.mergedcluster.txt"

nPatients in clinical file=166, in cluster file=248, common to both=165
[1]  10 165
[1] "CN_CNMF"
[1] 3
 1  2  3 
23 86 51 
 1  2  3 
23 86 51 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
49 52 64 
 1  2  3 
49 52 64 
[1] "RPPA_CNMF"
[1] 3
 1  2  3 
40 47 50 
 1  2  3 
40 47 50 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3 
49 51 37 
 1  2  3 
49 51 37 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3 
54 51 56 
 1  2  3 
54 51 56 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
40 55 66 
 1  2  3 
40 55 66 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3  4  5 
49 32 10 12 61 
 1  2  3  4  5 
49 32 10 12 61 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
 1  2  3  4 
33 13 58 60 
 1  2  3  4 
33 13 58 60 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
 1  2  3  4  5 
73  9 13  6 63 
 1  2  3  4  5 
73  9 13  6 63 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
 1  2  3 
78 74 12 
 1  2  3 
78 74 12 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [1] "YEARSTOBIRTH"                     "VITALSTATUS"                     
 [3] "DAYSTODEATH"                      "DAYSTOLASTFOLLOWUP"              
 [5] "PRIMARYSITEOFDESEASE"             "NEOPLASM.DISEASESTAGE"           
 [7] "PATHOLOGY.T.STAGE"                "PATHOLOGY.N.STAGE"               
 [9] "PATHOLOGY.M.STAGE"                "DCCUPLOADDATE"                   
[11] "GENDER"                           "DATEOFINITIALPATHOLOGICDIAGNOSIS"
[13] "RADIATIONTHERAPY"                 "HISTOLOGICALTYPE"                
[15] "COMPLETENESS.OF.RESECTION"        "NUMBER.OF.LYMPH.NODES"           
[17] "BATCHNUMBER"                     

Input Data has 17 rows and 165 columns.

[1] "Batch" "17"   
[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-EJ-8469 TCGA-EJ-8470 TCGA-EJ-8472 TCGA-EJ-A46B TCGA-FC-7708 TCGA-FC-7961 
        1946          821           NA          162           32           70 
TCGA-G9-6329 TCGA-G9-6332 TCGA-G9-6333 TCGA-G9-6336 TCGA-G9-6338 TCGA-G9-6342 
         923         2328         1925         1669         1649         1338 
TCGA-G9-6343 TCGA-G9-6348 TCGA-G9-6351 TCGA-G9-6353 TCGA-G9-6356 TCGA-G9-6361 
         554         1144         1215          847         1000         1008 
TCGA-G9-6362 TCGA-G9-6363 TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6366 TCGA-G9-6367 
         822          993          841          804          101          875 
TCGA-G9-6369 TCGA-G9-6370 TCGA-G9-6371 TCGA-G9-6373 TCGA-G9-6377 TCGA-G9-6378 
         851          806          846          505          518          664 
TCGA-G9-6384 TCGA-G9-6385 TCGA-G9-6494 TCGA-G9-6496 TCGA-G9-6499 TCGA-G9-7510 
         390          356         1442         1014         1109          674 
TCGA-G9-7519 TCGA-G9-7521 TCGA-G9-7522 TCGA-G9-7523 TCGA-G9-7525 TCGA-H9-7775 
         457          486          451          324          512           31 
TCGA-HC-7075 TCGA-HC-7077 TCGA-HC-7078 TCGA-HC-7079 TCGA-HC-7080 TCGA-HC-7209 
          61           NA          162           89           61           31 
TCGA-HC-7211 TCGA-HC-7212 TCGA-HC-7213 TCGA-HC-7230 TCGA-HC-7231 TCGA-HC-7736 
          30           31           60           51           72           30 
TCGA-HC-7737 TCGA-HC-7740 TCGA-HC-7742 TCGA-HC-7744 TCGA-HC-7747 TCGA-HC-7748 
          63           53           45           51           57           62 
TCGA-HC-7749 TCGA-HC-7750 TCGA-HC-7752 TCGA-HC-7817 TCGA-HC-7818 TCGA-HC-7821 
          61           34           98           32           45           56 
TCGA-HC-8265 TCGA-HC-A4ZV TCGA-HI-7168 TCGA-HI-7169 TCGA-HI-7170 TCGA-HI-7171 
          62           23         2391         1949         1899           NA 
TCGA-J4-8198 TCGA-J4-8200 TCGA-J4-A67N 
          98          196          502 
Variable 1:'AGE':	nDistinctValues=29,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=TRUE.
Variable 3:'DAYSTODEATH':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=135,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'NEOPLASM.DISEASESTAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'PATHOLOGY.T.STAGE':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY.N.STAGE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'PATHOLOGY.M.STAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'GENDER':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=8,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 13:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 14:'HISTOLOGICAL.TYPE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 15:'COMPLETENESS.OF.RESECTION':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=9,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 17:'BATCH.NUMBER':	nDistinctValues=11,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                       "PATHOLOGY.T.STAGE"        
[3] "PATHOLOGY.N.STAGE"         "COMPLETENESS.OF.RESECTION"
[5] "NUMBER.OF.LYMPH.NODES"    
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "2"          
[1] "PATHOLOGY.N" "3"          
Output Data has 165 columns, 1 survival variables, and 5 non-survival variables.
AGE, nv=29, binary=FALSE, numeric=TRUE
PATHOLOGY.T.STAGE, nv=3, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
T2 T3 T4 
70 89  5 
[1] "table(vv)"
vv
T2 T3 T4 
70 89  5 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
T2 T3 T4 
70 89  5 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


T2 T3 T4 
70 89  5 
PATHOLOGY.N.STAGE, nv=2, binary=FALSE, numeric=TRUE
COMPLETENESS.OF.RESECTION, nv=3, binary=FALSE, numeric=FALSE
NUMBER.OF.LYMPH.NODES, nv=9, binary=FALSE, numeric=TRUE

Clustering(1) Variable = CN_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 23  0
  subtype2 86  0
  subtype3 50  1
subtype1 subtype2 subtype3 
      23       86       51 
subtype1 subtype2 subtype3 
       0        0        1 
$subtype1
TCGA-CH-5737 TCGA-CH-5740 TCGA-CH-5748 TCGA-CH-5767 TCGA-CH-5772 TCGA-CH-5792 
        2.99         1.02         1.02        15.06        15.95         2.99 
TCGA-EJ-5494 TCGA-EJ-5504 TCGA-EJ-5505 TCGA-EJ-5509 TCGA-EJ-5531 TCGA-EJ-7125 
       12.43         7.53        14.70        36.03        23.80        61.15 
TCGA-EJ-7317 TCGA-EJ-7327 TCGA-EJ-7331 TCGA-EJ-7782 TCGA-EJ-7786 TCGA-G9-6338 
        9.37         5.75         0.30         2.10         2.60        54.21 
TCGA-G9-6366 TCGA-G9-6369 TCGA-HC-7080 TCGA-HC-7736 TCGA-HC-7744 
        3.32        27.98         2.01         0.99         1.68 

$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-5771 
       12.00         1.02        23.01        24.03         2.04        12.99 
TCGA-CH-5789 TCGA-CH-5790 TCGA-CH-5794 TCGA-EJ-5496 TCGA-EJ-5497 TCGA-EJ-5498 
        9.96        32.02        28.96        19.53        13.02        17.62 
TCGA-EJ-5499 TCGA-EJ-5501 TCGA-EJ-5502 TCGA-EJ-5503 TCGA-EJ-5506 TCGA-EJ-5508 
       17.49        23.97         8.02        17.42        11.70        29.82 
TCGA-EJ-5510 TCGA-EJ-5512 TCGA-EJ-5515 TCGA-EJ-5517 TCGA-EJ-5522 TCGA-EJ-5530 
       24.23        25.71        34.88        27.91        46.13        41.82 
TCGA-EJ-5532 TCGA-EJ-7115 TCGA-EJ-7321 TCGA-EJ-7328 TCGA-EJ-7783 TCGA-EJ-7785 
       29.92        26.99         7.66         5.59         4.31         8.48 
TCGA-EJ-7788 TCGA-EJ-7791 TCGA-EJ-7792 TCGA-EJ-7793 TCGA-EJ-7794 TCGA-EJ-7797 
        1.71         7.13        17.29         1.41         9.34         6.15 
TCGA-EJ-8469 TCGA-EJ-8470 TCGA-EJ-A46B TCGA-FC-7708 TCGA-G9-6329 TCGA-G9-6332 
       63.98        26.99         5.33         1.05        30.35        65.92 
TCGA-G9-6333 TCGA-G9-6336 TCGA-G9-6343 TCGA-G9-6348 TCGA-G9-6351 TCGA-G9-6353 
       63.29        54.87        18.21        37.61        39.95        27.85 
TCGA-G9-6356 TCGA-G9-6361 TCGA-G9-6363 TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6367 
       32.88        33.14        32.65        27.65        26.43        28.77 
TCGA-G9-6370 TCGA-G9-6371 TCGA-G9-6378 TCGA-G9-6385 TCGA-G9-6494 TCGA-G9-7510 
       26.50        27.81        21.83        11.70        47.41        22.16 
TCGA-G9-7519 TCGA-G9-7522 TCGA-G9-7523 TCGA-G9-7525 TCGA-H9-7775 TCGA-HC-7075 
       15.02        14.83        10.65        16.83         1.02         2.01 
TCGA-HC-7077 TCGA-HC-7079 TCGA-HC-7211 TCGA-HC-7230 TCGA-HC-7231 TCGA-HC-7737 
       65.98         2.93         0.99         1.68         2.37         2.07 
TCGA-HC-7740 TCGA-HC-7747 TCGA-HC-7748 TCGA-HC-7750 TCGA-HC-7752 TCGA-HC-7818 
        1.74         1.87         2.04         1.12         3.22         1.48 
TCGA-HI-7169 TCGA-HI-7170 
       64.08        62.43 

$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-5507 
       44.02         1.02        26.96        33.01        19.89         5.98 
TCGA-EJ-5511 TCGA-EJ-5514 TCGA-EJ-5516 TCGA-EJ-5518 TCGA-EJ-5519 TCGA-EJ-5521 
       25.91        23.80        25.74        39.29        37.91        27.68 
TCGA-EJ-5524 TCGA-EJ-5525 TCGA-EJ-5526 TCGA-EJ-5527 TCGA-EJ-5542 TCGA-EJ-7123 
       27.42        25.97        18.64        13.05        17.06        48.99 
TCGA-EJ-7314 TCGA-EJ-7315 TCGA-EJ-7330 TCGA-EJ-7781 TCGA-EJ-7784 TCGA-EJ-7789 
        9.70         9.50         6.28         5.56         5.49         2.30 
TCGA-EJ-8472 TCGA-G9-6342 TCGA-G9-6362 TCGA-G9-6373 TCGA-G9-6377 TCGA-G9-6384 
       66.12        43.99        27.02        16.60        17.03        12.82 
TCGA-G9-6496 TCGA-G9-6499 TCGA-G9-7521 TCGA-HC-7078 TCGA-HC-7209 TCGA-HC-7212 
       33.34        36.46        15.98         5.33         1.02         1.02 
TCGA-HC-7213 TCGA-HC-7742 TCGA-HC-7749 TCGA-HC-7821 TCGA-HC-8265 TCGA-HC-A4ZV 
        1.97         1.48         2.01         1.84         2.04         0.76 
TCGA-HI-7168 TCGA-HI-7171 TCGA-J4-8198 
       65.92        66.02         3.22 

subtype1 subtype2 subtype3 
    0.30     0.99     0.76 
subtype1 subtype2 subtype3 
   61.15    65.98    66.12 
subtype1 subtype2 subtype3 
   5.750   17.455   16.600 
[1] "0.3 - 61.1 (5.8)"  "1.0 - 66.0 (17.5)" "0.8 - 66.1 (16.6)"
  [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" "subtype2"
 [25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [73] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
 [79] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[127] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[145] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype2" "subtype2" "subtype3" "subtype3"
  [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" "subtype2"
 [25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [73] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
 [79] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[127] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[145] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype2" "subtype2" "subtype3" "subtype3"
  [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" "subtype2"
 [25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [73] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
 [79] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[127] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[145] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[157] "subtype2" "subtype2" "subtype3" "subtype3"
D1V2, continuous
          vv
clus       T2 T3 T4
  subtype1 13 10  0
  subtype2 46 36  3
  subtype3 10 39  2
D1V3, multiclass
D1V4, binary
          cls
clus        0  1
  subtype1 21  1
  subtype2 68  3
  subtype3 37 11
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   21    1
  subtype2   68    3
  subtype3   37   11
   clus
vv  subtype1 subtype2 subtype3
  0       21       68       37
  1        1        3       11
          vv
clus       R0 R1 RX
  subtype1 17  5  0
  subtype2 64 16  3
  subtype3 38 10  0
D1V5, multiclass
D1V6, continuous

Clustering(2) Variable = METHLYATION_CNMF
D2V1, survival
          sevent
clus2       0  1
  subtype1 49  0
  subtype2 52  0
  subtype3 63  1
subtype1 subtype2 subtype3 
      49       52       64 
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-EJ-8470 TCGA-FC-7961 TCGA-G9-6333 
        2.60         2.30         9.34        26.99         2.30        63.29 
TCGA-G9-6338 TCGA-G9-6343 TCGA-G9-6369 TCGA-G9-6371 TCGA-G9-6494 TCGA-G9-6496 
       54.21        18.21        27.98        27.81        47.41        33.34 
TCGA-G9-6499 TCGA-G9-7510 TCGA-G9-7521 TCGA-G9-7523 TCGA-HC-7075 TCGA-HC-7078 
       36.46        22.16        15.98        10.65         2.01         5.33 
TCGA-HC-7080 TCGA-HC-7211 TCGA-HC-7736 TCGA-HC-7737 TCGA-HC-8265 TCGA-HC-A4ZV 
        2.01         0.99         0.99         2.07         2.04         0.76 
TCGA-HI-7168 
       65.92 

$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-5508 TCGA-EJ-5510 TCGA-EJ-5512 TCGA-EJ-5515 TCGA-EJ-5516 
       11.70        29.82        24.23        25.71        34.88        25.74 
TCGA-EJ-5517 TCGA-EJ-5522 TCGA-EJ-5527 TCGA-EJ-7328 TCGA-EJ-7781 TCGA-EJ-7785 
       27.91        46.13        13.05         5.59         5.56         8.48 
TCGA-EJ-7791 TCGA-EJ-7792 TCGA-EJ-7793 TCGA-EJ-7797 TCGA-EJ-A46B TCGA-FC-7708 
        7.13        17.29         1.41         6.15         5.33         1.05 
TCGA-G9-6329 TCGA-G9-6336 TCGA-G9-6348 TCGA-G9-6351 TCGA-G9-6353 TCGA-G9-6356 
       30.35        54.87        37.61        39.95        27.85        32.88 
TCGA-G9-6366 TCGA-G9-6367 TCGA-G9-6370 TCGA-G9-6378 TCGA-G9-6384 TCGA-G9-6385 
        3.32        28.77        26.50        21.83        12.82        11.70 
TCGA-G9-7519 TCGA-G9-7522 TCGA-HC-7079 TCGA-HC-7740 TCGA-HC-7742 TCGA-HC-7747 
       15.02        14.83         2.93         1.74         1.48         1.87 
TCGA-HC-7750 TCGA-HC-7817 TCGA-HI-7170 TCGA-J4-8200 
        1.12         1.05        62.43         6.44 

$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-5511 TCGA-EJ-5521 
       19.89        19.53        17.49         5.98        25.91        27.68 
TCGA-EJ-5524 TCGA-EJ-5525 TCGA-EJ-5526 TCGA-EJ-5530 TCGA-EJ-5542 TCGA-EJ-7314 
       27.42        25.97        18.64        41.82        17.06         9.70 
TCGA-EJ-7321 TCGA-EJ-7327 TCGA-EJ-7783 TCGA-EJ-7784 TCGA-EJ-7788 TCGA-EJ-8469 
        7.66         5.75         4.31         5.49         1.71        63.98 
TCGA-EJ-8472 TCGA-G9-6332 TCGA-G9-6342 TCGA-G9-6361 TCGA-G9-6362 TCGA-G9-6363 
       66.12        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-7209 TCGA-HC-7212 TCGA-HC-7213 TCGA-HC-7230 TCGA-HC-7231 
       65.98         1.02         1.02         1.97         1.68         2.37 
TCGA-HC-7744 TCGA-HC-7748 TCGA-HC-7749 TCGA-HC-7752 TCGA-HC-7818 TCGA-HC-7821 
        1.68         2.04         2.01         3.22         1.48         1.84 
TCGA-HI-7169 TCGA-HI-7171 TCGA-J4-8198 TCGA-J4-A67N 
       64.08        66.02         3.22        16.50 

subtype1 subtype2 subtype3 
    0.30     1.05     1.02 
subtype1 subtype2 subtype3 
   65.92    62.43    66.12 
subtype1 subtype2 subtype3 
  14.700   13.495   16.715 
[1] "0.3 - 65.9 (14.7)" "1.1 - 62.4 (13.5)" "1.0 - 66.1 (16.7)"
  [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" "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" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [85] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [91] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [97] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[115] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[133] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[139] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[151] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "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" "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" "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" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [85] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [91] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [97] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[115] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[133] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[139] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[151] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "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" "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" "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" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [85] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [91] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
 [97] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[115] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[133] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype3"
[139] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[145] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[151] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[157] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype3"
[163] "subtype3" "subtype2" "subtype3"
D2V2, continuous
          vv
clus       T2 T3 T4
  subtype1 23 23  3
  subtype2 28 23  0
  subtype3 19 43  2
D2V3, multiclass
D2V4, binary
          cls
clus        0  1
  subtype1 41  5
  subtype2 40  1
  subtype3 49  9
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   41    5
  subtype2   40    1
  subtype3   49    9
   clus
vv  subtype1 subtype2 subtype3
  0       41       40       49
  1        5        1        9
          vv
clus       R0 R1 RX
  subtype1 34 12  0
  subtype2 40  8  2
  subtype3 48 11  1
D2V5, multiclass
D2V6, continuous

Clustering(3) Variable = RPPA_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1 40  0
  subtype2 47  0
  subtype3 49  1
subtype1 subtype2 subtype3 
      40       47       50 
subtype1 subtype2 subtype3 
       0        0        1 
$subtype1
TCGA-CH-5737 TCGA-CH-5739 TCGA-CH-5740 TCGA-CH-5743 TCGA-CH-5744 TCGA-CH-5745 
        2.99        22.06         1.02        13.94         1.97         2.99 
TCGA-CH-5748 TCGA-CH-5750 TCGA-CH-5753 TCGA-CH-5762 TCGA-CH-5763 TCGA-CH-5767 
        1.02        12.99         1.02        44.02        12.00        15.06 
TCGA-CH-5768 TCGA-CH-5789 TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5794 TCGA-EJ-5495 
       24.03         9.96        32.02        33.01        28.96        19.89 
TCGA-EJ-5496 TCGA-EJ-5497 TCGA-EJ-5502 TCGA-EJ-5504 TCGA-EJ-5505 TCGA-EJ-5506 
       19.53        13.02         8.02         7.53        14.70        11.70 
TCGA-EJ-5508 TCGA-EJ-5509 TCGA-EJ-5515 TCGA-EJ-5516 TCGA-EJ-5517 TCGA-EJ-5524 
       29.82        36.03        34.88        25.74        27.91        27.42 
TCGA-EJ-5527 TCGA-EJ-5532 TCGA-EJ-5542 TCGA-EJ-7330 TCGA-EJ-7783 TCGA-EJ-7785 
       13.05        29.92        17.06         6.28         4.31         8.48 
TCGA-EJ-7786 TCGA-EJ-7791 TCGA-HC-7736 TCGA-HC-7748 
        2.60         7.13         0.99         2.04 

$subtype2
TCGA-CH-5738 TCGA-CH-5764 TCGA-CH-5771 TCGA-CH-5772 TCGA-EJ-5498 TCGA-EJ-5499 
        6.97         1.02        12.99        15.95        17.62        17.49 
TCGA-EJ-5501 TCGA-EJ-5503 TCGA-EJ-5510 TCGA-EJ-5511 TCGA-EJ-5512 TCGA-EJ-7115 
       23.97        17.42        24.23        25.91        25.71        26.99 
TCGA-EJ-7125 TCGA-EJ-7314 TCGA-EJ-7315 TCGA-EJ-7317 TCGA-EJ-7328 TCGA-EJ-7331 
       61.15         9.70         9.50         9.37         5.59         0.30 
TCGA-EJ-7781 TCGA-EJ-7792 TCGA-EJ-7793 TCGA-EJ-7794 TCGA-EJ-7797 TCGA-EJ-8470 
        5.56        17.29         1.41         9.34         6.15        26.99 
TCGA-EJ-A46B TCGA-FC-7708 TCGA-G9-6329 TCGA-G9-6342 TCGA-G9-6343 TCGA-G9-6351 
        5.33         1.05        30.35        43.99        18.21        39.95 
TCGA-G9-6353 TCGA-G9-6364 TCGA-G9-6367 TCGA-G9-6370 TCGA-G9-6371 TCGA-G9-6384 
       27.85        27.65        28.77        26.50        27.81        12.82 
TCGA-G9-6494 TCGA-G9-6499 TCGA-G9-7522 TCGA-G9-7523 TCGA-H9-7775 TCGA-HC-7079 
       47.41        36.46        14.83        10.65         1.02         2.93 
TCGA-HC-7740 TCGA-HI-7168 TCGA-HI-7169 TCGA-HI-7170 TCGA-J4-8200 
        1.74        65.92        64.08        62.43         6.44 

$subtype3
TCGA-CH-5741 TCGA-CH-5751 TCGA-CH-5752 TCGA-CH-5754 TCGA-CH-5761 TCGA-CH-5765 
       12.99        35.01        30.97         2.04         0.92        23.01 
TCGA-CH-5766 TCGA-CH-5769 TCGA-CH-5788 TCGA-CH-5792 TCGA-EJ-5494 TCGA-EJ-5507 
        1.02         2.04        26.96         2.99        12.43         5.98 
TCGA-EJ-5514 TCGA-EJ-5518 TCGA-EJ-5519 TCGA-EJ-5521 TCGA-EJ-5522 TCGA-EJ-5525 
       23.80        39.29        37.91        27.68        46.13        25.97 
TCGA-EJ-5526 TCGA-EJ-5530 TCGA-EJ-5531 TCGA-EJ-7321 TCGA-EJ-7782 TCGA-EJ-7784 
       18.64        41.82        23.80         7.66         2.10         5.49 
TCGA-EJ-7788 TCGA-EJ-7789 TCGA-EJ-8469 TCGA-FC-7961 TCGA-G9-6338 TCGA-G9-6356 
        1.71         2.30        63.98         2.30        54.21        32.88 
TCGA-G9-6361 TCGA-G9-6362 TCGA-G9-6363 TCGA-G9-6365 TCGA-G9-6366 TCGA-G9-6373 
       33.14        27.02        32.65        26.43         3.32        16.60 
TCGA-G9-6377 TCGA-G9-6378 TCGA-G9-6496 TCGA-G9-7510 TCGA-G9-7521 TCGA-G9-7525 
       17.03        21.83        33.34        22.16        15.98        16.83 
TCGA-HC-7077 TCGA-HC-7211 TCGA-HC-7212 TCGA-HC-7213 TCGA-HC-7744 TCGA-HC-7817 
       65.98         0.99         1.02         1.97         1.68         1.05 
TCGA-HI-7171 TCGA-J4-8198 
       66.02         3.22 

subtype1 subtype2 subtype3 
    0.99     0.30     0.92 
subtype1 subtype2 subtype3 
   44.02    65.92    66.02 
subtype1 subtype2 subtype3 
  13.035   17.420   17.835 
[1] "1.0 - 44.0 (13.0)" "0.3 - 65.9 (17.4)" "0.9 - 66.0 (17.8)"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [19] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [25] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [49] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [73] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [79] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [97] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[121] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[127] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [19] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [25] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [49] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [73] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [79] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [97] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[121] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[127] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [19] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [25] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
 [49] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [73] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [79] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [97] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[121] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[127] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[133] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
D3V2, continuous
          vv
clus       T2 T3 T4
  subtype1 18 22  0
  subtype2 23 23  1
  subtype3 12 34  4
D3V3, multiclass
D3V4, binary
          cls
clus        0  1
  subtype1 36  4
  subtype2 38  0
  subtype3 35  9
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   36    4
  subtype2   38    0
  subtype3   35    9
   clus
vv  subtype1 subtype2 subtype3
  0       36       38       35
  1        4        0        9
          vv
clus       R0 R1 RX
  subtype1 34  4  1
  subtype2 36  8  1
  subtype3 30 15  1
D3V5, multiclass
D3V6, continuous

Clustering(4) Variable = RPPA_CHIERARCHICAL
D4V1, survival
          sevent
clus2       0  1
  subtype1 49  0
  subtype2 50  1
  subtype3 37  0
subtype1 subtype2 subtype3 
      49       51       37 
subtype1 subtype2 subtype3 
       0        1        0 
$subtype1
TCGA-CH-5737 TCGA-CH-5738 TCGA-CH-5739 TCGA-CH-5740 TCGA-CH-5743 TCGA-CH-5744 
        2.99         6.97        22.06         1.02        13.94         1.97 
TCGA-CH-5745 TCGA-CH-5748 TCGA-CH-5750 TCGA-CH-5753 TCGA-CH-5762 TCGA-CH-5763 
        2.99         1.02        12.99         1.02        44.02        12.00 
TCGA-CH-5764 TCGA-CH-5765 TCGA-CH-5766 TCGA-CH-5767 TCGA-CH-5768 TCGA-CH-5771 
        1.02        23.01         1.02        15.06        24.03        12.99 
TCGA-CH-5789 TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5794 TCGA-EJ-5495 TCGA-EJ-5496 
        9.96        32.02        33.01        28.96        19.89        19.53 
TCGA-EJ-5497 TCGA-EJ-5501 TCGA-EJ-5502 TCGA-EJ-5504 TCGA-EJ-5505 TCGA-EJ-5508 
       13.02        23.97         8.02         7.53        14.70        29.82 
TCGA-EJ-5509 TCGA-EJ-5512 TCGA-EJ-5515 TCGA-EJ-5516 TCGA-EJ-5517 TCGA-EJ-5524 
       36.03        25.71        34.88        25.74        27.91        27.42 
TCGA-EJ-5531 TCGA-EJ-5532 TCGA-EJ-7314 TCGA-EJ-7317 TCGA-EJ-7330 TCGA-EJ-7781 
       23.80        29.92         9.70         9.37         6.28         5.56 
TCGA-EJ-7783 TCGA-EJ-7785 TCGA-EJ-7786 TCGA-EJ-7791 TCGA-HC-7736 TCGA-HC-7740 
        4.31         8.48         2.60         7.13         0.99         1.74 
TCGA-HC-7748 
        2.04 

$subtype2
TCGA-CH-5741 TCGA-CH-5751 TCGA-CH-5752 TCGA-CH-5754 TCGA-CH-5761 TCGA-CH-5769 
       12.99        35.01        30.97         2.04         0.92         2.04 
TCGA-CH-5788 TCGA-CH-5792 TCGA-EJ-5494 TCGA-EJ-5506 TCGA-EJ-5507 TCGA-EJ-5514 
       26.96         2.99        12.43        11.70         5.98        23.80 
TCGA-EJ-5518 TCGA-EJ-5519 TCGA-EJ-5521 TCGA-EJ-5522 TCGA-EJ-5525 TCGA-EJ-5526 
       39.29        37.91        27.68        46.13        25.97        18.64 
TCGA-EJ-5530 TCGA-EJ-7321 TCGA-EJ-7782 TCGA-EJ-7784 TCGA-EJ-7788 TCGA-EJ-7789 
       41.82         7.66         2.10         5.49         1.71         2.30 
TCGA-EJ-8469 TCGA-EJ-8470 TCGA-G9-6338 TCGA-G9-6343 TCGA-G9-6356 TCGA-G9-6361 
       63.98        26.99        54.21        18.21        32.88        33.14 
TCGA-G9-6362 TCGA-G9-6363 TCGA-G9-6365 TCGA-G9-6366 TCGA-G9-6373 TCGA-G9-6377 
       27.02        32.65        26.43         3.32        16.60        17.03 
TCGA-G9-6378 TCGA-G9-6496 TCGA-G9-7510 TCGA-G9-7521 TCGA-G9-7525 TCGA-H9-7775 
       21.83        33.34        22.16        15.98        16.83         1.02 
TCGA-HC-7077 TCGA-HC-7079 TCGA-HC-7211 TCGA-HC-7212 TCGA-HC-7213 TCGA-HC-7744 
       65.98         2.93         0.99         1.02         1.97         1.68 
TCGA-HC-7817 TCGA-HI-7171 TCGA-J4-8198 
        1.05        66.02         3.22 

$subtype3
TCGA-CH-5772 TCGA-EJ-5498 TCGA-EJ-5499 TCGA-EJ-5503 TCGA-EJ-5510 TCGA-EJ-5511 
       15.95        17.62        17.49        17.42        24.23        25.91 
TCGA-EJ-5527 TCGA-EJ-5542 TCGA-EJ-7115 TCGA-EJ-7125 TCGA-EJ-7315 TCGA-EJ-7328 
       13.05        17.06        26.99        61.15         9.50         5.59 
TCGA-EJ-7331 TCGA-EJ-7792 TCGA-EJ-7793 TCGA-EJ-7794 TCGA-EJ-7797 TCGA-EJ-A46B 
        0.30        17.29         1.41         9.34         6.15         5.33 
TCGA-FC-7708 TCGA-FC-7961 TCGA-G9-6329 TCGA-G9-6342 TCGA-G9-6351 TCGA-G9-6353 
        1.05         2.30        30.35        43.99        39.95        27.85 
TCGA-G9-6364 TCGA-G9-6367 TCGA-G9-6370 TCGA-G9-6371 TCGA-G9-6384 TCGA-G9-6494 
       27.65        28.77        26.50        27.81        12.82        47.41 
TCGA-G9-6499 TCGA-G9-7522 TCGA-G9-7523 TCGA-HI-7168 TCGA-HI-7169 TCGA-HI-7170 
       36.46        14.83        10.65        65.92        64.08        62.43 
TCGA-J4-8200 
        6.44 

subtype1 subtype2 subtype3 
    0.99     0.92     0.30 
subtype1 subtype2 subtype3 
   44.02    66.02    65.92 
subtype1 subtype2 subtype3 
   12.99    17.03    17.49 
[1] "1.0 - 44.0 (13.0)" "0.9 - 66.0 (17.0)" "0.3 - 65.9 (17.5)"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [25] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
 [49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [61] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [73] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [97] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[115] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [25] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
 [49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [61] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [73] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [97] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[115] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [25] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [31] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [43] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
 [49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [61] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [73] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
 [97] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[115] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
[133] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
D4V2, continuous
          vv
clus       T2 T3 T4
  subtype1 24 25  0
  subtype2 15 32  4
  subtype3 14 22  1
D4V3, multiclass
D4V4, binary
          cls
clus        0  1
  subtype1 44  4
  subtype2 34  9
  subtype3 31  0
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   44    4
  subtype2   34    9
  subtype3   31    0
   clus
vv  subtype1 subtype2 subtype3
  0       44       34       31
  1        4        9        0
          vv
clus       R0 R1 RX
  subtype1 44  4  0
  subtype2 29 15  2
  subtype3 27  8  1
D4V5, multiclass
D4V6, continuous

Clustering(5) Variable = MRNASEQ_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 54  0
  subtype2 51  0
  subtype3 55  1
subtype1 subtype2 subtype3 
      54       51       56 
subtype1 subtype2 subtype3 
       0        0        1 
$subtype1
TCGA-CH-5737 TCGA-CH-5748 TCGA-CH-5750 TCGA-CH-5751 TCGA-CH-5761 TCGA-CH-5767 
        2.99         1.02        12.99        35.01         0.92        15.06 
TCGA-CH-5772 TCGA-CH-5788 TCGA-EJ-5494 TCGA-EJ-5504 TCGA-EJ-5505 TCGA-EJ-5509 
       15.95        26.96        12.43         7.53        14.70        36.03 
TCGA-EJ-5511 TCGA-EJ-5514 TCGA-EJ-5515 TCGA-EJ-5517 TCGA-EJ-5518 TCGA-EJ-5532 
       25.91        23.80        34.88        27.91        39.29        29.92 
TCGA-EJ-7115 TCGA-EJ-7123 TCGA-EJ-7125 TCGA-EJ-7317 TCGA-EJ-7331 TCGA-EJ-7782 
       26.99        48.99        61.15         9.37         0.30         2.10 
TCGA-EJ-7786 TCGA-EJ-7788 TCGA-EJ-7789 TCGA-EJ-7792 TCGA-EJ-A46B TCGA-G9-6333 
        2.60         1.71         2.30        17.29         5.33        63.29 
TCGA-G9-6338 TCGA-G9-6343 TCGA-G9-6366 TCGA-G9-6369 TCGA-G9-6371 TCGA-G9-6378 
       54.21        18.21         3.32        27.98        27.81        21.83 
TCGA-G9-6494 TCGA-G9-6496 TCGA-G9-6499 TCGA-G9-7510 TCGA-G9-7519 TCGA-G9-7521 
       47.41        33.34        36.46        22.16        15.02        15.98 
TCGA-G9-7523 TCGA-HC-7075 TCGA-HC-7078 TCGA-HC-7080 TCGA-HC-7737 TCGA-HC-7742 
       10.65         2.01         5.33         2.01         2.07         1.48 
TCGA-HC-7750 TCGA-HC-7752 TCGA-HC-8265 TCGA-HC-A4ZV TCGA-HI-7168 TCGA-HI-7169 
        1.12         3.22         2.04         0.76        65.92        64.08 

$subtype2
TCGA-CH-5738 TCGA-CH-5743 TCGA-CH-5745 TCGA-CH-5746 TCGA-CH-5762 TCGA-CH-5763 
        6.97        13.94         2.99        24.03        44.02        12.00 
TCGA-CH-5771 TCGA-CH-5789 TCGA-CH-5792 TCGA-EJ-5497 TCGA-EJ-5498 TCGA-EJ-5499 
       12.99         9.96         2.99        13.02        17.62        17.49 
TCGA-EJ-5501 TCGA-EJ-5502 TCGA-EJ-5503 TCGA-EJ-5506 TCGA-EJ-5508 TCGA-EJ-5510 
       23.97         8.02        17.42        11.70        29.82        24.23 
TCGA-EJ-5512 TCGA-EJ-5522 TCGA-EJ-5526 TCGA-EJ-5531 TCGA-EJ-7328 TCGA-EJ-7330 
       25.71        46.13        18.64        23.80         5.59         6.28 
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-EJ-8470 TCGA-FC-7708 TCGA-G9-6329 TCGA-G9-6336 TCGA-G9-6348 
        6.15        26.99         1.05        30.35        54.87        37.61 
TCGA-G9-6351 TCGA-G9-6353 TCGA-G9-6356 TCGA-G9-6367 TCGA-G9-6370 TCGA-G9-6384 
       39.95        27.85        32.88        28.77        26.50        12.82 
TCGA-G9-6385 TCGA-G9-7522 TCGA-HC-7079 TCGA-HC-7211 TCGA-HC-7736 TCGA-HC-7740 
       11.70        14.83         2.93         0.99         0.99         1.74 
TCGA-HC-7747 TCGA-HC-7818 TCGA-HI-7170 
        1.87         1.48        62.43 

$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-5519 TCGA-EJ-5521 TCGA-EJ-5524 TCGA-EJ-5525 TCGA-EJ-5527 
       25.74        37.91        27.68        27.42        25.97        13.05 
TCGA-EJ-5530 TCGA-EJ-5542 TCGA-EJ-7314 TCGA-EJ-7315 TCGA-EJ-7321 TCGA-EJ-7327 
       41.82        17.06         9.70         9.50         7.66         5.75 
TCGA-EJ-7784 TCGA-EJ-8469 TCGA-EJ-8472 TCGA-G9-6332 TCGA-G9-6342 TCGA-G9-6361 
        5.49        63.98        66.12        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-G9-7525 TCGA-H9-7775 TCGA-HC-7077 TCGA-HC-7209 TCGA-HC-7212 TCGA-HC-7213 
       16.83         1.02        65.98         1.02         1.02         1.97 
TCGA-HC-7230 TCGA-HC-7231 TCGA-HC-7744 TCGA-HC-7748 TCGA-HC-7749 TCGA-HC-7821 
        1.68         2.37         1.68         2.04         2.01         1.84 
TCGA-HI-7171 TCGA-J4-8198 
       66.02         3.22 

subtype1 subtype2 subtype3 
    0.30     0.99     1.02 
subtype1 subtype2 subtype3 
   65.92    62.43    66.12 
subtype1 subtype2 subtype3 
  15.505   12.990   16.930 
[1] "0.3 - 65.9 (15.5)" "1.0 - 62.4 (13.0)" "1.0 - 66.1 (16.9)"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
  [7] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [19] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [31] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [43] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [55] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [85] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[121] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[133] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[145] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
  [7] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [19] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [31] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [43] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [55] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [85] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[121] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[133] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[145] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
  [7] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [19] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
 [31] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [43] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [55] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [61] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [73] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [79] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [85] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [97] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[121] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[133] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[145] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
[151] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[157] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
D5V2, continuous
          vv
clus       T2 T3 T4
  subtype1 26 25  3
  subtype2 27 23  0
  subtype3 16 38  2
D5V3, multiclass
D5V4, binary
          cls
clus        0  1
  subtype1 42  5
  subtype2 43  2
  subtype3 42  8
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   42    5
  subtype2   43    2
  subtype3   42    8
   clus
vv  subtype1 subtype2 subtype3
  0       42       43       42
  1        5        2        8
          vv
clus       R0 R1 RX
  subtype1 41 13  0
  subtype2 38  8  2
  subtype3 41 10  1
D5V5, multiclass
D5V6, continuous

Clustering(6) Variable = MRNASEQ_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 40  0
  subtype2 54  1
  subtype3 66  0
subtype1 subtype2 subtype3 
      40       55       66 
subtype1 subtype2 subtype3 
       0        1        0 
$subtype1
TCGA-CH-5737 TCGA-CH-5748 TCGA-CH-5767 TCGA-CH-5772 TCGA-EJ-5494 TCGA-EJ-5504 
        2.99         1.02        15.06        15.95        12.43         7.53 
TCGA-EJ-5505 TCGA-EJ-5509 TCGA-EJ-5517 TCGA-EJ-5518 TCGA-EJ-5532 TCGA-EJ-7115 
       14.70        36.03        27.91        39.29        29.92        26.99 
TCGA-EJ-7123 TCGA-EJ-7125 TCGA-EJ-7317 TCGA-EJ-7782 TCGA-EJ-7786 TCGA-EJ-7792 
       48.99        61.15         9.37         2.10         2.60        17.29 
TCGA-G9-6333 TCGA-G9-6338 TCGA-G9-6343 TCGA-G9-6369 TCGA-G9-6371 TCGA-G9-6378 
       63.29        54.21        18.21        27.98        27.81        21.83 
TCGA-G9-6494 TCGA-G9-6496 TCGA-G9-6499 TCGA-G9-7510 TCGA-G9-7519 TCGA-G9-7523 
       47.41        33.34        36.46        22.16        15.02        10.65 
TCGA-HC-7075 TCGA-HC-7078 TCGA-HC-7080 TCGA-HC-7737 TCGA-HC-7742 TCGA-HC-7750 
        2.01         5.33         2.01         2.07         1.48         1.12 
TCGA-HC-7752 TCGA-HC-8265 TCGA-HI-7168 TCGA-HI-7169 
        3.22         2.04        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-5761 TCGA-CH-5764 TCGA-CH-5765 
       30.97         1.02         2.04         0.92         1.02        23.01 
TCGA-CH-5766 TCGA-CH-5769 TCGA-CH-5788 TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5794 
        1.02         2.04        26.96        32.02        33.01        28.96 
TCGA-EJ-5507 TCGA-EJ-5511 TCGA-EJ-5514 TCGA-EJ-5519 TCGA-EJ-5521 TCGA-EJ-5525 
        5.98        25.91        23.80        37.91        27.68        25.97 
TCGA-EJ-5530 TCGA-EJ-7315 TCGA-EJ-7321 TCGA-EJ-7784 TCGA-EJ-7788 TCGA-EJ-7789 
       41.82         9.50         7.66         5.49         1.71         2.30 
TCGA-EJ-8469 TCGA-EJ-8472 TCGA-G9-6332 TCGA-G9-6342 TCGA-G9-6361 TCGA-G9-6362 
       63.98        66.12        65.92        43.99        33.14        27.02 
TCGA-G9-6363 TCGA-G9-6364 TCGA-G9-6366 TCGA-G9-6373 TCGA-G9-7521 TCGA-G9-7525 
       32.65        27.65         3.32        16.60        15.98        16.83 
TCGA-H9-7775 TCGA-HC-7077 TCGA-HC-7209 TCGA-HC-7212 TCGA-HC-7213 TCGA-HC-7230 
        1.02        65.98         1.02         1.02         1.97         1.68 
TCGA-HC-7231 TCGA-HC-7744 TCGA-HC-7749 TCGA-HC-7821 TCGA-HC-A4ZV TCGA-HI-7171 
        2.37         1.68         2.01         1.84         0.76        66.02 
TCGA-J4-8198 
        3.22 

$subtype3
TCGA-CH-5738 TCGA-CH-5743 TCGA-CH-5745 TCGA-CH-5746 TCGA-CH-5762 TCGA-CH-5763 
        6.97        13.94         2.99        24.03        44.02        12.00 
TCGA-CH-5768 TCGA-CH-5771 TCGA-CH-5789 TCGA-CH-5792 TCGA-EJ-5495 TCGA-EJ-5496 
       24.03        12.99         9.96         2.99        19.89        19.53 
TCGA-EJ-5497 TCGA-EJ-5498 TCGA-EJ-5499 TCGA-EJ-5501 TCGA-EJ-5502 TCGA-EJ-5503 
       13.02        17.62        17.49        23.97         8.02        17.42 
TCGA-EJ-5506 TCGA-EJ-5508 TCGA-EJ-5510 TCGA-EJ-5512 TCGA-EJ-5515 TCGA-EJ-5516 
       11.70        29.82        24.23        25.71        34.88        25.74 
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-EJ-7314 TCGA-EJ-7327 TCGA-EJ-7328 TCGA-EJ-7330 TCGA-EJ-7331 TCGA-EJ-7781 
        9.70         5.75         5.59         6.28         0.30         5.56 
TCGA-EJ-7783 TCGA-EJ-7785 TCGA-EJ-7791 TCGA-EJ-7793 TCGA-EJ-7794 TCGA-EJ-7797 
        4.31         8.48         7.13         1.41         9.34         6.15 
TCGA-EJ-8470 TCGA-EJ-A46B TCGA-FC-7708 TCGA-G9-6329 TCGA-G9-6336 TCGA-G9-6348 
       26.99         5.33         1.05        30.35        54.87        37.61 
TCGA-G9-6351 TCGA-G9-6353 TCGA-G9-6356 TCGA-G9-6365 TCGA-G9-6367 TCGA-G9-6370 
       39.95        27.85        32.88        26.43        28.77        26.50 
TCGA-G9-6377 TCGA-G9-6384 TCGA-G9-6385 TCGA-G9-7522 TCGA-HC-7079 TCGA-HC-7211 
       17.03        12.82        11.70        14.83         2.93         0.99 
TCGA-HC-7736 TCGA-HC-7740 TCGA-HC-7747 TCGA-HC-7748 TCGA-HC-7818 TCGA-HI-7170 
        0.99         1.74         1.87         2.04         1.48        62.43 

subtype1 subtype2 subtype3 
    1.02     0.76     0.30 
subtype1 subtype2 subtype3 
   65.92    66.12    62.43 
subtype1 subtype2 subtype3 
  16.620   12.990   13.495 
[1] "1.0 - 65.9 (16.6)" "0.8 - 66.1 (13.0)" "0.3 - 62.4 (13.5)"
  [1] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [31] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [73] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [97] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[115] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[121] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[145] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[157] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
  [1] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [31] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [73] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [97] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[115] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[121] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[145] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[157] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
  [1] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [31] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [55] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [67] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [73] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
 [85] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [97] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[115] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[121] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[145] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[151] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[157] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
D6V2, continuous
          vv
clus       T2 T3 T4
  subtype1 23 15  2
  subtype2 15 38  2
  subtype3 31 33  1
D6V3, multiclass
D6V4, binary
          cls
clus        0  1
  subtype1 32  2
  subtype2 38 10
  subtype3 57  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   32    2
  subtype2   38   10
  subtype3   57    3
   clus
vv  subtype1 subtype2 subtype3
  0       32       38       57
  1        2       10        3
          vv
clus       R0 R1 RX
  subtype1 29 11  0
  subtype2 40 10  1
  subtype3 51 10  2
D6V5, multiclass
D6V6, continuous

Clustering(7) Variable = MIRSEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 49  0
  subtype2 32  0
  subtype3 10  0
  subtype4 12  0
  subtype5 60  1
subtype1 subtype2 subtype3 subtype4 subtype5 
      49       32       10       12       61 
subtype1 subtype2 subtype3 subtype4 subtype5 
       0        0        0        0        1 
$subtype1
TCGA-CH-5737 TCGA-CH-5739 TCGA-CH-5741 TCGA-CH-5744 TCGA-CH-5745 TCGA-CH-5748 
        2.99        22.06        12.99         1.97         2.99         1.02 
TCGA-CH-5750 TCGA-CH-5753 TCGA-CH-5754 TCGA-CH-5761 TCGA-CH-5764 TCGA-CH-5765 
       12.99         1.02         2.04         0.92         1.02        23.01 
TCGA-CH-5766 TCGA-CH-5767 TCGA-CH-5768 TCGA-CH-5769 TCGA-CH-5771 TCGA-CH-5788 
        1.02        15.06        24.03         2.04        12.99        26.96 
TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5792 TCGA-CH-5794 TCGA-EJ-5496 TCGA-EJ-5501 
       32.02        33.01         2.99        28.96        19.53        23.97 
TCGA-EJ-5504 TCGA-EJ-5505 TCGA-EJ-5507 TCGA-EJ-5509 TCGA-EJ-5510 TCGA-EJ-5511 
        7.53        14.70         5.98        36.03        24.23        25.91 
TCGA-EJ-5518 TCGA-EJ-5519 TCGA-EJ-5521 TCGA-EJ-5526 TCGA-EJ-5530 TCGA-EJ-5532 
       39.29        37.91        27.68        18.64        41.82        29.92 
TCGA-EJ-5542 TCGA-G9-6332 TCGA-G9-6348 TCGA-G9-6362 TCGA-G9-6364 TCGA-G9-6371 
       17.06        65.92        37.61        27.02        27.65        27.81 
TCGA-G9-6373 TCGA-G9-6378 TCGA-G9-6384 TCGA-G9-6385 TCGA-G9-6494 TCGA-G9-6496 
       16.60        21.83        12.82        11.70        47.41        33.34 
TCGA-HC-7080 
        2.01 

$subtype2
TCGA-CH-5738 TCGA-CH-5743 TCGA-CH-5746 TCGA-CH-5762 TCGA-CH-5763 TCGA-CH-5789 
        6.97        13.94        24.03        44.02        12.00         9.96 
TCGA-EJ-5495 TCGA-EJ-5497 TCGA-EJ-5498 TCGA-EJ-5499 TCGA-EJ-5503 TCGA-EJ-5506 
       19.89        13.02        17.62        17.49        17.42        11.70 
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-5527 TCGA-EJ-5531 TCGA-EJ-7797 TCGA-EJ-8472 TCGA-EJ-A46B TCGA-G9-6329 
       13.05        23.80         6.15        66.12         5.33        30.35 
TCGA-G9-6336 TCGA-G9-6353 TCGA-G9-6356 TCGA-G9-6367 TCGA-G9-6370 TCGA-G9-7510 
       54.87        27.85        32.88        28.77        26.50        22.16 
TCGA-G9-7522 TCGA-HC-7747 
       14.83         1.87 

$subtype3
TCGA-CH-5740 TCGA-CH-5752 TCGA-EJ-5494 TCGA-EJ-5525 TCGA-FC-7961 TCGA-G9-6361 
        1.02        30.97        12.43        25.97         2.30        33.14 
TCGA-HC-7817 TCGA-HC-A4ZV TCGA-J4-8200 TCGA-J4-A67N 
        1.05         0.76         6.44        16.50 

$subtype4
TCGA-CH-5772 TCGA-EJ-5502 TCGA-EJ-5514 TCGA-EJ-5517 TCGA-EJ-7791 TCGA-EJ-7792 
       15.95         8.02        23.80        27.91         7.13        17.29 
TCGA-G9-6363 TCGA-G9-6365 TCGA-G9-7519 TCGA-G9-7523 TCGA-HC-7740 TCGA-HI-7169 
       32.65        26.43        15.02        10.65         1.74        64.08 

$subtype5
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-7321 TCGA-EJ-7327 TCGA-EJ-7328 TCGA-EJ-7330 TCGA-EJ-7331 TCGA-EJ-7781 
        7.66         5.75         5.59         6.28         0.30         5.56 
TCGA-EJ-7782 TCGA-EJ-7783 TCGA-EJ-7784 TCGA-EJ-7785 TCGA-EJ-7786 TCGA-EJ-7788 
        2.10         4.31         5.49         8.48         2.60         1.71 
TCGA-EJ-7789 TCGA-EJ-7793 TCGA-EJ-7794 TCGA-EJ-8469 TCGA-EJ-8470 TCGA-FC-7708 
        2.30         1.41         9.34        63.98        26.99         1.05 
TCGA-G9-6333 TCGA-G9-6338 TCGA-G9-6342 TCGA-G9-6343 TCGA-G9-6351 TCGA-G9-6366 
       63.29        54.21        43.99        18.21        39.95         3.32 
TCGA-G9-6369 TCGA-G9-6377 TCGA-G9-6499 TCGA-G9-7521 TCGA-G9-7525 TCGA-H9-7775 
       27.98        17.03        36.46        15.98        16.83         1.02 
TCGA-HC-7075 TCGA-HC-7077 TCGA-HC-7078 TCGA-HC-7079 TCGA-HC-7209 TCGA-HC-7211 
        2.01        65.98         5.33         2.93         1.02         0.99 
TCGA-HC-7212 TCGA-HC-7213 TCGA-HC-7230 TCGA-HC-7231 TCGA-HC-7736 TCGA-HC-7737 
        1.02         1.97         1.68         2.37         0.99         2.07 
TCGA-HC-7742 TCGA-HC-7744 TCGA-HC-7748 TCGA-HC-7749 TCGA-HC-7750 TCGA-HC-7752 
        1.48         1.68         2.04         2.01         1.12         3.22 
TCGA-HC-7818 TCGA-HC-7821 TCGA-HC-8265 TCGA-HI-7168 TCGA-HI-7170 TCGA-HI-7171 
        1.48         1.84         2.04        65.92        62.43        66.02 
TCGA-J4-8198 
        3.22 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.92     1.87     0.76     1.74     0.30 
subtype1 subtype2 subtype3 subtype4 subtype5 
   65.92    66.12    33.14    64.08    66.02 
subtype1 subtype2 subtype3 subtype4 subtype5 
  19.530   22.980    9.435   16.620    5.330 
[1] "0.9 - 65.9 (19.5)" "1.9 - 66.1 (23.0)" "0.8 - 33.1 (9.4)" 
[4] "1.7 - 64.1 (16.6)" "0.3 - 66.0 (5.3)" 
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [13] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype4" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype4" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [49] "subtype2" "subtype4" "subtype2" "subtype2" "subtype4" "subtype1"
 [55] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [61] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype5"
 [67] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [73] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [79] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [85] "subtype4" "subtype4" "subtype5" "subtype5" "subtype2" "subtype5"
 [91] "subtype5" "subtype2" "subtype2" "subtype5" "subtype3" "subtype2"
 [97] "subtype1" "subtype5" "subtype2" "subtype5" "subtype5" "subtype5"
[103] "subtype1" "subtype5" "subtype2" "subtype2" "subtype3" "subtype1"
[109] "subtype4" "subtype1" "subtype4" "subtype5" "subtype2" "subtype5"
[115] "subtype2" "subtype1" "subtype1" "subtype5" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype5" "subtype2" "subtype4"
[127] "subtype5" "subtype2" "subtype4" "subtype5" "subtype5" "subtype5"
[133] "subtype5" "subtype5" "subtype5" "subtype1" "subtype5" "subtype5"
[139] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
[145] "subtype4" "subtype5" "subtype5" "subtype2" "subtype5" "subtype5"
[151] "subtype5" "subtype5" "subtype3" "subtype5" "subtype5" "subtype5"
[157] "subtype3" "subtype5" "subtype4" "subtype5" "subtype5" "subtype5"
[163] "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [13] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype4" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype4" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [49] "subtype2" "subtype4" "subtype2" "subtype2" "subtype4" "subtype1"
 [55] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [61] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype5"
 [67] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [73] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [79] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [85] "subtype4" "subtype4" "subtype5" "subtype5" "subtype2" "subtype5"
 [91] "subtype5" "subtype2" "subtype2" "subtype5" "subtype3" "subtype2"
 [97] "subtype1" "subtype5" "subtype2" "subtype5" "subtype5" "subtype5"
[103] "subtype1" "subtype5" "subtype2" "subtype2" "subtype3" "subtype1"
[109] "subtype4" "subtype1" "subtype4" "subtype5" "subtype2" "subtype5"
[115] "subtype2" "subtype1" "subtype1" "subtype5" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype5" "subtype2" "subtype4"
[127] "subtype5" "subtype2" "subtype4" "subtype5" "subtype5" "subtype5"
[133] "subtype5" "subtype5" "subtype5" "subtype1" "subtype5" "subtype5"
[139] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
[145] "subtype4" "subtype5" "subtype5" "subtype2" "subtype5" "subtype5"
[151] "subtype5" "subtype5" "subtype3" "subtype5" "subtype5" "subtype5"
[157] "subtype3" "subtype5" "subtype4" "subtype5" "subtype5" "subtype5"
[163] "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [13] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype4" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype4" "subtype2" "subtype1" "subtype1"
 [43] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [49] "subtype2" "subtype4" "subtype2" "subtype2" "subtype4" "subtype1"
 [55] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [61] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype5"
 [67] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [73] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [79] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [85] "subtype4" "subtype4" "subtype5" "subtype5" "subtype2" "subtype5"
 [91] "subtype5" "subtype2" "subtype2" "subtype5" "subtype3" "subtype2"
 [97] "subtype1" "subtype5" "subtype2" "subtype5" "subtype5" "subtype5"
[103] "subtype1" "subtype5" "subtype2" "subtype2" "subtype3" "subtype1"
[109] "subtype4" "subtype1" "subtype4" "subtype5" "subtype2" "subtype5"
[115] "subtype2" "subtype1" "subtype1" "subtype5" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype5" "subtype2" "subtype4"
[127] "subtype5" "subtype2" "subtype4" "subtype5" "subtype5" "subtype5"
[133] "subtype5" "subtype5" "subtype5" "subtype1" "subtype5" "subtype5"
[139] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
[145] "subtype4" "subtype5" "subtype5" "subtype2" "subtype5" "subtype5"
[151] "subtype5" "subtype5" "subtype3" "subtype5" "subtype5" "subtype5"
[157] "subtype3" "subtype5" "subtype4" "subtype5" "subtype5" "subtype5"
[163] "subtype3" "subtype3"
D7V2, continuous
          vv
clus       T2 T3 T4
  subtype1 18 29  2
  subtype2 11 20  0
  subtype3  3  7  0
  subtype4  7  3  2
  subtype5 31 30  0
D7V3, multiclass
D7V4, binary
          cls
clus        0  1
  subtype1 36  9
  subtype2 27  2
  subtype3  9  0
  subtype4 11  0
  subtype5 47  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   36    9
  subtype2   27    2
  subtype3    9    0
  subtype4   11    0
  subtype5   47    3
          vv
clus       R0 R1 RX
  subtype1 38 11  0
  subtype2 22  8  1
  subtype3  6  2  0
  subtype4  8  4  0
  subtype5 48  5  2
D7V5, multiclass
D7V6, continuous

Clustering(8) Variable = MIRSEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 33  0
  subtype2 13  0
  subtype3 57  1
  subtype4 60  0
subtype1 subtype2 subtype3 subtype4 
      33       13       58       60 
subtype1 subtype2 subtype3 subtype4 
       0        0        1        0 
$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-7125 TCGA-EJ-7317 TCGA-EJ-7330 TCGA-EJ-7331 
       41.82        29.92        61.15         9.37         6.28         0.30 
TCGA-EJ-7786 TCGA-EJ-7788 TCGA-EJ-7791 TCGA-EJ-7792 TCGA-G9-6338 TCGA-G9-6342 
        2.60         1.71         7.13        17.29        54.21        43.99 
TCGA-G9-6343 TCGA-G9-6363 TCGA-G9-6365 TCGA-G9-6378 TCGA-G9-6385 TCGA-G9-6494 
       18.21        32.65        26.43        21.83        11.70        47.41 
TCGA-G9-7519 TCGA-G9-7521 TCGA-G9-7523 TCGA-HC-7075 TCGA-HC-7740 TCGA-HC-7750 
       15.02        15.98        10.65         2.01         1.74         1.12 
TCGA-HI-7169 TCGA-HI-7170 TCGA-J4-8200 
       64.08        62.43         6.44 

$subtype2
TCGA-CH-5752 TCGA-CH-5754 TCGA-CH-5761 TCGA-CH-5765 TCGA-CH-5769 TCGA-CH-5788 
       30.97         2.04         0.92        23.01         2.04        26.96 
TCGA-EJ-5494 TCGA-EJ-5525 TCGA-FC-7961 TCGA-G9-6371 TCGA-G9-6496 TCGA-HC-A4ZV 
       12.43        25.97         2.30        27.81        33.34         0.76 
TCGA-J4-A67N 
       16.50 

$subtype3
TCGA-CH-5737 TCGA-CH-5739 TCGA-CH-5748 TCGA-CH-5767 TCGA-EJ-5504 TCGA-EJ-7115 
        2.99        22.06         1.02        15.06         7.53        26.99 
TCGA-EJ-7123 TCGA-EJ-7314 TCGA-EJ-7315 TCGA-EJ-7327 TCGA-EJ-7328 TCGA-EJ-7781 
       48.99         9.70         9.50         5.75         5.59         5.56 
TCGA-EJ-7782 TCGA-EJ-7783 TCGA-EJ-7784 TCGA-EJ-7785 TCGA-EJ-7789 TCGA-EJ-7794 
        2.10         4.31         5.49         8.48         2.30         9.34 
TCGA-EJ-7797 TCGA-EJ-8469 TCGA-EJ-8470 TCGA-FC-7708 TCGA-G9-6332 TCGA-G9-6333 
        6.15        63.98        26.99         1.05        65.92        63.29 
TCGA-G9-6351 TCGA-G9-6361 TCGA-G9-6362 TCGA-G9-6364 TCGA-G9-6366 TCGA-G9-6377 
       39.95        33.14        27.02        27.65         3.32        17.03 
TCGA-G9-6499 TCGA-G9-7510 TCGA-G9-7525 TCGA-H9-7775 TCGA-HC-7077 TCGA-HC-7078 
       36.46        22.16        16.83         1.02        65.98         5.33 
TCGA-HC-7079 TCGA-HC-7080 TCGA-HC-7209 TCGA-HC-7211 TCGA-HC-7212 TCGA-HC-7213 
        2.93         2.01         1.02         0.99         1.02         1.97 
TCGA-HC-7230 TCGA-HC-7231 TCGA-HC-7736 TCGA-HC-7737 TCGA-HC-7742 TCGA-HC-7744 
        1.68         2.37         0.99         2.07         1.48         1.68 
TCGA-HC-7747 TCGA-HC-7748 TCGA-HC-7749 TCGA-HC-7752 TCGA-HC-7818 TCGA-HC-7821 
        1.87         2.04         2.01         3.22         1.48         1.84 
TCGA-HC-8265 TCGA-HI-7168 TCGA-HI-7171 TCGA-J4-8198 
        2.04        65.92        66.02         3.22 

$subtype4
TCGA-CH-5738 TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5743 TCGA-CH-5744 TCGA-CH-5745 
        6.97         1.02        12.99        13.94         1.97         2.99 
TCGA-CH-5746 TCGA-CH-5750 TCGA-CH-5753 TCGA-CH-5762 TCGA-CH-5763 TCGA-CH-5764 
       24.03        12.99         1.02        44.02        12.00         1.02 
TCGA-CH-5766 TCGA-CH-5768 TCGA-CH-5771 TCGA-CH-5789 TCGA-CH-5790 TCGA-CH-5791 
        1.02        24.03        12.99         9.96        32.02        33.01 
TCGA-CH-5792 TCGA-CH-5794 TCGA-EJ-5495 TCGA-EJ-5496 TCGA-EJ-5497 TCGA-EJ-5498 
        2.99        28.96        19.89        19.53        13.02        17.62 
TCGA-EJ-5499 TCGA-EJ-5501 TCGA-EJ-5503 TCGA-EJ-5505 TCGA-EJ-5506 TCGA-EJ-5507 
       17.49        23.97        17.42        14.70        11.70         5.98 
TCGA-EJ-5508 TCGA-EJ-5509 TCGA-EJ-5510 TCGA-EJ-5512 TCGA-EJ-5515 TCGA-EJ-5516 
       29.82        36.03        24.23        25.71        34.88        25.74 
TCGA-EJ-5519 TCGA-EJ-5521 TCGA-EJ-5522 TCGA-EJ-5524 TCGA-EJ-5526 TCGA-EJ-5527 
       37.91        27.68        46.13        27.42        18.64        13.05 
TCGA-EJ-5531 TCGA-EJ-5542 TCGA-EJ-7321 TCGA-EJ-7793 TCGA-EJ-8472 TCGA-EJ-A46B 
       23.80        17.06         7.66         1.41        66.12         5.33 
TCGA-G9-6329 TCGA-G9-6336 TCGA-G9-6348 TCGA-G9-6353 TCGA-G9-6356 TCGA-G9-6367 
       30.35        54.87        37.61        27.85        32.88        28.77 
TCGA-G9-6369 TCGA-G9-6370 TCGA-G9-6373 TCGA-G9-6384 TCGA-G9-7522 TCGA-HC-7817 
       27.98        26.50        16.60        12.82        14.83         1.05 

subtype1 subtype2 subtype3 subtype4 
    0.30     0.76     0.99     1.02 
subtype1 subtype2 subtype3 subtype4 
   64.08    33.34    66.02    66.12 
subtype1 subtype2 subtype3 subtype4 
   17.29    16.50     5.41    18.13 
[1] "0.3 - 64.1 (17.3)" "0.8 - 33.3 (16.5)" "1.0 - 66.0 (5.4)" 
[4] "1.0 - 66.1 (18.1)"
  [1] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
  [7] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype2"
 [13] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype4"
 [19] "subtype2" "subtype4" "subtype3" "subtype4" "subtype2" "subtype4"
 [25] "subtype1" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
 [31] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
 [37] "subtype4" "subtype4" "subtype1" "subtype4" "subtype3" "subtype4"
 [43] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
 [49] "subtype4" "subtype1" "subtype4" "subtype4" "subtype1" "subtype1"
 [55] "subtype4" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
 [61] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype4"
 [73] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [85] "subtype1" "subtype1" "subtype4" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
 [97] "subtype3" "subtype3" "subtype4" "subtype1" "subtype1" "subtype1"
[103] "subtype4" "subtype3" "subtype4" "subtype4" "subtype3" "subtype3"
[109] "subtype1" "subtype3" "subtype1" "subtype3" "subtype4" "subtype4"
[115] "subtype4" "subtype2" "subtype4" "subtype3" "subtype1" "subtype4"
[121] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[127] "subtype1" "subtype4" "subtype1" "subtype3" "subtype3" "subtype1"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[145] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[151] "subtype1" "subtype3" "subtype4" "subtype3" "subtype3" "subtype3"
[157] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[163] "subtype1" "subtype2"
  [1] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
  [7] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype2"
 [13] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype4"
 [19] "subtype2" "subtype4" "subtype3" "subtype4" "subtype2" "subtype4"
 [25] "subtype1" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
 [31] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
 [37] "subtype4" "subtype4" "subtype1" "subtype4" "subtype3" "subtype4"
 [43] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
 [49] "subtype4" "subtype1" "subtype4" "subtype4" "subtype1" "subtype1"
 [55] "subtype4" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
 [61] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype4"
 [73] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [85] "subtype1" "subtype1" "subtype4" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
 [97] "subtype3" "subtype3" "subtype4" "subtype1" "subtype1" "subtype1"
[103] "subtype4" "subtype3" "subtype4" "subtype4" "subtype3" "subtype3"
[109] "subtype1" "subtype3" "subtype1" "subtype3" "subtype4" "subtype4"
[115] "subtype4" "subtype2" "subtype4" "subtype3" "subtype1" "subtype4"
[121] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[127] "subtype1" "subtype4" "subtype1" "subtype3" "subtype3" "subtype1"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[145] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[151] "subtype1" "subtype3" "subtype4" "subtype3" "subtype3" "subtype3"
[157] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[163] "subtype1" "subtype2"
  [1] "subtype3" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
  [7] "subtype4" "subtype4" "subtype4" "subtype3" "subtype4" "subtype2"
 [13] "subtype4" "subtype2" "subtype2" "subtype4" "subtype4" "subtype4"
 [19] "subtype2" "subtype4" "subtype3" "subtype4" "subtype2" "subtype4"
 [25] "subtype1" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
 [31] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
 [37] "subtype4" "subtype4" "subtype1" "subtype4" "subtype3" "subtype4"
 [43] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype1"
 [49] "subtype4" "subtype1" "subtype4" "subtype4" "subtype1" "subtype1"
 [55] "subtype4" "subtype4" "subtype4" "subtype4" "subtype2" "subtype4"
 [61] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype4"
 [73] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [85] "subtype1" "subtype1" "subtype4" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
 [97] "subtype3" "subtype3" "subtype4" "subtype1" "subtype1" "subtype1"
[103] "subtype4" "subtype3" "subtype4" "subtype4" "subtype3" "subtype3"
[109] "subtype1" "subtype3" "subtype1" "subtype3" "subtype4" "subtype4"
[115] "subtype4" "subtype2" "subtype4" "subtype3" "subtype1" "subtype4"
[121] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[127] "subtype1" "subtype4" "subtype1" "subtype3" "subtype3" "subtype1"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[145] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[151] "subtype1" "subtype3" "subtype4" "subtype3" "subtype3" "subtype3"
[157] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[163] "subtype1" "subtype2"
D8V2, continuous
          vv
clus       T2 T3 T4
  subtype1 19 10  4
  subtype2  3 10  0
  subtype3 26 32  0
  subtype4 22 37  0
D8V3, multiclass
D8V4, binary
          cls
clus        0  1
  subtype1 25  1
  subtype2 10  2
  subtype3 49  3
  subtype4 46  8
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   25    1
  subtype2   10    2
  subtype3   49    3
  subtype4   46    8
   clus
vv  subtype1 subtype2 subtype3 subtype4
  0       25       10       49       46
  1        1        2        3        8
          vv
clus       R0 R1 RX
  subtype1 25  8  0
  subtype2  8  4  0
  subtype3 41  8  2
  subtype4 48 10  1
D8V5, multiclass
D8V6, continuous

Clustering(9) Variable = MIRSEQ_MATURE_CNMF
D9V1, survival
          sevent
clus2       0  1
  subtype1 73  0
  subtype2  9  0
  subtype3 13  0
  subtype4  6  0
  subtype5 62  1
subtype1 subtype2 subtype3 subtype4 subtype5 
      73        9       13        6       63 
subtype1 subtype2 subtype3 subtype4 subtype5 
       0        0        0        0        1 
$subtype1
TCGA-CH-5737 TCGA-CH-5738 TCGA-CH-5739 TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5744 
        2.99         6.97        22.06         1.02        12.99         1.97 
TCGA-CH-5745 TCGA-CH-5748 TCGA-CH-5750 TCGA-CH-5752 TCGA-CH-5753 TCGA-CH-5754 
        2.99         1.02        12.99        30.97         1.02         2.04 
TCGA-CH-5761 TCGA-CH-5762 TCGA-CH-5764 TCGA-CH-5765 TCGA-CH-5766 TCGA-CH-5767 
        0.92        44.02         1.02        23.01         1.02        15.06 
TCGA-CH-5768 TCGA-CH-5769 TCGA-CH-5771 TCGA-CH-5788 TCGA-CH-5789 TCGA-CH-5790 
       24.03         2.04        12.99        26.96         9.96        32.02 
TCGA-CH-5791 TCGA-CH-5792 TCGA-CH-5794 TCGA-EJ-5495 TCGA-EJ-5496 TCGA-EJ-5497 
       33.01         2.99        28.96        19.89        19.53        13.02 
TCGA-EJ-5498 TCGA-EJ-5499 TCGA-EJ-5501 TCGA-EJ-5502 TCGA-EJ-5503 TCGA-EJ-5504 
       17.62        17.49        23.97         8.02        17.42         7.53 
TCGA-EJ-5505 TCGA-EJ-5507 TCGA-EJ-5508 TCGA-EJ-5509 TCGA-EJ-5510 TCGA-EJ-5511 
       14.70         5.98        29.82        36.03        24.23        25.91 
TCGA-EJ-5514 TCGA-EJ-5516 TCGA-EJ-5517 TCGA-EJ-5518 TCGA-EJ-5519 TCGA-EJ-5521 
       23.80        25.74        27.91        39.29        37.91        27.68 
TCGA-EJ-5522 TCGA-EJ-5524 TCGA-EJ-5525 TCGA-EJ-5526 TCGA-EJ-5527 TCGA-EJ-5530 
       46.13        27.42        25.97        18.64        13.05        41.82 
TCGA-EJ-5531 TCGA-EJ-5532 TCGA-EJ-5542 TCGA-G9-6332 TCGA-G9-6336 TCGA-G9-6348 
       23.80        29.92        17.06        65.92        54.87        37.61 
TCGA-G9-6356 TCGA-G9-6362 TCGA-G9-6363 TCGA-G9-6364 TCGA-G9-6367 TCGA-G9-6370 
       32.88        27.02        32.65        27.65        28.77        26.50 
TCGA-G9-6371 TCGA-G9-6373 TCGA-G9-6378 TCGA-G9-6384 TCGA-G9-6385 TCGA-G9-6494 
       27.81        16.60        21.83        12.82        11.70        47.41 
TCGA-G9-6496 
       33.34 

$subtype2
TCGA-CH-5743 TCGA-CH-5746 TCGA-CH-5763 TCGA-EJ-5506 TCGA-EJ-5512 TCGA-EJ-5515 
       13.94        24.03        12.00        11.70        25.71        34.88 
TCGA-EJ-A46B TCGA-G9-6329 TCGA-G9-6353 
        5.33        30.35        27.85 

$subtype3
TCGA-CH-5772 TCGA-EJ-7791 TCGA-EJ-7792 TCGA-G9-6338 TCGA-G9-6365 TCGA-G9-7519 
       15.95         7.13        17.29        54.21        26.43        15.02 
TCGA-G9-7523 TCGA-H9-7775 TCGA-HC-7740 TCGA-HC-7750 TCGA-HC-7817 TCGA-HI-7169 
       10.65         1.02         1.74         1.12         1.05        64.08 
TCGA-J4-8200 
        6.44 

$subtype4
TCGA-EJ-5494 TCGA-FC-7961 TCGA-G9-6499 TCGA-HC-7080 TCGA-HC-A4ZV TCGA-J4-A67N 
       12.43         2.30        36.46         2.01         0.76        16.50 

$subtype5
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-7321 TCGA-EJ-7327 TCGA-EJ-7328 TCGA-EJ-7330 TCGA-EJ-7331 TCGA-EJ-7781 
        7.66         5.75         5.59         6.28         0.30         5.56 
TCGA-EJ-7782 TCGA-EJ-7783 TCGA-EJ-7784 TCGA-EJ-7785 TCGA-EJ-7786 TCGA-EJ-7788 
        2.10         4.31         5.49         8.48         2.60         1.71 
TCGA-EJ-7789 TCGA-EJ-7793 TCGA-EJ-7794 TCGA-EJ-7797 TCGA-EJ-8469 TCGA-EJ-8470 
        2.30         1.41         9.34         6.15        63.98        26.99 
TCGA-EJ-8472 TCGA-FC-7708 TCGA-G9-6333 TCGA-G9-6342 TCGA-G9-6343 TCGA-G9-6351 
       66.12         1.05        63.29        43.99        18.21        39.95 
TCGA-G9-6361 TCGA-G9-6366 TCGA-G9-6369 TCGA-G9-6377 TCGA-G9-7510 TCGA-G9-7521 
       33.14         3.32        27.98        17.03        22.16        15.98 
TCGA-G9-7522 TCGA-G9-7525 TCGA-HC-7075 TCGA-HC-7077 TCGA-HC-7078 TCGA-HC-7079 
       14.83        16.83         2.01        65.98         5.33         2.93 
TCGA-HC-7209 TCGA-HC-7211 TCGA-HC-7212 TCGA-HC-7213 TCGA-HC-7230 TCGA-HC-7231 
        1.02         0.99         1.02         1.97         1.68         2.37 
TCGA-HC-7736 TCGA-HC-7737 TCGA-HC-7742 TCGA-HC-7744 TCGA-HC-7747 TCGA-HC-7748 
        0.99         2.07         1.48         1.68         1.87         2.04 
TCGA-HC-7749 TCGA-HC-7752 TCGA-HC-7818 TCGA-HC-7821 TCGA-HC-8265 TCGA-HI-7168 
        2.01         3.22         1.48         1.84         2.04        65.92 
TCGA-HI-7170 TCGA-HI-7171 TCGA-J4-8198 
       62.43        66.02         3.22 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.92     5.33     1.02     0.76     0.30 
subtype1 subtype2 subtype3 subtype4 subtype5 
   65.92    34.88    64.08    36.46    66.12 
subtype1 subtype2 subtype3 subtype4 subtype5 
  23.010   24.030   10.650    7.365    5.560 
[1] "0.9 - 65.9 (23.0)" "5.3 - 34.9 (24.0)" "1.0 - 64.1 (10.7)"
[4] "0.8 - 36.5 (7.4)"  "0.3 - 66.1 (5.6)" 
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype4" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype5"
 [67] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [73] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [79] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [85] "subtype3" "subtype3" "subtype5" "subtype5" "subtype5" "subtype5"
 [91] "subtype5" "subtype5" "subtype2" "subtype5" "subtype4" "subtype2"
 [97] "subtype1" "subtype5" "subtype1" "subtype3" "subtype5" "subtype5"
[103] "subtype1" "subtype5" "subtype2" "subtype1" "subtype5" "subtype1"
[109] "subtype1" "subtype1" "subtype3" "subtype5" "subtype1" "subtype5"
[115] "subtype1" "subtype1" "subtype1" "subtype5" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype4" "subtype5" "subtype3"
[127] "subtype5" "subtype5" "subtype3" "subtype5" "subtype3" "subtype5"
[133] "subtype5" "subtype5" "subtype5" "subtype4" "subtype5" "subtype5"
[139] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
[145] "subtype3" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
[151] "subtype3" "subtype5" "subtype3" "subtype5" "subtype5" "subtype5"
[157] "subtype4" "subtype5" "subtype3" "subtype5" "subtype5" "subtype5"
[163] "subtype3" "subtype4"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype4" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype5"
 [67] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [73] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [79] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [85] "subtype3" "subtype3" "subtype5" "subtype5" "subtype5" "subtype5"
 [91] "subtype5" "subtype5" "subtype2" "subtype5" "subtype4" "subtype2"
 [97] "subtype1" "subtype5" "subtype1" "subtype3" "subtype5" "subtype5"
[103] "subtype1" "subtype5" "subtype2" "subtype1" "subtype5" "subtype1"
[109] "subtype1" "subtype1" "subtype3" "subtype5" "subtype1" "subtype5"
[115] "subtype1" "subtype1" "subtype1" "subtype5" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype4" "subtype5" "subtype3"
[127] "subtype5" "subtype5" "subtype3" "subtype5" "subtype3" "subtype5"
[133] "subtype5" "subtype5" "subtype5" "subtype4" "subtype5" "subtype5"
[139] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
[145] "subtype3" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
[151] "subtype3" "subtype5" "subtype3" "subtype5" "subtype5" "subtype5"
[157] "subtype4" "subtype5" "subtype3" "subtype5" "subtype5" "subtype5"
[163] "subtype3" "subtype4"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype4" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [49] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype5"
 [67] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [73] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [79] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
 [85] "subtype3" "subtype3" "subtype5" "subtype5" "subtype5" "subtype5"
 [91] "subtype5" "subtype5" "subtype2" "subtype5" "subtype4" "subtype2"
 [97] "subtype1" "subtype5" "subtype1" "subtype3" "subtype5" "subtype5"
[103] "subtype1" "subtype5" "subtype2" "subtype1" "subtype5" "subtype1"
[109] "subtype1" "subtype1" "subtype3" "subtype5" "subtype1" "subtype5"
[115] "subtype1" "subtype1" "subtype1" "subtype5" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype4" "subtype5" "subtype3"
[127] "subtype5" "subtype5" "subtype3" "subtype5" "subtype3" "subtype5"
[133] "subtype5" "subtype5" "subtype5" "subtype4" "subtype5" "subtype5"
[139] "subtype5" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
[145] "subtype3" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
[151] "subtype3" "subtype5" "subtype3" "subtype5" "subtype5" "subtype5"
[157] "subtype4" "subtype5" "subtype3" "subtype5" "subtype5" "subtype5"
[163] "subtype3" "subtype4"
D9V2, continuous
          vv
clus       T2 T3 T4
  subtype1 26 43  3
  subtype2  4  5  0
  subtype3  7  5  1
  subtype4  1  5  0
  subtype5 32 31  0
D9V3, multiclass
D9V4, binary
          cls
clus        0  1
  subtype1 58 10
  subtype2  6  1
  subtype3  9  0
  subtype4  6  0
  subtype5 51  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   58   10
  subtype2    6    1
  subtype3    9    0
  subtype4    6    0
  subtype5   51    3
          vv
clus       R0 R1 RX
  subtype1 57 16  0
  subtype2  6  2  1
  subtype3  6  5  0
  subtype4  4  1  0
  subtype5 49  6  2
D9V5, multiclass
D9V6, continuous

Clustering(10) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D10V1, survival
          sevent
clus2       0  1
  subtype1 78  0
  subtype2 73  1
  subtype3 12  0
subtype1 subtype2 subtype3 
      78       74       12 
subtype1 subtype2 subtype3 
       0        1        0 
$subtype1
TCGA-CH-5737 TCGA-CH-5738 TCGA-CH-5739 TCGA-CH-5740 TCGA-CH-5741 TCGA-CH-5743 
        2.99         6.97        22.06         1.02        12.99        13.94 
TCGA-CH-5744 TCGA-CH-5745 TCGA-CH-5746 TCGA-CH-5748 TCGA-CH-5750 TCGA-CH-5752 
        1.97         2.99        24.03         1.02        12.99        30.97 
TCGA-CH-5753 TCGA-CH-5754 TCGA-CH-5761 TCGA-CH-5762 TCGA-CH-5764 TCGA-CH-5765 
        1.02         2.04         0.92        44.02         1.02        23.01 
TCGA-CH-5766 TCGA-CH-5767 TCGA-CH-5768 TCGA-CH-5769 TCGA-CH-5771 TCGA-CH-5772 
        1.02        15.06        24.03         2.04        12.99        15.95 
TCGA-CH-5789 TCGA-CH-5790 TCGA-CH-5791 TCGA-CH-5792 TCGA-CH-5794 TCGA-EJ-5495 
        9.96        32.02        33.01         2.99        28.96        19.89 
TCGA-EJ-5496 TCGA-EJ-5497 TCGA-EJ-5498 TCGA-EJ-5499 TCGA-EJ-5501 TCGA-EJ-5502 
       19.53        13.02        17.62        17.49        23.97         8.02 
TCGA-EJ-5503 TCGA-EJ-5505 TCGA-EJ-5506 TCGA-EJ-5507 TCGA-EJ-5508 TCGA-EJ-5509 
       17.42        14.70        11.70         5.98        29.82        36.03 
TCGA-EJ-5510 TCGA-EJ-5511 TCGA-EJ-5512 TCGA-EJ-5514 TCGA-EJ-5515 TCGA-EJ-5516 
       24.23        25.91        25.71        23.80        34.88        25.74 
TCGA-EJ-5517 TCGA-EJ-5518 TCGA-EJ-5519 TCGA-EJ-5521 TCGA-EJ-5522 TCGA-EJ-5524 
       27.91        39.29        37.91        27.68        46.13        27.42 
TCGA-EJ-5525 TCGA-EJ-5526 TCGA-EJ-5527 TCGA-EJ-5530 TCGA-EJ-5531 TCGA-EJ-5532 
       25.97        18.64        13.05        41.82        23.80        29.92 
TCGA-EJ-5542 TCGA-G9-6332 TCGA-G9-6336 TCGA-G9-6348 TCGA-G9-6356 TCGA-G9-6362 
       17.06        65.92        54.87        37.61        32.88        27.02 
TCGA-G9-6363 TCGA-G9-6364 TCGA-G9-6365 TCGA-G9-6367 TCGA-G9-6370 TCGA-G9-6371 
       32.65        27.65        26.43        28.77        26.50        27.81 
TCGA-G9-6373 TCGA-G9-6378 TCGA-G9-6384 TCGA-G9-6385 TCGA-G9-6494 TCGA-G9-6496 
       16.60        21.83        12.82        11.70        47.41        33.34 

$subtype2
TCGA-EJ-5504 TCGA-EJ-7115 TCGA-EJ-7123 TCGA-EJ-7125 TCGA-EJ-7314 TCGA-EJ-7315 
        7.53        26.99        48.99        61.15         9.70         9.50 
TCGA-EJ-7317 TCGA-EJ-7321 TCGA-EJ-7327 TCGA-EJ-7328 TCGA-EJ-7330 TCGA-EJ-7331 
        9.37         7.66         5.75         5.59         6.28         0.30 
TCGA-EJ-7781 TCGA-EJ-7782 TCGA-EJ-7783 TCGA-EJ-7784 TCGA-EJ-7785 TCGA-EJ-7786 
        5.56         2.10         4.31         5.49         8.48         2.60 
TCGA-EJ-7788 TCGA-EJ-7789 TCGA-EJ-7791 TCGA-EJ-7792 TCGA-EJ-7794 TCGA-EJ-7797 
        1.71         2.30         7.13        17.29         9.34         6.15 
TCGA-EJ-8469 TCGA-EJ-8470 TCGA-EJ-8472 TCGA-FC-7708 TCGA-G9-6333 TCGA-G9-6338 
       63.98        26.99        66.12         1.05        63.29        54.21 
TCGA-G9-6342 TCGA-G9-6343 TCGA-G9-6351 TCGA-G9-6361 TCGA-G9-6366 TCGA-G9-6369 
       43.99        18.21        39.95        33.14         3.32        27.98 
TCGA-G9-6377 TCGA-G9-6499 TCGA-G9-7510 TCGA-G9-7519 TCGA-G9-7521 TCGA-G9-7522 
       17.03        36.46        22.16        15.02        15.98        14.83 
TCGA-G9-7523 TCGA-G9-7525 TCGA-H9-7775 TCGA-HC-7075 TCGA-HC-7077 TCGA-HC-7078 
       10.65        16.83         1.02         2.01        65.98         5.33 
TCGA-HC-7079 TCGA-HC-7080 TCGA-HC-7209 TCGA-HC-7211 TCGA-HC-7212 TCGA-HC-7213 
        2.93         2.01         1.02         0.99         1.02         1.97 
TCGA-HC-7230 TCGA-HC-7231 TCGA-HC-7736 TCGA-HC-7737 TCGA-HC-7740 TCGA-HC-7742 
        1.68         2.37         0.99         2.07         1.74         1.48 
TCGA-HC-7744 TCGA-HC-7747 TCGA-HC-7748 TCGA-HC-7749 TCGA-HC-7750 TCGA-HC-7752 
        1.68         1.87         2.04         2.01         1.12         3.22 
TCGA-HC-7818 TCGA-HC-7821 TCGA-HC-8265 TCGA-HI-7168 TCGA-HI-7169 TCGA-HI-7170 
        1.48         1.84         2.04        65.92        64.08        62.43 
TCGA-HI-7171 TCGA-J4-8198 
       66.02         3.22 

$subtype3
TCGA-CH-5763 TCGA-CH-5788 TCGA-EJ-5494 TCGA-EJ-7793 TCGA-EJ-A46B TCGA-FC-7961 
       12.00        26.96        12.43         1.41         5.33         2.30 
TCGA-G9-6329 TCGA-G9-6353 TCGA-HC-7817 TCGA-HC-A4ZV TCGA-J4-8200 TCGA-J4-A67N 
       30.35        27.85         1.05         0.76         6.44        16.50 

subtype1 subtype2 subtype3 
    0.92     0.30     0.76 
subtype1 subtype2 subtype3 
   65.92    66.12    30.35 
subtype1 subtype2 subtype3 
  23.405    5.950    9.220 
[1] "0.9 - 65.9 (23.4)" "0.3 - 66.1 (6.0)"  "0.8 - 30.4 (9.2)" 
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[163] "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[163] "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
 [43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [97] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
[109] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[127] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[163] "subtype3" "subtype3"
D10V2, continuous
          vv
clus       T2 T3 T4
  subtype1 29 44  4
  subtype2 38 36  0
  subtype3  3  9  0
D10V3, multiclass
D10V4, binary
          cls
clus        0  1
  subtype1 64  9
  subtype2 59  4
  subtype3  7  1
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   64    9
  subtype2   59    4
  subtype3    7    1
   clus
vv  subtype1 subtype2 subtype3
  0       64       59        7
  1        9        4        1
          vv
clus       R0 R1 RX
  subtype1 58 19  1
  subtype2 56  9  2
  subtype3  8  2  0
D10V5, multiclass
D10V6, continuous
> q(save="no")
