
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/10441/13/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/10441/13/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/BLCA-TP/8282807/BLCA-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/BLCA-TP/8142742/BLCA-TP.merged_data.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=.05", "-cQ=0.25", "-MF=ALL", "-oT=BLCA-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=BLCA-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/Append_Data/BLCA-TP/8142742/BLCA-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/BLCA-TP/8282807/BLCA-TP.mergedcluster.txt"

nPatients in clinical file=198, in cluster file=253, common to both=198
[1]  10 198
[1] "CN_CNMF"
[1] 3
 1  2  3  4  5  6  7  8 
10 68 16 12 32 27 19 11 
 1  2  3  4  5  6  7  8 
10 68 16 12 32 27 19 11 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
75 83 40 
 1  2  3 
75 83 40 
[1] "RPPA_CNMF"
[1] 3
 1  2  3  4  5 
36 28 36  5 20 
 1  2  3  4  5 
36 28 36  5 20 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
41 18 23 43 
 1  2  3  4 
41 18 23 43 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3 
84 57 57 
 1  2  3 
84 57 57 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
84 39 75 
 1  2  3 
84 39 75 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3 
48 89 60 
 1  2  3 
48 89 60 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
137  12  48 
  1   2   3 
137  12  48 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
 1  2  3 
40 82 75 
 1  2  3 
40 82 75 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2   3 
 57 104  36 
  1   2   3 
 57 104  36 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "PRIMARYSITEOFDESEASE"                  
 [6] "NEOPLASM.DISEASESTAGE"                 
 [7] "PATHOLOGY.T.STAGE"                     
 [8] "PATHOLOGY.N.STAGE"                     
 [9] "PATHOLOGY.M.STAGE"                     
[10] "DCCUPLOADDATE"                         
[11] "GENDER"                                
[12] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[13] "DAYSTOLASTKNOWNALIVE"                  
[14] "RADIATIONTHERAPY"                      
[15] "KARNOFSKYPERFORMANCESCORE"             
[16] "HISTOLOGICALTYPE"                      
[17] "RADIATIONS.RADIATION.REGIMENINDICATION"
[18] "NUMBERPACKYEARSSMOKED"                 
[19] "NUMBER.OF.LYMPH.NODES"                 
[20] "GLEASON_SCORE"                         
[21] "PSA_VALUE"                             
[22] "DAYS_TO_PSA"                           
[23] "BATCHNUMBER"                           

Input Data has 23 rows and 198 columns.

[1] "Batch" "23"   
[1] "Last Follow UP"
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BL-A5ZZ TCGA-BT-A0S7 
        1219           NA           NA           NA          377           NA 
TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q 
         363           NA           NA           NA           NA           NA 
TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X 
          NA           NA           NA           NA           NA           NA 
TCGA-BT-A2LA TCGA-BT-A2LB TCGA-BT-A2LD TCGA-BT-A3PH TCGA-BT-A3PJ TCGA-BT-A3PK 
         522          170          111           NA          390           63 
TCGA-BT-A42E TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F1 TCGA-C4-A0F6 TCGA-C4-A0F7 
         304           NA           59           89          700           NA 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CF-A3MF TCGA-CF-A3MG TCGA-CF-A3MH 
          14           13           21           NA           NA           NA 
TCGA-CF-A3MI TCGA-CF-A47S TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W TCGA-CF-A47X 
          NA            4            2            3            2            3 
TCGA-CF-A47Y TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
           3           NA           NA          219          166          158 
TCGA-CU-A3YL TCGA-CU-A5W6 TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
         496           NA           77           NA          955          560 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF 
         578          271         3981         3420          491          536 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 
         475           55          322           NA         3767         2656 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS 
          67          121          238           NA          319         1529 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
         648          609           NA          252           NA         4283 
TCGA-DK-A3X1 TCGA-DK-A3X2 TCGA-DK-A6AV TCGA-DK-A6AW TCGA-DK-A6B0 TCGA-DK-A6B1 
        1460           NA         1952         1476         1966         2049 
TCGA-DK-A6B2 TCGA-DK-A6B5 TCGA-DK-A6B6 TCGA-E5-A2PC TCGA-E5-A4TZ TCGA-E5-A4U1 
         477          982          646         1326           NA          796 
TCGA-E7-A3X6 TCGA-E7-A3Y1 TCGA-E7-A4IJ TCGA-E7-A4XJ TCGA-E7-A519 TCGA-E7-A541 
         750            3           15           16           NA           18 
TCGA-E7-A5KE TCGA-E7-A5KF TCGA-E7-A677 TCGA-E7-A678 TCGA-E7-A7DV TCGA-FD-A3B3 
          17           20           42           25           37          392 
TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 
         477           NA          209           NA          378          363 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
         483         1397           NA          683          501          390 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N 
          NA          401           NA           NA           60          699 
TCGA-FD-A43P TCGA-FD-A43S TCGA-FD-A43U TCGA-FD-A43X TCGA-FD-A43Y TCGA-FD-A5BR 
         454          455          454          110          369          407 
TCGA-FD-A5BS TCGA-FD-A5BT TCGA-FD-A5BU TCGA-FD-A5BV TCGA-FD-A5BX TCGA-FD-A5BY 
        1130           NA          209           NA           NA          208 
TCGA-FD-A5BZ TCGA-FD-A5C0 TCGA-FD-A5C1 TCGA-FD-A62N TCGA-FD-A62O TCGA-FD-A62P 
          NA          209         1511           81          147           NA 
TCGA-FD-A62S TCGA-FJ-A3Z7 TCGA-FJ-A3Z9 TCGA-FJ-A3ZE TCGA-FJ-A3ZF TCGA-FT-A3EE 
         194          462          217          106          124           NA 
TCGA-FT-A61P TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL 
         197          679         1884          931          173           NA 
TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM 
        1072          525          214           NA           26           88 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GC-A3WC 
          68          481          137          484          428          540 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GD-A6C6 
          34          235           64           95          638           67 
TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX 
         195          233          344          134          195          187 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QG TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK 
         173          232           NA          237          126          203 
TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-HQ-A2OE TCGA-K4-A3WS 
         195          580           46          205           NA          266 
TCGA-K4-A3WU TCGA-K4-A3WV TCGA-K4-A4AB TCGA-K4-A4AC TCGA-K4-A54R TCGA-K4-A6FZ 
         105          142           76          197          320           55 
TCGA-K4-A6MB TCGA-LC-A66R TCGA-LT-A5Z6 TCGA-MV-A51V TCGA-PQ-A6FI TCGA-PQ-A6FN 
         130          193          105          410          372          507 
Variable 1:'AGE':	nDistinctValues=46,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=57,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=133,	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=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY.T.STAGE':	nDistinctValues=11,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY.N.STAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'PATHOLOGY.M.STAGE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=14,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 13:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 14:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 15:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=8,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 16:'HISTOLOGICAL.TYPE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 17:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 18:'NUMBERPACKYEARSSMOKED':	nDistinctValues=45,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 19:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=13,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 20:'GLEASON_SCORE':	nDistinctValues=4,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 21:'PSA_VALUE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 22:'DAYS_TO_PSA':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 23:'BATCH.NUMBER':	nDistinctValues=21,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                         "NEOPLASM.DISEASESTAGE"      
 [3] "PATHOLOGY.T.STAGE"           "PATHOLOGY.N.STAGE"          
 [5] "PATHOLOGY.M.STAGE"           "GENDER"                     
 [7] "KARNOFSKY.PERFORMANCE.SCORE" "NUMBERPACKYEARSSMOKED"      
 [9] "NUMBER.OF.LYMPH.NODES"       "GLEASON_SCORE"              
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "3"          
[1] "PATHOLOGY.N" "4"          
Output Data has 198 columns, 1 survival variables, and 10 non-survival variables.
AGE, nv=46, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=4, binary=FALSE, numeric=FALSE
PATHOLOGY.T.STAGE, nv=5, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
T0 T1 T2 T3 T4 
 1  1 57 91 29 
[1] "table(vv)"
vv
T0+T1+T2       T3       T4 
      59       91       29 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
T0 T1 T2 T3 T4 
 1  1 57 91 29 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


T0+T1+T2       T3       T4 
      59       91       29 
PATHOLOGY.N.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
 N0  N1  N2  N3 
122  18  34   7 
[1] "table(vv)"
vv
 N0  N1  N2  N3 
122  18  34   7 
$ClinVariableName
[1] "PATHOLOGY.N.STAGE"

$Table
vv
 N0  N1  N2  N3 
122  18  34   7 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


 N0  N1  N2  N3 
122  18  34   7 
PATHOLOGY.M.STAGE, nv=3, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=8, binary=FALSE, numeric=TRUE
NUMBERPACKYEARSSMOKED, nv=45, binary=FALSE, numeric=TRUE
NUMBER.OF.LYMPH.NODES, nv=13, binary=FALSE, numeric=TRUE
GLEASON_SCORE, nv=4, binary=FALSE, numeric=TRUE

Clustering(1) Variable = CN_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1  5  4
  subtype2 48 17
  subtype3  9  7
  subtype4  6  6
  subtype5 27  4
  subtype6 19  8
  subtype7  9  8
  subtype8  9  2
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
       9       65       16       12       31       27       17       11 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
       4       17        7        6        4        8        8        2 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-CU-A0YR TCGA-DK-A1A6 TCGA-DK-A2I1 TCGA-FD-A62P 
       40.08         2.66         7.20        31.40        10.59         6.28 
TCGA-G2-A3IE TCGA-GU-A42R TCGA-GV-A3QH 
       20.12        11.31         7.79 

$subtype2
TCGA-BL-A13I TCGA-BL-A5ZZ TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20O TCGA-BT-A20P 
        7.33        12.39         6.58        11.93        12.16        17.88 
TCGA-BT-A20Q TCGA-BT-A20U TCGA-BT-A20X TCGA-BT-A3PK TCGA-CF-A1HR TCGA-CF-A27C 
       19.50        14.96         8.25         2.07         0.46         0.69 
TCGA-CF-A47S TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W TCGA-CF-A47X TCGA-CF-A47Y 
        0.13         0.07         0.10         0.07         0.10         0.10 
TCGA-CU-A0YO TCGA-CU-A3YL TCGA-DK-A1AA TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG 
        4.90        16.31        19.00        16.14        17.62        15.62 
TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
       10.49        21.30        20.02         8.28        10.55       140.81 
TCGA-DK-A6AW TCGA-DK-A6B0 TCGA-E7-A3Y1 TCGA-E7-A4XJ TCGA-E7-A5KF TCGA-E7-A677 
       48.53        64.64         0.10         0.53         0.66         1.38 
TCGA-E7-A678 TCGA-FD-A3B4 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3SM 
        0.82        15.68         4.01        12.43        15.88        16.47 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A43S TCGA-FD-A43U TCGA-FD-A43X 
        5.52        13.18        46.78        14.96        14.93         3.62 
TCGA-FD-A5BS TCGA-FD-A5BU TCGA-FD-A5BX TCGA-FJ-A3Z9 TCGA-FJ-A3ZE TCGA-G2-A2EJ 
       37.15         6.87         5.69         7.13         3.48        30.61 
TCGA-G2-A2EK TCGA-G2-A2EO TCGA-GC-A3OO TCGA-GC-A3WC TCGA-GD-A3OQ TCGA-GU-A42Q 
        5.69        35.24        15.81        17.75         3.12         7.66 
TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A4AB TCGA-PQ-A6FN 
        1.51         8.75         3.45         2.50        16.67 

$subtype3
TCGA-BL-A3JM TCGA-BT-A3PH TCGA-DK-A2I2 TCGA-DK-A3IS TCGA-DK-A3X2 TCGA-DK-A6B6 
        6.74         4.67         7.79        50.27        17.98        21.24 
TCGA-E5-A2PC TCGA-FD-A3NA TCGA-FD-A3SS TCGA-FD-A62O TCGA-G2-A2ES TCGA-GC-A3BM 
       43.59        45.93         1.97         4.83        17.26         2.89 
TCGA-GC-A3I6 TCGA-GV-A3JV TCGA-GV-A3QI TCGA-PQ-A6FI 
        2.24         4.41         4.14        12.23 

$subtype4
TCGA-BT-A20J TCGA-BT-A20T TCGA-BT-A20V TCGA-C4-A0EZ TCGA-DK-A1A5 TCGA-DK-A1A7 
       19.04        14.89         5.06         8.98         2.14        18.41 
TCGA-DK-A3IL TCGA-DK-A3X1 TCGA-DK-A6B2 TCGA-DK-A6B5 TCGA-E5-A4U1 TCGA-GD-A2C5 
        3.98        48.00        15.68        32.28        26.17         7.73 

$subtype5
TCGA-BT-A20N TCGA-BT-A42E TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HS TCGA-CU-A3KJ 
       32.84         9.99         1.94        23.01         0.43         5.46 
TCGA-DK-A1AB TCGA-DK-A3IK TCGA-DK-A3IM TCGA-DK-A3IV TCGA-DK-A6AV TCGA-E7-A3X6 
        8.91         2.20         7.82         9.67        64.18        24.66 
TCGA-E7-A541 TCGA-E7-A5KE TCGA-FD-A3SN TCGA-FD-A43Y TCGA-FD-A5BR TCGA-FD-A5BV 
        0.59         0.56        12.82        12.13        13.38         5.36 
TCGA-FD-A5BY TCGA-FD-A5BZ TCGA-FD-A5C1 TCGA-FD-A62S TCGA-G2-A3IB TCGA-GC-A3RC 
        6.84        27.45        49.68         6.38         7.04        15.91 
TCGA-GC-A3RD TCGA-GC-A3YS TCGA-GD-A3OS TCGA-GD-A6C6 TCGA-GV-A3JW TCGA-H4-A2HQ 
       14.07         1.12        20.98         2.20         6.41         6.74 
TCGA-K4-A3WV 
        4.67 

$subtype6
TCGA-BT-A20R TCGA-BT-A20W TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PJ TCGA-CU-A0YN 
        5.06         8.35        17.16         3.65        12.82        12.92 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A6B1 TCGA-E5-A4TZ TCGA-E7-A4IJ TCGA-E7-A7DV 
      130.88       112.44        67.36        15.35         0.49         1.22 
TCGA-FD-A3B3 TCGA-FD-A3N5 TCGA-FD-A3SJ TCGA-FD-A43N TCGA-FD-A43P TCGA-FJ-A3Z7 
       12.89        11.93        24.30        22.98        14.93        15.19 
TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-G2-A3VY TCGA-GC-A3RB TCGA-GV-A3JZ TCGA-GV-A40E 
        4.08        61.94         0.85         4.50         5.69         6.41 
TCGA-K4-A4AC TCGA-K4-A6MB TCGA-LC-A66R 
        6.48         4.27         6.35 

$subtype7
TCGA-BT-A2LB TCGA-CU-A3QU TCGA-CU-A5W6 TCGA-DK-A1A3 TCGA-DK-A2HX TCGA-DK-A2I6 
        5.59         5.19         1.84         2.53         1.81        87.32 
TCGA-DK-A3IN TCGA-FD-A3B5 TCGA-FD-A3SR TCGA-FD-A5C0 TCGA-FT-A3EE TCGA-FT-A61P 
        8.22         8.94        19.79         6.87         3.25         6.48 
TCGA-GU-A42P TCGA-GV-A3QF TCGA-GV-A3QK TCGA-GV-A40G TCGA-MV-A51V 
        6.41         7.63         6.67        19.07        13.48 

$subtype8
TCGA-DK-A2I4 TCGA-FD-A3B6 TCGA-FD-A3SL TCGA-FD-A5BT TCGA-FD-A62N TCGA-G2-A2EL 
      123.85         6.87        22.45        11.01         2.66        26.93 
TCGA-GD-A3OP TCGA-GV-A3JX TCGA-K4-A54R TCGA-K4-A6FZ TCGA-LT-A5Z6 
        2.10         6.15        10.52         1.81         3.45 

subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
    2.66     0.07     1.97     2.14     0.43     0.49     1.81     1.81 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
   40.08   140.81    50.27    48.00    64.18   130.88    87.32   123.85 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
  10.590    8.750    7.265   15.285    7.820   11.930    6.670    6.870 
[1] "2.7 - 40.1 (10.6)"  "0.1 - 140.8 (8.8)"  "2.0 - 50.3 (7.3)"  
[4] "2.1 - 48.0 (15.3)"  "0.4 - 64.2 (7.8)"   "0.5 - 130.9 (11.9)"
[7] "1.8 - 87.3 (6.7)"   "1.8 - 123.8 (6.9)" 
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
  [7] "subtype2" "subtype4" "subtype5" "subtype2" "subtype2" "subtype2"
 [13] "subtype6" "subtype4" "subtype2" "subtype4" "subtype6" "subtype2"
 [19] "subtype6" "subtype7" "subtype6" "subtype3" "subtype6" "subtype2"
 [25] "subtype5" "subtype4" "subtype5" "subtype5" "subtype2" "subtype5"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype6" "subtype2" "subtype1" "subtype5" "subtype7"
 [43] "subtype2" "subtype7" "subtype7" "subtype4" "subtype1" "subtype4"
 [49] "subtype2" "subtype5" "subtype6" "subtype6" "subtype2" "subtype2"
 [55] "subtype2" "subtype7" "subtype1" "subtype3" "subtype8" "subtype7"
 [61] "subtype5" "subtype4" "subtype5" "subtype7" "subtype2" "subtype3"
 [67] "subtype2" "subtype2" "subtype5" "subtype2" "subtype2" "subtype2"
 [73] "subtype4" "subtype3" "subtype5" "subtype2" "subtype2" "subtype6"
 [79] "subtype4" "subtype4" "subtype3" "subtype3" "subtype6" "subtype4"
 [85] "subtype5" "subtype2" "subtype6" "subtype2" "subtype5" "subtype5"
 [91] "subtype2" "subtype2" "subtype2" "subtype6" "subtype6" "subtype2"
 [97] "subtype7" "subtype8" "subtype2" "subtype2" "subtype6" "subtype2"
[103] "subtype3" "subtype6" "subtype8" "subtype2" "subtype5" "subtype2"
[109] "subtype2" "subtype2" "subtype7" "subtype3" "subtype6" "subtype6"
[115] "subtype2" "subtype2" "subtype2" "subtype5" "subtype5" "subtype2"
[121] "subtype8" "subtype2" "subtype5" "subtype2" "subtype5" "subtype5"
[127] "subtype7" "subtype5" "subtype8" "subtype3" "subtype1" "subtype5"
[133] "subtype6" "subtype2" "subtype2" "subtype6" "subtype7" "subtype7"
[139] "subtype6" "subtype2" "subtype2" "subtype8" "subtype2" "subtype3"
[145] "subtype5" "subtype1" "subtype6" "subtype3" "subtype3" "subtype2"
[151] "subtype6" "subtype5" "subtype5" "subtype2" "subtype5" "subtype4"
[157] "subtype8" "subtype2" "subtype5" "subtype5" "subtype7" "subtype2"
[163] "subtype1" "subtype3" "subtype5" "subtype8" "subtype6" "subtype7"
[169] "subtype1" "subtype3" "subtype7" "subtype6" "subtype7" "subtype2"
[175] "subtype5" "subtype2" "subtype2" "subtype5" "subtype2" "subtype6"
[181] "subtype8" "subtype8" "subtype6" "subtype6" "subtype8" "subtype7"
[187] "subtype3" "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
  [7] "subtype2" "subtype4" "subtype5" "subtype2" "subtype2" "subtype2"
 [13] "subtype6" "subtype4" "subtype2" "subtype4" "subtype6" "subtype2"
 [19] "subtype6" "subtype7" "subtype6" "subtype3" "subtype6" "subtype2"
 [25] "subtype5" "subtype4" "subtype5" "subtype5" "subtype2" "subtype5"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype6" "subtype2" "subtype1" "subtype5" "subtype7"
 [43] "subtype2" "subtype7" "subtype7" "subtype4" "subtype1" "subtype4"
 [49] "subtype2" "subtype5" "subtype6" "subtype6" "subtype2" "subtype2"
 [55] "subtype2" "subtype7" "subtype1" "subtype3" "subtype8" "subtype7"
 [61] "subtype5" "subtype4" "subtype5" "subtype7" "subtype2" "subtype3"
 [67] "subtype2" "subtype2" "subtype5" "subtype2" "subtype2" "subtype2"
 [73] "subtype4" "subtype3" "subtype5" "subtype2" "subtype2" "subtype6"
 [79] "subtype4" "subtype4" "subtype3" "subtype3" "subtype6" "subtype4"
 [85] "subtype5" "subtype2" "subtype6" "subtype2" "subtype5" "subtype5"
 [91] "subtype2" "subtype2" "subtype2" "subtype6" "subtype6" "subtype2"
 [97] "subtype7" "subtype8" "subtype2" "subtype2" "subtype6" "subtype2"
[103] "subtype3" "subtype6" "subtype8" "subtype2" "subtype5" "subtype2"
[109] "subtype2" "subtype2" "subtype7" "subtype3" "subtype6" "subtype6"
[115] "subtype2" "subtype2" "subtype2" "subtype5" "subtype5" "subtype2"
[121] "subtype8" "subtype2" "subtype5" "subtype2" "subtype5" "subtype5"
[127] "subtype7" "subtype5" "subtype8" "subtype3" "subtype1" "subtype5"
[133] "subtype6" "subtype2" "subtype2" "subtype6" "subtype7" "subtype7"
[139] "subtype6" "subtype2" "subtype2" "subtype8" "subtype2" "subtype3"
[145] "subtype5" "subtype1" "subtype6" "subtype3" "subtype3" "subtype2"
[151] "subtype6" "subtype5" "subtype5" "subtype2" "subtype5" "subtype4"
[157] "subtype8" "subtype2" "subtype5" "subtype5" "subtype7" "subtype2"
[163] "subtype1" "subtype3" "subtype5" "subtype8" "subtype6" "subtype7"
[169] "subtype1" "subtype3" "subtype7" "subtype6" "subtype7" "subtype2"
[175] "subtype5" "subtype2" "subtype2" "subtype5" "subtype2" "subtype6"
[181] "subtype8" "subtype8" "subtype6" "subtype6" "subtype8" "subtype7"
[187] "subtype3" "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype2"
  [7] "subtype2" "subtype4" "subtype5" "subtype2" "subtype2" "subtype2"
 [13] "subtype6" "subtype4" "subtype2" "subtype4" "subtype6" "subtype2"
 [19] "subtype6" "subtype7" "subtype6" "subtype3" "subtype6" "subtype2"
 [25] "subtype5" "subtype4" "subtype5" "subtype5" "subtype2" "subtype5"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype6" "subtype2" "subtype1" "subtype5" "subtype7"
 [43] "subtype2" "subtype7" "subtype7" "subtype4" "subtype1" "subtype4"
 [49] "subtype2" "subtype5" "subtype6" "subtype6" "subtype2" "subtype2"
 [55] "subtype2" "subtype7" "subtype1" "subtype3" "subtype8" "subtype7"
 [61] "subtype5" "subtype4" "subtype5" "subtype7" "subtype2" "subtype3"
 [67] "subtype2" "subtype2" "subtype5" "subtype2" "subtype2" "subtype2"
 [73] "subtype4" "subtype3" "subtype5" "subtype2" "subtype2" "subtype6"
 [79] "subtype4" "subtype4" "subtype3" "subtype3" "subtype6" "subtype4"
 [85] "subtype5" "subtype2" "subtype6" "subtype2" "subtype5" "subtype5"
 [91] "subtype2" "subtype2" "subtype2" "subtype6" "subtype6" "subtype2"
 [97] "subtype7" "subtype8" "subtype2" "subtype2" "subtype6" "subtype2"
[103] "subtype3" "subtype6" "subtype8" "subtype2" "subtype5" "subtype2"
[109] "subtype2" "subtype2" "subtype7" "subtype3" "subtype6" "subtype6"
[115] "subtype2" "subtype2" "subtype2" "subtype5" "subtype5" "subtype2"
[121] "subtype8" "subtype2" "subtype5" "subtype2" "subtype5" "subtype5"
[127] "subtype7" "subtype5" "subtype8" "subtype3" "subtype1" "subtype5"
[133] "subtype6" "subtype2" "subtype2" "subtype6" "subtype7" "subtype7"
[139] "subtype6" "subtype2" "subtype2" "subtype8" "subtype2" "subtype3"
[145] "subtype5" "subtype1" "subtype6" "subtype3" "subtype3" "subtype2"
[151] "subtype6" "subtype5" "subtype5" "subtype2" "subtype5" "subtype4"
[157] "subtype8" "subtype2" "subtype5" "subtype5" "subtype7" "subtype2"
[163] "subtype1" "subtype3" "subtype5" "subtype8" "subtype6" "subtype7"
[169] "subtype1" "subtype3" "subtype7" "subtype6" "subtype7" "subtype2"
[175] "subtype5" "subtype2" "subtype2" "subtype5" "subtype2" "subtype6"
[181] "subtype8" "subtype8" "subtype6" "subtype6" "subtype8" "subtype7"
[187] "subtype3" "subtype2"
D1V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        5         0        3
  subtype2       1       23        30       12
  subtype3       0        6         4        6
  subtype4       0        3         1        8
  subtype5       0       13        12        6
  subtype6       0        9         8       10
  subtype7       0        2         6       11
  subtype8       0        4         5        2
D1V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1        6  0  1
  subtype2       21 33 10
  subtype3        5  9  1
  subtype4        3  7  2
  subtype5       10 16  2
  subtype6        7 11  5
  subtype7        5  9  5
  subtype8        2  5  2
D1V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1  2  1  3  0
  subtype2 55  3  7  2
  subtype3  8  2  3  2
  subtype4  4  3  5  0
  subtype5 22  2  1  0
  subtype6 13  3  5  3
  subtype7  8  4  7  0
  subtype8  8  0  2  0
D1V5, multiclass
          vv
clus       M0 M1 MX
  subtype1  5  0  5
  subtype2 40  2 26
  subtype3  7  0  9
  subtype4  9  1  2
  subtype5 15  1 16
  subtype6 13  0 13
  subtype7 12  0  7
  subtype8  2  1  8
D1V6, multiclass
D1V7, binary
          cls
clus        0  1
  subtype1  1  9
  subtype2 16 52
  subtype3  2 14
  subtype4  6  6
  subtype5 14 18
  subtype6  3 24
  subtype7  4 15
  subtype8  2  9
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1    9
  subtype2   16   52
  subtype3    2   14
  subtype4    6    6
  subtype5   14   18
  subtype6    3   24
  subtype7    4   15
  subtype8    2    9
D1V8, continuous
[1] "Remove cluster labels:" "subtype1"               "subtype8"              
clus
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
       2       14        8        3       11        6        8        2 
 [1] "subtype5" "subtype2" "subtype7" "subtype5" "subtype2" "subtype7"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[13] "subtype7" "subtype7" "subtype5" "subtype2" "subtype3" "subtype4"
[19] "subtype4" "subtype3" "subtype3" "subtype6" "subtype4" "subtype2"
[25] "subtype5" "subtype6" "subtype7" "subtype6" "subtype2" "subtype2"
[31] "subtype2" "subtype3" "subtype5" "subtype6" "subtype3" "subtype3"
[37] "subtype2" "subtype5" "subtype5" "subtype5" "subtype5" "subtype5"
[43] "subtype3" "subtype5" "subtype6" "subtype7" "subtype3" "subtype7"
[49] "subtype6" "subtype7"
D1V9, continuous
D1V10, continuous
D1V11, continuous
[1] "Remove cluster labels:" "subtype1"               "subtype4"              
[4] "subtype8"              
clus
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 subtype7 subtype8 
       2       13        4        1        7        7        6        2 
 [1] "subtype5" "subtype6" "subtype6" "subtype6" "subtype2" "subtype5"
 [7] "subtype2" "subtype6" "subtype7" "subtype7" "subtype3" "subtype2"
[13] "subtype2" "subtype2" "subtype3" "subtype5" "subtype2" "subtype3"
[19] "subtype5" "subtype2" "subtype7" "subtype6" "subtype5" "subtype5"
[25] "subtype2" "subtype2" "subtype7" "subtype3" "subtype6" "subtype5"
[31] "subtype7" "subtype7" "subtype2" "subtype2" "subtype2" "subtype2"
[37] "subtype6"

Clustering(2) Variable = METHLYATION_CNMF
D2V1, survival
          sevent
clus2       0  1
  subtype1 50 21
  subtype2 56 26
  subtype3 27 11
subtype1 subtype2 subtype3 
      71       82       38 
subtype1 subtype2 subtype3 
      21       26       11 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A20W TCGA-BT-A2LB TCGA-BT-A3PH 
       40.08         6.74        32.84         8.35         5.59         4.67 
TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A27C TCGA-CF-A47T TCGA-CF-A47X TCGA-CU-A3QU 
        8.98        23.01         0.69         0.07         0.10         5.19 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE 
        2.14        31.40        19.00       130.88       112.44        16.14 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IS TCGA-DK-A3X2 TCGA-DK-A6AV TCGA-DK-A6AW 
        2.20         3.98        50.27        17.98        64.18        48.53 
TCGA-DK-A6B1 TCGA-DK-A6B6 TCGA-E5-A2PC TCGA-E5-A4TZ TCGA-E5-A4U1 TCGA-E7-A4IJ 
       67.36        21.24        43.59        15.35        26.17         0.49 
TCGA-E7-A4XJ TCGA-E7-A541 TCGA-E7-A5KE TCGA-E7-A677 TCGA-FD-A3N5 TCGA-FD-A3SN 
        0.53         0.59         0.56         1.38        11.93        12.82 
TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43X TCGA-FD-A5BV TCGA-FD-A5BZ 
       19.79         1.97        22.98         3.62         5.36        27.45 
TCGA-FD-A62O TCGA-FJ-A3Z7 TCGA-FJ-A3Z9 TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EO 
        4.83        15.19         7.13         4.08         3.25        35.24 
TCGA-G2-A3IB TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
        7.04         0.85         2.89         4.50        15.91        14.07 
TCGA-GD-A2C5 TCGA-GD-A3OQ TCGA-GD-A6C6 TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3JX 
        7.73         3.12         2.20         6.41         4.41         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40G 
        5.69         7.63         7.79         4.14         6.67        19.07 
TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A6MB TCGA-LT-A5Z6 TCGA-MV-A51V 
        1.51         6.74         4.27         3.45        13.48 

$subtype2
TCGA-BL-A13I TCGA-BL-A5ZZ TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20O 
        7.33        12.39         6.58        11.93        19.04        12.16 
TCGA-BT-A20R TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
        5.06        14.96         5.06         8.25        17.16         3.65 
TCGA-BT-A3PJ TCGA-BT-A3PK TCGA-BT-A42E TCGA-C4-A0F0 TCGA-C4-A0F1 TCGA-CF-A1HS 
       12.82         2.07         9.99         1.94         2.93         0.43 
TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-DK-A1A3 TCGA-DK-A1AF TCGA-DK-A2I1 TCGA-DK-A2I2 
       12.92         5.46         2.53        17.62        10.59         7.79 
TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IT 
      123.85        87.32         7.82         8.22        10.49        21.30 
TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-DK-A3X1 TCGA-DK-A6B2 
       20.02         8.28        10.55       140.81        48.00        15.68 
TCGA-DK-A6B5 TCGA-E7-A3X6 TCGA-E7-A7DV TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       32.28        24.66         1.22        12.89        15.68         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ 
        6.87         4.01        12.43        15.88        45.93        24.30 
TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A43S TCGA-FD-A43U TCGA-FD-A43Y 
       16.47         5.52        13.18        14.96        14.93        12.13 
TCGA-FD-A5BS TCGA-FD-A5BT TCGA-FD-A5BU TCGA-FD-A5BX TCGA-FD-A5C1 TCGA-FD-A62N 
       37.15        11.01         6.87         5.69        49.68         2.66 
TCGA-FD-A62P TCGA-FD-A62S TCGA-FT-A61P TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        6.28         6.38         6.48        61.94        30.61         5.69 
TCGA-G2-A2EL TCGA-G2-A2ES TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OS TCGA-GU-A42Q 
       26.93        17.26        17.75         1.12        20.98         7.66 
TCGA-GV-A40E TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV TCGA-K4-A4AB TCGA-K4-A4AC 
        6.41         8.75         3.45         4.67         2.50         6.48 
TCGA-K4-A6FZ TCGA-LC-A66R TCGA-PQ-A6FI TCGA-PQ-A6FN 
        1.81         6.35        12.23        16.67 

$subtype3
TCGA-BL-A13J TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20T TCGA-C4-A0F7 TCGA-CF-A1HR 
        2.66        17.88        19.50        14.89         2.04         0.46 
TCGA-CF-A47S TCGA-CF-A47V TCGA-CF-A47W TCGA-CF-A47Y TCGA-CU-A0YO TCGA-CU-A0YR 
        0.13         0.10         0.07         0.10         4.90         7.20 
TCGA-CU-A3YL TCGA-CU-A5W6 TCGA-DK-A1A7 TCGA-DK-A1AB TCGA-DK-A1AG TCGA-DK-A2HX 
       16.31         1.84        18.41         8.91        15.62         1.81 
TCGA-DK-A3IV TCGA-DK-A6B0 TCGA-E7-A3Y1 TCGA-E7-A5KF TCGA-E7-A678 TCGA-FD-A3SL 
        9.67        64.64         0.10         0.66         0.82        22.45 
TCGA-FD-A3SQ TCGA-FD-A43P TCGA-FD-A5BR TCGA-FD-A5BY TCGA-FD-A5C0 TCGA-FJ-A3ZE 
       46.78        14.93        13.38         6.84         6.87         3.48 
TCGA-G2-A2EC TCGA-G2-A3IE TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GD-A3OP TCGA-GU-A42R 
       22.32        20.12         2.24        15.81         2.10        11.31 
TCGA-GV-A3JW TCGA-K4-A54R 
        6.41        10.52 

subtype1 subtype2 subtype3 
    0.07     0.43     0.07 
subtype1 subtype2 subtype3 
  130.88   140.81    64.64 
subtype1 subtype2 subtype3 
   6.740   10.570    7.035 
[1] "0.1 - 130.9 (6.7)"  "0.4 - 140.8 (10.6)" "0.1 - 64.6 (7.0)"  
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [13] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [49] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [55] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [61] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[115] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[139] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[157] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[163] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[169] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[175] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [13] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [49] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [55] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [61] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[115] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[139] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[157] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[163] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[169] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[175] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [13] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [49] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
 [55] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [61] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[115] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[127] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[139] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[157] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
[163] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[169] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[175] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
D2V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       2       26        21       24
  subtype2       0       22        39       21
  subtype3       0       18         7       14
D2V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       27 32  9
  subtype2       18 46 13
  subtype3       14 13  7
D2V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 43  9 13  2
  subtype2 58  8 10  4
  subtype3 21  1 11  1
D2V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 40  2 32
  subtype2 39  1 43
  subtype3 27  2 11
D2V6, multiclass
D2V7, binary
          cls
clus        0  1
  subtype1 15 60
  subtype2 27 56
  subtype3  7 33
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15   60
  subtype2   27   56
  subtype3    7   33
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       15       27        7
  MALE         60       56       33
D2V8, continuous
D2V9, continuous
D2V10, continuous
D2V11, continuous

Clustering(3) Variable = RPPA_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1 25  6
  subtype2 16 11
  subtype3 19 17
  subtype4  2  3
  subtype5 10 10
subtype1 subtype2 subtype3 subtype4 subtype5 
      31       27       36        5       20 
subtype1 subtype2 subtype3 subtype4 subtype5 
       6       11       17        3       10 
$subtype1
TCGA-BL-A0C8 TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A3PH TCGA-C4-A0F6 TCGA-CF-A1HR 
       40.08        17.88        19.50         4.67        23.01         0.46 
TCGA-CF-A27C TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1AA TCGA-DK-A1AC 
        0.69         5.19        16.31         2.53        19.00       130.88 
TCGA-DK-A1AD TCGA-DK-A1AG TCGA-DK-A2I1 TCGA-DK-A3IL TCGA-DK-A3X2 TCGA-E7-A3Y1 
      112.44        15.62        10.59         3.98        17.98         0.10 
TCGA-FD-A3NA TCGA-FJ-A3ZE TCGA-FJ-A3ZF TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GD-A2C5 
       45.93         3.48         4.08         0.85         2.89         7.73 
TCGA-GU-A42R TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40G TCGA-H4-A2HO 
       11.31         5.69         7.79         6.67        19.07         1.51 
TCGA-H4-A2HQ 
        6.74 

$subtype2
TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A20R TCGA-BT-A20W TCGA-C4-A0F0 TCGA-DK-A1AB 
        7.33         6.58         5.06         8.35         1.94         8.91 
TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A3IK TCGA-DK-A3IT TCGA-DK-A3WY TCGA-FD-A3B3 
       17.62         1.81         2.20        21.30       140.81        12.89 
TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3SJ TCGA-FD-A3SL 
       15.68         6.87         4.01        12.43        24.30        22.45 
TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-GD-A3OP 
       16.47         5.52        46.78        19.79         1.97         2.10 
TCGA-GV-A3JV TCGA-K4-A3WU TCGA-K4-A3WV 
        4.41         3.45         4.67 

$subtype3
TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20T 
        2.66         6.74        19.04        32.84        12.16        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A3PJ TCGA-C4-A0F1 
       14.96         5.06         8.25        17.16        12.82         2.93 
TCGA-C4-A0F7 TCGA-CF-A1HS TCGA-CU-A3KJ TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AE 
        2.04         0.43         5.46         2.14        31.40        16.14 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A3IN TCGA-DK-A3IU TCGA-DK-A3X1 TCGA-E5-A2PC 
        7.79       123.85         8.22        20.02        48.00        43.59 
TCGA-E7-A3X6 TCGA-FD-A3B5 TCGA-FD-A3N5 TCGA-FD-A3SN TCGA-G2-A2EJ TCGA-G2-A2EO 
       24.66         8.94        11.93        12.82        30.61        35.24 
TCGA-G2-A2ES TCGA-GC-A3I6 TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GV-A3QI TCGA-GV-A40E 
       17.26         2.24        17.75         1.12         4.14         6.41 

$subtype4
TCGA-BT-A0YX TCGA-BT-A2LB TCGA-DK-A3IQ TCGA-G2-A2EK TCGA-GD-A3OQ 
       11.93         5.59        10.49         5.69         3.12 

$subtype5
TCGA-BT-A2LD TCGA-BT-A3PK TCGA-C4-A0EZ TCGA-CU-A0YN TCGA-DK-A3IM TCGA-DK-A3IV 
        3.65         2.07         8.98        12.92         7.82         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-FD-A3N6 TCGA-FD-A3SP TCGA-FJ-A3Z7 TCGA-G2-A2EC 
        8.28        10.55        15.88        13.18        15.19        22.32 
TCGA-G2-A2EF TCGA-G2-A2EL TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GD-A3OS TCGA-GV-A3JW 
       61.94        26.93         7.04        20.12        20.98         6.41 
TCGA-GV-A3QF TCGA-K4-A3WS 
        7.63         8.75 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.10     1.81     0.43     3.12     2.07 
subtype1 subtype2 subtype3 subtype4 subtype5 
  130.88   140.81   123.85    11.93    61.94 
subtype1 subtype2 subtype3 subtype4 subtype5 
    7.73     7.33    12.49     5.69    10.11 
[1] "0.1 - 130.9 (7.7)"  "1.8 - 140.8 (7.3)"  "0.4 - 123.8 (12.5)"
[4] "3.1 - 11.9 (5.7)"   "2.1 - 61.9 (10.1)" 
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype4"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [19] "subtype4" "subtype5" "subtype1" "subtype3" "subtype5" "subtype5"
 [25] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
 [31] "subtype1" "subtype5" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [49] "subtype3" "subtype2" "subtype1" "subtype5" "subtype3" "subtype4"
 [55] "subtype2" "subtype3" "subtype5" "subtype5" "subtype5" "subtype2"
 [61] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [67] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [73] "subtype5" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype5" "subtype2" "subtype2" "subtype2" "subtype5"
 [85] "subtype1" "subtype1" "subtype5" "subtype5" "subtype3" "subtype4"
 [91] "subtype5" "subtype3" "subtype3" "subtype5" "subtype5" "subtype1"
 [97] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[103] "subtype4" "subtype5" "subtype1" "subtype2" "subtype5" "subtype1"
[109] "subtype5" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[115] "subtype1" "subtype1" "subtype5" "subtype2" "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype4"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [19] "subtype4" "subtype5" "subtype1" "subtype3" "subtype5" "subtype5"
 [25] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
 [31] "subtype1" "subtype5" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [49] "subtype3" "subtype2" "subtype1" "subtype5" "subtype3" "subtype4"
 [55] "subtype2" "subtype3" "subtype5" "subtype5" "subtype5" "subtype2"
 [61] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [67] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [73] "subtype5" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype5" "subtype2" "subtype2" "subtype2" "subtype5"
 [85] "subtype1" "subtype1" "subtype5" "subtype5" "subtype3" "subtype4"
 [91] "subtype5" "subtype3" "subtype3" "subtype5" "subtype5" "subtype1"
 [97] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[103] "subtype4" "subtype5" "subtype1" "subtype2" "subtype5" "subtype1"
[109] "subtype5" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[115] "subtype1" "subtype1" "subtype5" "subtype2" "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype4"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [19] "subtype4" "subtype5" "subtype1" "subtype3" "subtype5" "subtype5"
 [25] "subtype2" "subtype3" "subtype1" "subtype3" "subtype1" "subtype3"
 [31] "subtype1" "subtype5" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [49] "subtype3" "subtype2" "subtype1" "subtype5" "subtype3" "subtype4"
 [55] "subtype2" "subtype3" "subtype5" "subtype5" "subtype5" "subtype2"
 [61] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
 [67] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [73] "subtype5" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype5" "subtype2" "subtype2" "subtype2" "subtype5"
 [85] "subtype1" "subtype1" "subtype5" "subtype5" "subtype3" "subtype4"
 [91] "subtype5" "subtype3" "subtype3" "subtype5" "subtype5" "subtype1"
 [97] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
[103] "subtype4" "subtype5" "subtype1" "subtype2" "subtype5" "subtype1"
[109] "subtype5" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
[115] "subtype1" "subtype1" "subtype5" "subtype2" "subtype2"
D3V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1       11         9       12
  subtype2       0        5         8       15
  subtype3       0        8        16       11
  subtype4       0        1         3        1
  subtype5       0       10         6        4
D3V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       10 15  4
  subtype2        6 14  8
  subtype3        8 21  5
  subtype4        0  3  1
  subtype5        3  9  1
D3V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 19  1  9  2
  subtype2 13  3  9  2
  subtype3 23  5  4  2
  subtype4  4  1  0  0
  subtype5 11  2  2  0
D3V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 24  2  9
  subtype2 10  2 16
  subtype3 25  0 11
  subtype4  4  0  1
  subtype5  9  1 10
D3V6, multiclass
D3V7, binary
          cls
clus        0  1
  subtype1  7 29
  subtype2 10 18
  subtype3  8 28
  subtype4  2  3
  subtype5  6 14
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7   29
  subtype2   10   18
  subtype3    8   28
  subtype4    2    3
  subtype5    6   14
D3V8, continuous
[1] "Remove cluster labels:" "subtype2"               "subtype4"              
clus
subtype1 subtype2 subtype3 subtype4 subtype5 
      12        2       10        1       10 
 [1] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [7] "subtype3" "subtype5" "subtype5" "subtype1" "subtype3" "subtype5"
[13] "subtype5" "subtype3" "subtype5" "subtype3" "subtype3" "subtype5"
[19] "subtype5" "subtype1" "subtype1" "subtype3" "subtype3" "subtype5"
[25] "subtype5" "subtype1" "subtype5" "subtype1" "subtype3" "subtype1"
[31] "subtype3" "subtype1"
D3V9, continuous
[1] "Remove cluster labels:" "subtype4"              
clus
subtype1 subtype2 subtype3 subtype4 subtype5 
      23       17       22        2       13 
 [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [7] "subtype3" "subtype5" "subtype2" "subtype3" "subtype1" "subtype1"
[13] "subtype1" "subtype5" "subtype3" "subtype1" "subtype1" "subtype1"
[19] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
[25] "subtype1" "subtype5" "subtype3" "subtype3" "subtype5" "subtype5"
[31] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[37] "subtype2" "subtype2" "subtype3" "subtype5" "subtype1" "subtype2"
[43] "subtype2" "subtype3" "subtype2" "subtype5" "subtype2" "subtype2"
[49] "subtype2" "subtype1" "subtype1" "subtype5" "subtype3" "subtype5"
[55] "subtype3" "subtype5" "subtype1" "subtype3" "subtype3" "subtype1"
[61] "subtype5" "subtype1" "subtype2" "subtype1" "subtype5" "subtype2"
[67] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[73] "subtype1" "subtype5" "subtype2"
D3V10, continuous
D3V11, continuous

Clustering(4) Variable = RPPA_CHIERARCHICAL
D4V1, survival
          sevent
clus2       0  1
  subtype1 28  8
  subtype2 11  7
  subtype3 11 12
  subtype4 22 20
subtype1 subtype2 subtype3 subtype4 
      36       18       23       42 
subtype1 subtype2 subtype3 subtype4 
       8        7       12       20 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20P TCGA-BT-A20Q TCGA-C4-A0F1 
       40.08         2.66        11.93        17.88        19.50         2.93 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 
       23.01         0.46         0.69         5.19        16.31         2.53 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AD TCGA-DK-A1AG TCGA-DK-A2I1 
        2.14        31.40        19.00       112.44        15.62        10.59 
TCGA-DK-A3X1 TCGA-E7-A3X6 TCGA-E7-A3Y1 TCGA-FD-A3B5 TCGA-FD-A3NA TCGA-FD-A3SM 
       48.00        24.66         0.10         8.94        45.93        16.47 
TCGA-FJ-A3ZF TCGA-G2-A2EO TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GD-A3OQ 
        4.08        35.24        20.12         0.85         2.89         3.12 
TCGA-GU-A42R TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40G TCGA-H4-A2HO 
       11.31         5.69         7.79         6.67        19.07         1.51 

$subtype2
TCGA-BT-A3PK TCGA-CU-A0YN TCGA-DK-A3IM TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX 
        2.07        12.92         7.82         9.67         8.28        10.55 
TCGA-FD-A3SP TCGA-FJ-A3Z7 TCGA-FJ-A3ZE TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EJ 
       13.18        15.19         3.48        22.32        61.94        30.61 
TCGA-G2-A3IB TCGA-GD-A3OS TCGA-GV-A3JW TCGA-GV-A3QF TCGA-GV-A40E TCGA-H4-A2HQ 
        7.04        20.98         6.41         7.63         6.41         6.74 

$subtype3
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V 
       19.04        32.84        12.16        14.89        14.96         5.06 
TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A3PH TCGA-BT-A3PJ TCGA-CF-A1HS TCGA-CU-A3KJ 
        8.25        17.16         4.67        12.82         0.43         5.46 
TCGA-DK-A1AC TCGA-DK-A1AE TCGA-DK-A3X2 TCGA-E5-A2PC TCGA-FD-A3B7 TCGA-FD-A3N6 
      130.88        16.14        17.98        43.59         4.01        15.88 
TCGA-G2-A2EL TCGA-G2-A2ES TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GV-A3QI 
       26.93        17.26        17.75         1.12         4.14 

$subtype4
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20R TCGA-BT-A20W TCGA-BT-A2LB 
        7.33         6.74         6.58         5.06         8.35         5.59 
TCGA-BT-A2LD TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F7 TCGA-DK-A1AB TCGA-DK-A1AF 
        3.65         8.98         1.94         2.04         8.91        17.62 
TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN 
        1.81         7.79       123.85         2.20         3.98         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WY TCGA-FD-A3B3 TCGA-FD-A3B4 
       10.49        21.30        20.02       140.81        12.89        15.68 
TCGA-FD-A3B6 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SN 
        6.87        12.43        11.93        24.30        22.45        12.82 
TCGA-FD-A3SO TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-G2-A2EK TCGA-GC-A3I6 
        5.52        46.78        19.79         1.97         5.69         2.24 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GV-A3JV TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        7.73         2.10         4.41         8.75         3.45         4.67 

subtype1 subtype2 subtype3 subtype4 
    0.10     2.07     0.43     1.81 
subtype1 subtype2 subtype3 subtype4 
  112.44    61.94   130.88   140.81 
subtype1 subtype2 subtype3 subtype4 
  10.950    8.975   14.960    7.760 
[1] "0.1 - 112.4 (10.9)" "2.1 - 61.9 (9.0)"   "0.4 - 130.9 (15.0)"
[4] "1.8 - 140.8 (7.8)" 
  [1] "subtype1" "subtype4" "subtype1" "subtype4" "subtype4" "subtype1"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype4"
 [13] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
 [19] "subtype4" "subtype4" "subtype3" "subtype3" "subtype2" "subtype4"
 [25] "subtype4" "subtype1" "subtype1" "subtype4" "subtype1" "subtype3"
 [31] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype4" "subtype3" "subtype1"
 [43] "subtype3" "subtype4" "subtype1" "subtype4" "subtype1" "subtype4"
 [49] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
 [55] "subtype4" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
 [61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype4"
 [67] "subtype4" "subtype1" "subtype4" "subtype3" "subtype4" "subtype4"
 [73] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype4"
 [79] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype4"
 [91] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [97] "subtype1" "subtype4" "subtype3" "subtype3" "subtype4" "subtype4"
[103] "subtype1" "subtype2" "subtype1" "subtype4" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype2" "subtype4" "subtype4" "subtype4"
  [1] "subtype1" "subtype4" "subtype1" "subtype4" "subtype4" "subtype1"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype4"
 [13] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
 [19] "subtype4" "subtype4" "subtype3" "subtype3" "subtype2" "subtype4"
 [25] "subtype4" "subtype1" "subtype1" "subtype4" "subtype1" "subtype3"
 [31] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype4" "subtype3" "subtype1"
 [43] "subtype3" "subtype4" "subtype1" "subtype4" "subtype1" "subtype4"
 [49] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
 [55] "subtype4" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
 [61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype4"
 [67] "subtype4" "subtype1" "subtype4" "subtype3" "subtype4" "subtype4"
 [73] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype4"
 [79] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype4"
 [91] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [97] "subtype1" "subtype4" "subtype3" "subtype3" "subtype4" "subtype4"
[103] "subtype1" "subtype2" "subtype1" "subtype4" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype2" "subtype4" "subtype4" "subtype4"
  [1] "subtype1" "subtype4" "subtype1" "subtype4" "subtype4" "subtype1"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype4"
 [13] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
 [19] "subtype4" "subtype4" "subtype3" "subtype3" "subtype2" "subtype4"
 [25] "subtype4" "subtype1" "subtype1" "subtype4" "subtype1" "subtype3"
 [31] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype4" "subtype3" "subtype1"
 [43] "subtype3" "subtype4" "subtype1" "subtype4" "subtype1" "subtype4"
 [49] "subtype4" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
 [55] "subtype4" "subtype4" "subtype2" "subtype2" "subtype2" "subtype4"
 [61] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype4"
 [67] "subtype4" "subtype1" "subtype4" "subtype3" "subtype4" "subtype4"
 [73] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype4"
 [79] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype4"
 [91] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [97] "subtype1" "subtype4" "subtype3" "subtype3" "subtype4" "subtype4"
[103] "subtype1" "subtype2" "subtype1" "subtype4" "subtype2" "subtype1"
[109] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[115] "subtype1" "subtype2" "subtype4" "subtype4" "subtype4"
D4V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1       14        12       11
  subtype2       0        9         5        4
  subtype3       0        4        11        7
  subtype4       0        8        14       21
D4V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       14 15  6
  subtype2        2  6  1
  subtype3        3 17  2
  subtype4        8 24 10
D4V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 23  4  7  1
  subtype2  9  0  2  1
  subtype3 15  3  4  1
  subtype4 23  5 11  3
D4V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 29  1 10
  subtype2  8  2  8
  subtype3 13  0 10
  subtype4 22  2 19
D4V6, multiclass
D4V7, binary
          cls
clus        0  1
  subtype1  6 35
  subtype2  5 13
  subtype3  6 17
  subtype4 16 27
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   35
  subtype2    5   13
  subtype3    6   17
  subtype4   16   27
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        6        5        6       16
  MALE         35       13       17       27
D4V8, continuous
D4V9, continuous
D4V10, continuous
D4V11, continuous
[1] "Remove cluster labels:" "subtype2"              
clus
subtype1 subtype2 subtype3 subtype4 
       3        2        7       11 
 [1] "subtype3" "subtype3" "subtype4" "subtype3" "subtype3" "subtype1"
 [7] "subtype3" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
[13] "subtype1" "subtype4" "subtype4" "subtype4" "subtype1" "subtype3"
[19] "subtype4" "subtype4" "subtype4"

Clustering(5) Variable = MRNASEQ_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 61 17
  subtype2 35 21
  subtype3 37 20
subtype1 subtype2 subtype3 
      78       56       57 
subtype1 subtype2 subtype3 
      17       21       20 
$subtype1
TCGA-BL-A0C8 TCGA-BT-A20P TCGA-BT-A20T TCGA-BT-A20W TCGA-BT-A3PH TCGA-C4-A0F6 
       40.08        17.88        14.89         8.35         4.67        23.01 
TCGA-CF-A1HR TCGA-CF-A27C TCGA-CF-A47S TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W 
        0.46         0.69         0.13         0.07         0.10         0.07 
TCGA-CF-A47X TCGA-CF-A47Y TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL 
        0.10         0.10         4.90         7.20         5.19        16.31 
TCGA-CU-A5W6 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AD TCGA-DK-A1AG 
        1.84        31.40        18.41        19.00       112.44        15.62 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IS TCGA-DK-A3IV TCGA-DK-A3X1 TCGA-DK-A6AV 
        2.20         3.98        50.27         9.67        48.00        64.18 
TCGA-DK-A6AW TCGA-DK-A6B0 TCGA-DK-A6B1 TCGA-DK-A6B6 TCGA-E5-A4U1 TCGA-E7-A3Y1 
       48.53        64.64        67.36        21.24        26.17         0.10 
TCGA-E7-A4IJ TCGA-E7-A4XJ TCGA-E7-A541 TCGA-E7-A5KE TCGA-E7-A5KF TCGA-E7-A677 
        0.49         0.53         0.59         0.56         0.66         1.38 
TCGA-E7-A678 TCGA-FD-A3NA TCGA-FD-A43N TCGA-FD-A43X TCGA-FD-A5BV TCGA-FD-A62O 
        0.82        45.93        22.98         3.62         5.36         4.83 
TCGA-FJ-A3Z7 TCGA-FJ-A3Z9 TCGA-FJ-A3ZE TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EC 
       15.19         7.13         3.48         4.08         3.25        22.32 
TCGA-G2-A2EK TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RD 
        5.69        20.12         0.85         2.89         4.50        14.07 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A6C6 TCGA-GU-A42P TCGA-GU-A42R TCGA-GV-A3JV 
        7.73         2.10         2.20         6.41        11.31         4.41 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK 
        6.41         6.15         7.63         7.79         4.14         6.67 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A6MB TCGA-LT-A5Z6 TCGA-MV-A51V 
       19.07         1.51         6.74         4.27         3.45        13.48 

$subtype2
TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BL-A5ZZ TCGA-BT-A20J TCGA-BT-A20O 
        7.33         2.66         6.74        12.39        19.04        12.16 
TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A2LA TCGA-BT-A2LB TCGA-BT-A2LD TCGA-C4-A0EZ 
       19.50         5.06        17.16         5.59         3.65         8.98 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AC TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A2I1 
        2.53         2.14       130.88        17.62         1.81        10.59 
TCGA-DK-A2I4 TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WY 
      123.85         8.22        10.49        21.30        20.02       140.81 
TCGA-DK-A6B2 TCGA-E7-A7DV TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3SJ TCGA-FD-A3SL 
       15.68         1.22         4.01        12.43        24.30        22.45 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43P 
       16.47        12.82        13.18        46.78        19.79        14.93 
TCGA-FD-A43S TCGA-FD-A43U TCGA-FD-A5BR TCGA-FD-A5BS TCGA-FD-A5BT TCGA-FD-A5BX 
       14.96        14.93        13.38        37.15        11.01         5.69 
TCGA-FD-A5BZ TCGA-FD-A5C0 TCGA-FD-A62N TCGA-FD-A62P TCGA-FD-A62S TCGA-FT-A61P 
       27.45         6.87         2.66         6.28         6.38         6.48 
TCGA-G2-A2EO TCGA-GC-A3OO TCGA-GC-A3WC TCGA-GD-A3OS TCGA-GV-A3JZ TCGA-K4-A3WS 
       35.24        15.81        17.75        20.98         5.69         8.75 
TCGA-K4-A3WU TCGA-K4-A54R 
        3.45        10.52 

$subtype3
TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20N TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X 
        6.58        11.93        32.84        14.96         5.06         8.25 
TCGA-BT-A3PJ TCGA-BT-A3PK TCGA-BT-A42E TCGA-C4-A0F0 TCGA-C4-A0F1 TCGA-C4-A0F7 
       12.82         2.07         9.99         1.94         2.93         2.04 
TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-DK-A1AB TCGA-DK-A1AE TCGA-DK-A2I2 
        0.43        12.92         5.46         8.91        16.14         7.79 
TCGA-DK-A2I6 TCGA-DK-A3IM TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3X2 TCGA-DK-A6B5 
       87.32         7.82         8.28        10.55        17.98        32.28 
TCGA-E5-A2PC TCGA-E5-A4TZ TCGA-E7-A3X6 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       43.59        15.35        24.66        12.89        15.68         8.94 
TCGA-FD-A3B6 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SO TCGA-FD-A3SS TCGA-FD-A43Y 
        6.87        11.93        15.88         5.52         1.97        12.13 
TCGA-FD-A5BU TCGA-FD-A5BY TCGA-FD-A5C1 TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL 
        6.87         6.84        49.68        61.94        30.61        26.93 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3I6 TCGA-GC-A3RC TCGA-GC-A3YS TCGA-GD-A3OQ 
       17.26         7.04         2.24        15.91         1.12         3.12 
TCGA-GU-A42Q TCGA-GV-A40E TCGA-K4-A3WV TCGA-K4-A4AB TCGA-K4-A4AC TCGA-K4-A6FZ 
        7.66         6.41         4.67         2.50         6.48         1.81 
TCGA-LC-A66R TCGA-PQ-A6FI TCGA-PQ-A6FN 
        6.35        12.23        16.67 

subtype1 subtype2 subtype3 
    0.07     1.22     0.43 
subtype1 subtype2 subtype3 
  112.44   140.81    87.32 
subtype1 subtype2 subtype3 
    5.92    12.41     8.91 
[1] "0.1 - 112.4 (5.9)"  "1.2 - 140.8 (12.4)" "0.4 - 87.3 (8.9)"  
  [1] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [13] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [43] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [49] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [61] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [85] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[103] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[157] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[187] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [13] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [43] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [49] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [61] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [85] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[103] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[157] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[187] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [13] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [31] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [43] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
 [49] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [55] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [61] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
 [85] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[103] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
[145] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[157] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
[163] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[187] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
D5V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       2       38        21       20
  subtype2       0       11        23       23
  subtype3       0       17        23       16
D5V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       34 30  7
  subtype2       11 36  9
  subtype3       14 25 13
D5V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 51  6 14  1
  subtype2 34  6 13  3
  subtype3 37  6  7  3
D5V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 54  2 27
  subtype2 23  3 31
  subtype3 29  0 28
D5V6, multiclass
D5V7, binary
          cls
clus        0  1
  subtype1 16 68
  subtype2 15 42
  subtype3 18 39
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   16   68
  subtype2   15   42
  subtype3   18   39
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       16       15       18
  MALE         68       42       39
D5V8, continuous
D5V9, continuous
D5V10, continuous
D5V11, continuous

Clustering(6) Variable = MRNASEQ_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 53 30
  subtype2 26 13
  subtype3 54 15
subtype1 subtype2 subtype3 
      83       39       69 
subtype1 subtype2 subtype3 
      30       13       15 
$subtype1
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BL-A5ZZ TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J 
        7.33         6.74        12.39         6.58        11.93        19.04 
TCGA-BT-A20O TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
       12.16        14.96         5.06         8.25        17.16         3.65 
TCGA-BT-A3PJ TCGA-BT-A3PK TCGA-BT-A42E TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F1 
       12.82         2.07         9.99         8.98         1.94         2.93 
TCGA-C4-A0F7 TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-DK-A1AB TCGA-DK-A1AE 
        2.04         0.43        12.92         5.46         8.91        16.14 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IU 
        7.79       123.85        87.32         7.82         8.22        20.02 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-DK-A3X2 TCGA-DK-A6B5 TCGA-E5-A2PC 
        8.28        10.55       140.81        17.98        32.28        43.59 
TCGA-E5-A4TZ TCGA-E7-A3X6 TCGA-E7-A7DV TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       15.35        24.66         1.22        12.89        15.68         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA 
        6.87         4.01        12.43        11.93        15.88        45.93 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SS TCGA-FD-A43Y TCGA-FD-A5BS TCGA-FD-A5BT 
        5.52        13.18         1.97        12.13        37.15        11.01 
TCGA-FD-A5BU TCGA-FD-A5BX TCGA-FD-A5BY TCGA-FD-A5C1 TCGA-FD-A62N TCGA-FD-A62S 
        6.87         5.69         6.84        49.68         2.66         6.38 
TCGA-FT-A3EE TCGA-FT-A61P TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A2ES 
        3.25         6.48        61.94        30.61        26.93        17.26 
TCGA-G2-A3IB TCGA-GC-A3I6 TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OQ 
        7.04         2.24        15.91        17.75         1.12         3.12 
TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GV-A3QI TCGA-GV-A40E TCGA-K4-A3WV TCGA-K4-A4AB 
       20.98         7.66         4.14         6.41         4.67         2.50 
TCGA-K4-A4AC TCGA-K4-A6FZ TCGA-LC-A66R TCGA-PQ-A6FI TCGA-PQ-A6FN 
        6.48         1.81         6.35        12.23        16.67 

$subtype2
TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A2LB TCGA-CF-A1HR TCGA-CU-A0YO TCGA-DK-A1A3 
       19.50         5.06         5.59         0.46         4.90         2.53 
TCGA-DK-A1A5 TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A2I1 
        2.14       130.88       112.44        17.62         1.81        10.59 
TCGA-DK-A3IL TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A6B2 TCGA-FD-A3SJ TCGA-FD-A3SL 
        3.98        10.49        21.30        15.68        24.30        22.45 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43P TCGA-FD-A43S 
       16.47        12.82        46.78        19.79        14.93        14.96 
TCGA-FD-A43U TCGA-FD-A5BR TCGA-FD-A5BZ TCGA-FD-A5C0 TCGA-FD-A62P TCGA-FJ-A3Z7 
       14.93        13.38        27.45         6.87         6.28        15.19 
TCGA-G2-A2EC TCGA-G2-A2EK TCGA-G2-A2EO TCGA-GC-A3OO TCGA-GD-A2C5 TCGA-GD-A3OP 
       22.32         5.69        35.24        15.81         7.73         2.10 
TCGA-GV-A3JZ TCGA-K4-A3WS TCGA-K4-A3WU 
        5.69         8.75         3.45 

$subtype3
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A20T TCGA-BT-A20W 
       40.08         2.66        32.84        17.88        14.89         8.35 
TCGA-BT-A3PH TCGA-C4-A0F6 TCGA-CF-A27C TCGA-CF-A47S TCGA-CF-A47T TCGA-CF-A47V 
        4.67        23.01         0.69         0.13         0.07         0.10 
TCGA-CF-A47W TCGA-CF-A47X TCGA-CF-A47Y TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL 
        0.07         0.10         0.10         7.20         5.19        16.31 
TCGA-CU-A5W6 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A3IK 
        1.84        31.40        18.41        19.00        15.62         2.20 
TCGA-DK-A3IS TCGA-DK-A3IV TCGA-DK-A3X1 TCGA-DK-A6AV TCGA-DK-A6AW TCGA-DK-A6B0 
       50.27         9.67        48.00        64.18        48.53        64.64 
TCGA-DK-A6B1 TCGA-DK-A6B6 TCGA-E5-A4U1 TCGA-E7-A3Y1 TCGA-E7-A4IJ TCGA-E7-A4XJ 
       67.36        21.24        26.17         0.10         0.49         0.53 
TCGA-E7-A541 TCGA-E7-A5KE TCGA-E7-A5KF TCGA-E7-A677 TCGA-E7-A678 TCGA-FD-A43N 
        0.59         0.56         0.66         1.38         0.82        22.98 
TCGA-FD-A43X TCGA-FD-A5BV TCGA-FD-A62O TCGA-FJ-A3Z9 TCGA-FJ-A3ZE TCGA-FJ-A3ZF 
        3.62         5.36         4.83         7.13         3.48         4.08 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RD TCGA-GD-A6C6 
       20.12         0.85         2.89         4.50        14.07         2.20 
TCGA-GU-A42P TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF 
        6.41        11.31         4.41         6.41         6.15         7.63 
TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A54R 
        7.79         6.67        19.07         1.51         6.74        10.52 
TCGA-K4-A6MB TCGA-LT-A5Z6 TCGA-MV-A51V 
        4.27         3.45        13.48 

subtype1 subtype2 subtype3 
    0.43     0.46     0.07 
subtype1 subtype2 subtype3 
  140.81   130.88    67.36 
subtype1 subtype2 subtype3 
    8.94    13.38     6.41 
[1] "0.4 - 140.8 (8.9)"  "0.5 - 130.9 (13.4)" "0.1 - 67.4 (6.4)"  
  [1] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [13] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [19] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
 [43] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [49] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [55] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [67] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [73] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [85] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[133] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[151] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[157] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[163] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[175] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[187] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
  [1] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [13] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [19] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
 [43] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [49] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [55] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [67] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [73] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [85] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[133] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[151] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[157] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[163] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[175] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[187] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
  [1] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
  [7] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [13] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [19] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
 [31] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
 [43] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [49] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [55] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [67] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [73] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [85] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[121] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[127] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[133] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[151] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[157] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[163] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[169] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[175] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
[181] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[187] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
D6V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       0       22        39       22
  subtype2       0        8         8       22
  subtype3       2       36        20       15
D6V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       18 43 17
  subtype2        7 23  7
  subtype3       34 25  5
D6V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 57  9  8  5
  subtype2 18  3 17  1
  subtype3 47  6  9  1
D6V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 37  1 46
  subtype2 19  2 18
  subtype3 50  2 22
D6V6, multiclass
D6V7, binary
          cls
clus        0  1
  subtype1 27 57
  subtype2 11 28
  subtype3 11 64
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   27   57
  subtype2   11   28
  subtype3   11   64
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       27       11       11
  MALE         57       28       64
D6V8, continuous
D6V9, continuous
D6V10, continuous
D6V11, continuous

Clustering(7) Variable = MIRSEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 31 13
  subtype2 63 23
  subtype3 38 22
subtype1 subtype2 subtype3 
      44       86       60 
subtype1 subtype2 subtype3 
      13       23       22 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20W TCGA-BT-A2LD 
       40.08         7.33         2.66        11.93         8.35         3.65 
TCGA-BT-A3PK TCGA-C4-A0F1 TCGA-CF-A47S TCGA-CU-A0YR TCGA-CU-A5W6 TCGA-DK-A1A5 
        2.07         2.93         0.13         7.20         1.84         2.14 
TCGA-DK-A1AC TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IT TCGA-DK-A6AV 
      130.88        10.59        87.32         2.20        21.30        64.18 
TCGA-DK-A6B1 TCGA-DK-A6B2 TCGA-E7-A677 TCGA-E7-A7DV TCGA-FD-A3B7 TCGA-FD-A3SN 
       67.36        15.68         1.38         1.22         4.01        12.82 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A5C0 TCGA-FD-A5C1 TCGA-FD-A62O TCGA-FJ-A3Z7 
        1.97        22.98         6.87        49.68         4.83        15.19 
TCGA-FJ-A3ZF TCGA-G2-A3VY TCGA-GC-A3YS TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3QF 
        4.08         0.85         1.12         6.41         4.41         7.63 
TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WU TCGA-K4-A4AB TCGA-K4-A6MB 
       19.07         1.51         6.74         3.45         2.50         4.27 
TCGA-LC-A66R TCGA-MV-A51V 
        6.35        13.48 

$subtype2
TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A3PH TCGA-BT-A3PJ TCGA-BT-A42E 
        6.74        32.84        17.88         4.67        12.82         9.99 
TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-C4-A0F7 TCGA-CF-A27C TCGA-CF-A47T TCGA-CF-A47V 
        8.98        23.01         2.04         0.69         0.07         0.10 
TCGA-CF-A47W TCGA-CF-A47X TCGA-CF-A47Y TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-CU-A3QU 
        0.07         0.10         0.10        12.92         5.46         5.19 
TCGA-CU-A3YL TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A2I2 
       16.31        31.40        18.41        19.00        15.62         7.79 
TCGA-DK-A3IM TCGA-DK-A3IS TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3X1 
        7.82        50.27         9.67         8.28        10.55        48.00 
TCGA-DK-A3X2 TCGA-DK-A6AW TCGA-DK-A6B0 TCGA-DK-A6B5 TCGA-DK-A6B6 TCGA-E5-A2PC 
       17.98        48.53        64.64        32.28        21.24        43.59 
TCGA-E5-A4TZ TCGA-E5-A4U1 TCGA-E7-A3X6 TCGA-E7-A3Y1 TCGA-E7-A4IJ TCGA-E7-A4XJ 
       15.35        26.17        24.66         0.10         0.49         0.53 
TCGA-E7-A541 TCGA-E7-A5KE TCGA-E7-A5KF TCGA-E7-A678 TCGA-FD-A3B5 TCGA-FD-A3B6 
        0.59         0.56         0.66         0.82         8.94         6.87 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SO TCGA-FD-A43P TCGA-FD-A43U 
       11.93        15.88        45.93         5.52        14.93        14.93 
TCGA-FD-A43X TCGA-FD-A5BV TCGA-FJ-A3Z9 TCGA-FJ-A3ZE TCGA-FT-A3EE TCGA-G2-A2EF 
        3.62         5.36         7.13         3.48         3.25        61.94 
TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
       30.61        26.93        35.24        17.26         7.04        20.12 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GD-A3OQ 
        2.89         2.24         4.50        15.91        14.07         3.12 
TCGA-GD-A6C6 TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
        2.20         7.66        11.31         6.41         6.15         5.69 
TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-K4-A54R TCGA-K4-A6FZ 
        7.79         4.14         6.67         6.41        10.52         1.81 
TCGA-LT-A5Z6 TCGA-PQ-A6FI 
        3.45        12.23 

$subtype3
TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T 
        6.58        19.04        12.16        19.50         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LB TCGA-C4-A0F0 
       14.96         5.06         8.25        17.16         5.59         1.94 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CU-A0YO TCGA-DK-A1A3 TCGA-DK-A1AB TCGA-DK-A1AD 
        0.46         0.43         4.90         2.53         8.91       112.44 
TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A2I4 TCGA-DK-A3IL TCGA-DK-A3IN 
       16.14        17.62         1.81       123.85         3.98         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IU TCGA-DK-A3WY TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B8 
       10.49        20.02       140.81        12.89        15.68        12.43 
TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
       24.30        22.45        16.47        13.18        46.78        19.79 
TCGA-FD-A43S TCGA-FD-A43Y TCGA-FD-A5BR TCGA-FD-A5BS TCGA-FD-A5BT TCGA-FD-A5BU 
       14.96        12.13        13.38        37.15        11.01         6.87 
TCGA-FD-A5BX TCGA-FD-A5BY TCGA-FD-A5BZ TCGA-FD-A62N TCGA-FD-A62P TCGA-FD-A62S 
        5.69         6.84        27.45         2.66         6.28         6.38 
TCGA-FT-A61P TCGA-G2-A2EC TCGA-G2-A2EK TCGA-GC-A3OO TCGA-GC-A3WC TCGA-GD-A2C5 
        6.48        22.32         5.69        15.81        17.75         7.73 
TCGA-GD-A3OP TCGA-GD-A3OS TCGA-K4-A3WS TCGA-K4-A3WV TCGA-K4-A4AC TCGA-PQ-A6FN 
        2.10        20.98         8.75         4.67         6.48        16.67 

subtype1 subtype2 subtype3 
    0.13     0.07     0.43 
subtype1 subtype2 subtype3 
  130.88    64.64   140.81 
subtype1 subtype2 subtype3 
   6.380    8.050   12.145 
[1] "0.1 - 130.9 (6.4)"  "0.1 - 64.6 (8.1)"   "0.4 - 140.8 (12.1)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [19] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [61] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [67] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [73] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[109] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[115] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[133] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[163] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype1" "subtype2" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [19] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [61] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [67] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [73] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[109] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[115] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[133] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[163] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype1" "subtype2" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [19] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [61] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [67] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [73] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype1"
[109] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[115] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[133] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[139] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[163] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype1" "subtype2" "subtype3"
D7V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1       11        16       19
  subtype2       1       42        27       18
  subtype3       0       13        23       22
D7V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       14 22  9
  subtype2       34 33  9
  subtype3       11 36 10
D7V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 26  7  9  3
  subtype2 58  7  8  4
  subtype3 37  4 17  0
D7V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 25  1 21
  subtype2 55  2 32
  subtype3 26  2 32
D7V6, multiclass
D7V7, binary
          cls
clus        0  1
  subtype1  7 41
  subtype2 17 72
  subtype3 24 36
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7   41
  subtype2   17   72
  subtype3   24   36
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        7       17       24
  MALE         41       72       36
D7V8, continuous
D7V9, continuous
D7V10, continuous
D7V11, continuous

Clustering(8) Variable = MIRSEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 95 39
  subtype2  7  5
  subtype3 30 14
subtype1 subtype2 subtype3 
     134       12       44 
subtype1 subtype2 subtype3 
      39        5       14 
$subtype1
TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P 
        6.74         6.58        19.04        32.84        12.16        17.88 
TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X 
       19.50         5.06        14.89        14.96         5.06         8.25 
TCGA-BT-A2LA TCGA-BT-A2LB TCGA-BT-A3PJ TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 
       17.16         5.59        12.82         8.98         1.94        23.01 
TCGA-C4-A0F7 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CF-A47T TCGA-CF-A47V 
        2.04         0.46         0.43         0.69         0.07         0.10 
TCGA-CF-A47W TCGA-CF-A47X TCGA-CF-A47Y TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A3QU 
        0.07         0.10         0.10        12.92         4.90         5.19 
TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
       16.31         2.53        31.40        18.41        19.00         8.91 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 
      112.44        16.14        17.62        15.62         1.81         7.79 
TCGA-DK-A2I4 TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IU 
      123.85         3.98         8.22        10.49        50.27        20.02 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-DK-A3X1 TCGA-DK-A3X2 
        9.67         8.28        10.55       140.81        48.00        17.98 
TCGA-DK-A6AW TCGA-DK-A6B0 TCGA-DK-A6B5 TCGA-DK-A6B6 TCGA-E5-A2PC TCGA-E5-A4TZ 
       48.53        64.64        32.28        21.24        43.59        15.35 
TCGA-E5-A4U1 TCGA-E7-A3X6 TCGA-E7-A3Y1 TCGA-E7-A4IJ TCGA-E7-A4XJ TCGA-E7-A541 
       26.17        24.66         0.10         0.49         0.53         0.59 
TCGA-E7-A5KE TCGA-E7-A678 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
        0.56         0.82        12.89        15.68         8.94         6.87 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
       12.43        11.93        15.88        45.93        24.30        22.45 
TCGA-FD-A3SM TCGA-FD-A3SP TCGA-FD-A3SR TCGA-FD-A43P TCGA-FD-A43S TCGA-FD-A43U 
       16.47        13.18        19.79        14.93        14.96        14.93 
TCGA-FD-A43X TCGA-FD-A43Y TCGA-FD-A5BR TCGA-FD-A5BS TCGA-FD-A5BU TCGA-FD-A5BV 
        3.62        12.13        13.38        37.15         6.87         5.36 
TCGA-FD-A5BX TCGA-FD-A5BY TCGA-FD-A62N TCGA-FD-A62P TCGA-FD-A62S TCGA-FJ-A3Z9 
        5.69         6.84         2.66         6.28         6.38         7.13 
TCGA-FJ-A3ZE TCGA-FT-A3EE TCGA-FT-A61P TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK 
        3.48         3.25         6.48        61.94        30.61         5.69 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3BM 
       26.93        35.24        17.26         7.04        20.12         2.89 
TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GD-A2C5 
        2.24        15.81         4.50        14.07        17.75         7.73 
TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GD-A6C6 TCGA-GU-A42Q TCGA-GU-A42R 
        2.10         3.12        20.98         2.20         7.66        11.31 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK 
        6.41         6.15         5.69         7.79         4.14         6.67 
TCGA-GV-A40E TCGA-K4-A3WV TCGA-K4-A4AC TCGA-K4-A54R TCGA-K4-A6FZ TCGA-LT-A5Z6 
        6.41         4.67         6.48        10.52         1.81         3.45 
TCGA-PQ-A6FI TCGA-PQ-A6FN 
       12.23        16.67 

$subtype2
TCGA-DK-A1A5 TCGA-DK-A2I1 TCGA-DK-A3IK TCGA-DK-A3IT TCGA-FD-A3SN TCGA-FD-A3SO 
        2.14        10.59         2.20        21.30        12.82         5.52 
TCGA-FD-A3SQ TCGA-FD-A5BT TCGA-FD-A5C0 TCGA-G2-A2EC TCGA-K4-A3WS TCGA-K4-A4AB 
       46.78        11.01         6.87        22.32         8.75         2.50 

$subtype3
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20W TCGA-BT-A2LD 
       40.08         7.33         2.66        11.93         8.35         3.65 
TCGA-BT-A3PH TCGA-BT-A3PK TCGA-BT-A42E TCGA-C4-A0F1 TCGA-CF-A47S TCGA-CU-A0YR 
        4.67         2.07         9.99         2.93         0.13         7.20 
TCGA-CU-A3KJ TCGA-CU-A5W6 TCGA-DK-A1AC TCGA-DK-A2I6 TCGA-DK-A3IM TCGA-DK-A6AV 
        5.46         1.84       130.88        87.32         7.82        64.18 
TCGA-DK-A6B1 TCGA-DK-A6B2 TCGA-E7-A5KF TCGA-E7-A677 TCGA-E7-A7DV TCGA-FD-A3B7 
       67.36        15.68         0.66         1.38         1.22         4.01 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A5BZ TCGA-FD-A5C1 TCGA-FD-A62O TCGA-FJ-A3Z7 
        1.97        22.98        27.45        49.68         4.83        15.19 
TCGA-FJ-A3ZF TCGA-G2-A3VY TCGA-GC-A3RC TCGA-GC-A3YS TCGA-GU-A42P TCGA-GV-A3JV 
        4.08         0.85        15.91         1.12         6.41         4.41 
TCGA-GV-A3QF TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WU TCGA-K4-A6MB 
        7.63        19.07         1.51         6.74         3.45         4.27 
TCGA-LC-A66R TCGA-MV-A51V 
        6.35        13.48 

subtype1 subtype2 subtype3 
    0.07     2.14     0.13 
subtype1 subtype2 subtype3 
  140.81    46.78   130.88 
subtype1 subtype2 subtype3 
   9.325    9.670    6.380 
[1] "0.1 - 140.8 (9.3)" "2.1 - 46.8 (9.7)"  "0.1 - 130.9 (6.4)"
  [1] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [19] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [67] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[133] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[157] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[175] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[181] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[187] "subtype1" "subtype3" "subtype1" "subtype1"
  [1] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [19] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [67] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[133] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[157] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[175] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[181] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[187] "subtype1" "subtype3" "subtype1" "subtype1"
  [1] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
  [7] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [19] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [25] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [31] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [49] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [55] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [61] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [67] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
 [97] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[133] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[157] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[175] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[181] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[187] "subtype1" "subtype3" "subtype1" "subtype1"
D8V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1       52        45       36
  subtype2       0        3         4        5
  subtype3       1       11        17       18
D8V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       43 60 19
  subtype2        2  8  1
  subtype3       14 23  8
D8V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 87  9 23  4
  subtype2  8  1  3  0
  subtype3 26  8  8  3
D8V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 75  4 58
  subtype2  5  0  7
  subtype3 26  1 20
D8V6, multiclass
D8V7, binary
          cls
clus        0  1
  subtype1 39 98
  subtype2  2 10
  subtype3  7 41
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   39   98
  subtype2    2   10
  subtype3    7   41
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       39        2        7
  MALE         98       10       41
D8V8, continuous
[1] "Remove cluster labels:" "subtype2"              
clus
subtype1 subtype2 subtype3 
      43        1       11 
 [1] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
 [7] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[25] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[31] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[37] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[43] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[49] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
D8V9, continuous
D8V10, continuous
D8V11, continuous

Clustering(9) Variable = MIRSEQ_MATURE_CNMF
D9V1, survival
          sevent
clus2       0  1
  subtype1 24 12
  subtype2 60 19
  subtype3 48 27
subtype1 subtype2 subtype3 
      36       79       75 
subtype1 subtype2 subtype3 
      12       19       27 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20T TCGA-BT-A20W 
       40.08         7.33         2.66        11.93        14.89         8.35 
TCGA-BT-A2LD TCGA-C4-A0F1 TCGA-CF-A47S TCGA-CU-A0YR TCGA-CU-A5W6 TCGA-DK-A1A5 
        3.65         2.93         0.13         7.20         1.84         2.14 
TCGA-DK-A1AC TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A6AV TCGA-DK-A6B2 TCGA-E7-A677 
      130.88        87.32         2.20        64.18        15.68         1.38 
TCGA-E7-A7DV TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A5C0 TCGA-FD-A5C1 TCGA-FD-A62O 
        1.22         1.97        22.98         6.87        49.68         4.83 
TCGA-FJ-A3Z7 TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3QF TCGA-GV-A40G TCGA-H4-A2HO 
       15.19         6.41         4.41         7.63        19.07         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WU TCGA-K4-A4AB TCGA-K4-A6MB TCGA-LC-A66R TCGA-MV-A51V 
        6.74         3.45         2.50         4.27         6.35        13.48 

$subtype2
TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A2LA TCGA-BT-A3PH TCGA-BT-A42E 
        6.74        32.84        17.88        17.16         4.67         9.99 
TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-C4-A0F7 TCGA-CF-A27C TCGA-CF-A47T TCGA-CF-A47V 
        8.98        23.01         2.04         0.69         0.07         0.10 
TCGA-CF-A47W TCGA-CF-A47X TCGA-CF-A47Y TCGA-CU-A0YN TCGA-CU-A3QU TCGA-CU-A3YL 
        0.07         0.10         0.10        12.92         5.19        16.31 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A3IM TCGA-DK-A3IS 
       31.40        18.41        19.00        15.62         7.82        50.27 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3X1 TCGA-DK-A3X2 TCGA-DK-A6AW TCGA-DK-A6B0 
        9.67         8.28        48.00        17.98        48.53        64.64 
TCGA-DK-A6B1 TCGA-DK-A6B5 TCGA-DK-A6B6 TCGA-E5-A2PC TCGA-E5-A4TZ TCGA-E5-A4U1 
       67.36        32.28        21.24        43.59        15.35        26.17 
TCGA-E7-A3X6 TCGA-E7-A3Y1 TCGA-E7-A4IJ TCGA-E7-A4XJ TCGA-E7-A541 TCGA-E7-A5KE 
       24.66         0.10         0.49         0.53         0.59         0.56 
TCGA-E7-A5KF TCGA-E7-A678 TCGA-FD-A3B5 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA 
        0.66         0.82         8.94        11.93        15.88        45.93 
TCGA-FD-A3SM TCGA-FD-A43P TCGA-FD-A43X TCGA-FD-A5BV TCGA-FJ-A3Z9 TCGA-FJ-A3ZE 
       16.47        14.93         3.62         5.36         7.13         3.48 
TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A3IB TCGA-G2-A3IE 
        4.08         3.25        30.61        26.93         7.04        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GD-A3OQ 
        0.85         2.89         4.50        15.91        14.07         3.12 
TCGA-GD-A6C6 TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QH 
        2.20        11.31         6.41         6.15         5.69         7.79 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-K4-A3WV TCGA-K4-A54R TCGA-K4-A6FZ 
        4.14         6.67         6.41         4.67        10.52         1.81 
TCGA-LT-A5Z6 
        3.45 

$subtype3
TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20U 
        6.58        19.04        12.16        19.50         5.06        14.96 
TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LB TCGA-BT-A3PJ TCGA-BT-A3PK TCGA-C4-A0F0 
        5.06         8.25         5.59        12.82         2.07         1.94 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CU-A0YO TCGA-CU-A3KJ TCGA-DK-A1A3 TCGA-DK-A1AB 
        0.46         0.43         4.90         5.46         2.53         8.91 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 
      112.44        16.14        17.62         1.81        10.59         7.79 
TCGA-DK-A2I4 TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A3IU 
      123.85         3.98         8.22        10.49        21.30        20.02 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 
       10.55       140.81        12.89        15.68         6.87         4.01 
TCGA-FD-A3B8 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP 
       12.43        24.30        22.45        12.82         5.52        13.18 
TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43S TCGA-FD-A43U TCGA-FD-A43Y TCGA-FD-A5BR 
       46.78        19.79        14.96        14.93        12.13        13.38 
TCGA-FD-A5BS TCGA-FD-A5BT TCGA-FD-A5BU TCGA-FD-A5BX TCGA-FD-A5BY TCGA-FD-A5BZ 
       37.15        11.01         6.87         5.69         6.84        27.45 
TCGA-FD-A62N TCGA-FD-A62P TCGA-FD-A62S TCGA-FT-A61P TCGA-G2-A2EC TCGA-G2-A2EF 
        2.66         6.28         6.38         6.48        22.32        61.94 
TCGA-G2-A2EK TCGA-G2-A2EO TCGA-G2-A2ES TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3WC 
        5.69        35.24        17.26         2.24        15.81        17.75 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OS TCGA-GU-A42Q TCGA-K4-A3WS 
        1.12         7.73         2.10        20.98         7.66         8.75 
TCGA-K4-A4AC TCGA-PQ-A6FI TCGA-PQ-A6FN 
        6.48        12.23        16.67 

subtype1 subtype2 subtype3 
    0.13     0.07     0.43 
subtype1 subtype2 subtype3 
  130.88    67.36   140.81 
subtype1 subtype2 subtype3 
   6.575    7.820   10.590 
[1] "0.1 - 130.9 (6.6)"  "0.1 - 67.4 (7.8)"   "0.4 - 140.8 (10.6)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [19] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [25] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [61] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [67] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [79] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[133] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[145] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[163] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [19] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [25] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [61] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [67] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [79] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[133] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[145] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[163] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype1" "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [19] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [25] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [49] "subtype2" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [61] "subtype1" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [67] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [79] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[133] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[145] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[151] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[163] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype2"
[169] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[181] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[187] "subtype2" "subtype1" "subtype3" "subtype3"
D9V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        7        13       18
  subtype2       1       41        23       16
  subtype3       0       18        30       25
D9V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       11 19  9
  subtype2       34 26  8
  subtype3       14 46 11
D9V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 19  7  9  3
  subtype2 53  6  8  2
  subtype3 49  5 17  2
D9V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 22  1 17
  subtype2 49  3 29
  subtype3 35  1 39
D9V6, multiclass
D9V7, binary
          cls
clus        0  1
  subtype1  6 34
  subtype2 16 66
  subtype3 26 49
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   34
  subtype2   16   66
  subtype3   26   49
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        6       16       26
  MALE         34       66       49
D9V8, continuous
D9V9, continuous
D9V10, continuous
D9V11, continuous

Clustering(10) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D10V1, survival
          sevent
clus2       0  1
  subtype1 42 12
  subtype2 68 36
  subtype3 22 10
subtype1 subtype2 subtype3 
      54      104       32 
subtype1 subtype2 subtype3 
      12       36       10 
$subtype1
TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A27C 
        6.74        32.84         4.67         8.98        23.01         0.69 
TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W TCGA-CF-A47X TCGA-CF-A47Y TCGA-DK-A1A6 
        0.07         0.10         0.07         0.10         0.10        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A3IS TCGA-DK-A3IV TCGA-DK-A3X1 
       18.41        19.00        15.62        50.27         9.67        48.00 
TCGA-DK-A3X2 TCGA-DK-A6AW TCGA-DK-A6B0 TCGA-DK-A6B6 TCGA-E5-A2PC TCGA-E5-A4U1 
       17.98        48.53        64.64        21.24        43.59        26.17 
TCGA-E7-A3Y1 TCGA-E7-A4IJ TCGA-E7-A4XJ TCGA-E7-A541 TCGA-E7-A5KE TCGA-E7-A678 
        0.10         0.49         0.53         0.59         0.56         0.82 
TCGA-FD-A3NA TCGA-FD-A43N TCGA-FD-A43P TCGA-FD-A43X TCGA-FD-A5BV TCGA-FJ-A3Z9 
       45.93        22.98        14.93         3.62         5.36         7.13 
TCGA-FJ-A3ZE TCGA-FT-A3EE TCGA-G2-A2EL TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3RB 
        3.48         3.25        26.93        20.12         2.89         4.50 
TCGA-GC-A3RD TCGA-GD-A3OQ TCGA-GD-A6C6 TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX 
       14.07         3.12         2.20        11.31         6.41         6.15 
TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-K4-A54R TCGA-LT-A5Z6 
        5.69         7.79         4.14         6.67        10.52         3.45 

$subtype2
TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q 
        7.33         6.58        19.04        12.16        17.88        19.50 
TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA 
        5.06        14.89        14.96         5.06         8.25        17.16 
TCGA-BT-A2LB TCGA-BT-A3PJ TCGA-BT-A3PK TCGA-BT-A42E TCGA-C4-A0F0 TCGA-C4-A0F7 
        5.59        12.82         2.07         9.99         1.94         2.04 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A3KJ TCGA-CU-A3YL 
        0.46         0.43        12.92         4.90         5.46        16.31 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF 
        2.53         2.14         8.91       112.44        16.14        17.62 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IL 
        1.81        10.59         7.79       123.85        87.32         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WW 
        7.82         8.22        10.49        21.30        20.02         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-DK-A6B5 TCGA-E5-A4TZ TCGA-E7-A3X6 TCGA-E7-A7DV 
       10.55       140.81        32.28        15.35        24.66         1.22 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
       12.89        15.68         8.94         6.87         4.01        12.43 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
       11.93        15.88        24.30        22.45        16.47        12.82 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43S TCGA-FD-A43U 
        5.52        13.18        46.78        19.79        14.96        14.93 
TCGA-FD-A43Y TCGA-FD-A5BR TCGA-FD-A5BS TCGA-FD-A5BT TCGA-FD-A5BU TCGA-FD-A5BX 
       12.13        13.38        37.15        11.01         6.87         5.69 
TCGA-FD-A5BY TCGA-FD-A5C0 TCGA-FD-A5C1 TCGA-FD-A62N TCGA-FD-A62P TCGA-FD-A62S 
        6.84         6.87        49.68         2.66         6.28         6.38 
TCGA-FT-A61P TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO 
        6.48        22.32        61.94        30.61         5.69        35.24 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3WC 
       17.26         7.04         2.24        15.81        15.91        17.75 
TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GV-A40E 
        1.12         7.73         2.10        20.98         7.66         6.41 
TCGA-K4-A3WS TCGA-K4-A3WV TCGA-K4-A4AB TCGA-K4-A4AC TCGA-K4-A6FZ TCGA-LC-A66R 
        8.75         4.67         2.50         6.48         1.81         6.35 
TCGA-PQ-A6FI TCGA-PQ-A6FN 
       12.23        16.67 

$subtype3
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20W TCGA-BT-A2LD TCGA-C4-A0F1 
       40.08         2.66        11.93         8.35         3.65         2.93 
TCGA-CF-A47S TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A5W6 TCGA-DK-A1AC TCGA-DK-A3IK 
        0.13         7.20         5.19         1.84       130.88         2.20 
TCGA-DK-A6AV TCGA-DK-A6B1 TCGA-DK-A6B2 TCGA-E7-A5KF TCGA-E7-A677 TCGA-FD-A3SS 
       64.18        67.36        15.68         0.66         1.38         1.97 
TCGA-FD-A5BZ TCGA-FD-A62O TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A3VY TCGA-GU-A42P 
       27.45         4.83        15.19         4.08         0.85         6.41 
TCGA-GV-A3JV TCGA-GV-A3QF TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WU 
        4.41         7.63        19.07         1.51         6.74         3.45 
TCGA-K4-A6MB TCGA-MV-A51V 
        4.27        13.48 

subtype1 subtype2 subtype3 
    0.07     0.43     0.13 
subtype1 subtype2 subtype3 
   64.64   140.81   130.88 
subtype1 subtype2 subtype3 
   6.705   10.570    5.010 
[1] "0.1 - 64.6 (6.7)"   "0.4 - 140.8 (10.6)" "0.1 - 130.9 (5.0)" 
  [1] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [43] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [49] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [73] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[115] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[163] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[175] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[181] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[187] "subtype1" "subtype3" "subtype2" "subtype2"
  [1] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [43] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [49] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [73] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[115] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[163] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[175] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[181] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[187] "subtype1" "subtype3" "subtype2" "subtype2"
  [1] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [19] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [43] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [49] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [73] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [85] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[103] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
[115] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[133] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[139] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[145] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[151] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[163] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[169] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[175] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[181] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[187] "subtype1" "subtype3" "subtype2" "subtype2"
D10V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1       30        15       10
  subtype2       0       27        41       34
  subtype3       1        9        10       15
D10V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       25 19  4
  subtype2       22 57 18
  subtype3       12 15  6
D10V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 38  4  4  2
  subtype2 66  7 23  3
  subtype3 17  7  7  2
D10V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 33  2 22
  subtype2 51  2 51
  subtype3 22  1 12
D10V6, multiclass
D10V7, binary
          cls
clus        0  1
  subtype1 11 46
  subtype2 32 72
  subtype3  5 31
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   11   46
  subtype2   32   72
  subtype3    5   31
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       11       32        5
  MALE         46       72       31
D10V8, continuous
D10V9, continuous
D10V10, continuous
D10V11, continuous
> q(save="no")
