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

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> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/BLCA-TP/4429525/BLCA-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/BLCA-TP/4392299/BLCA-TP.clin.merged.picked.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/GDAC_clinicalDataPicker/BLCA-TP/4392299/BLCA-TP.clin.merged.picked.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/BLCA-TP/4429525/BLCA-TP.mergedcluster.txt"

nPatients in clinical file=158, in cluster file=201, common to both=158
[1]  10 158
[1] "CN_CNMF"
[1] 3
 1  2  3 
48 66 38 
 1  2  3 
48 66 38 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
61 63 34 
 1  2  3 
61 63 34 
[1] "RPPA_CNMF"
[1] 3
 1  2  3  4  5 
36 28 35  4 20 
 1  2  3  4  5 
36 28 35  4 20 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
41 18 22 42 
 1  2  3  4 
41 18 22 42 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3  4 
25 45 26 58 
 1  2  3  4 
25 45 26 58 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
30 59 65 
 1  2  3 
30 59 65 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3 
38 47 70 
 1  2  3 
38 47 70 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 35 113   7 
  1   2   3 
 35 113   7 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
 1  2  3 
31 64 60 
 1  2  3 
31 64 60 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
 1  2  3 
49 81 25 
 1  2  3 
49 81 25 
[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] "BATCHNUMBER"                           

Input Data has 20 rows and 158 columns.

[1] "Batch" "20"   
[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          197           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-A2LD TCGA-BT-A3PH TCGA-BT-A3PK TCGA-BT-A42E TCGA-C4-A0EZ 
         179          111           NA           63          304           NA 
TCGA-C4-A0F0 TCGA-C4-A0F1 TCGA-C4-A0F6 TCGA-C4-A0F7 TCGA-CF-A1HR TCGA-CF-A1HS 
          59           88          700           NA           14           13 
TCGA-CF-A27C TCGA-CF-A3MF TCGA-CF-A3MG TCGA-CF-A3MH TCGA-CF-A3MI TCGA-CF-A47S 
          21           NA           NA           NA           NA            4 
TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W TCGA-CF-A47X TCGA-CF-A47Y TCGA-CU-A0YN 
           2            3            2            3            3           NA 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU TCGA-CU-A3YL TCGA-CU-A5W6 
          NA          219          166          158          246           NA 
TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB 
          77           NA          955          560          578          271 
TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX 
        3980         3420          491          536          475           55 
TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IL 
         322           NA         3767         2655           67          121 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
         238           NA          319         1529          459          609 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-DK-A3X1 TCGA-DK-A3X2 
          NA          252           NA         3989         1248           NA 
TCGA-E5-A2PC TCGA-E7-A3X6 TCGA-E7-A3Y1 TCGA-E7-A4IJ TCGA-E7-A4XJ TCGA-E7-A541 
        1326           NA            3           15           16           17 
TCGA-E7-A5KE TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
          17          268          477           NA          209           NA 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL 
         336          272          483          974           NA          334 
TCGA-FD-A3SM TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR 
         186          207           NA          138           NA           NA 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-FJ-A3Z9 TCGA-FJ-A3ZE 
          59          240          208          461          216          106 
TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-FT-A61P TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EJ 
         124           NA          196          679         1884          931 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
         172           NA         1072          525          214           NA 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC 
          25           87           68           40          137           42 
TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
          31           76           33          234           64           95 
TCGA-GD-A3OS TCGA-GU-A42P TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW 
         638          194          230           98          133          195 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QG TCGA-GV-A3QH TCGA-GV-A3QI 
         187          173          232           NA          237          125 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-HQ-A2OE 
         202          194          162           46          204           NA 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV TCGA-K4-A4AB TCGA-K4-A4AC TCGA-LC-A66R 
         265          104          141           76          197          192 
TCGA-LT-A5Z6 TCGA-MV-A51V 
         104          112 
Variable 1:'AGE':	nDistinctValues=45,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=43,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=106,	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=39,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 19:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=13,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 20:'BATCH.NUMBER':	nDistinctValues=19,	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"      
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "3"          
[1] "PATHOLOGY.N" "4"          
Output Data has 158 columns, 1 survival variables, and 9 non-survival variables.
AGE, nv=45, 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 42 71 25 
[1] "table(vv)"
vv
T0+T1+T2       T3       T4 
      44       71       25 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
T0 T1 T2 T3 T4 
 1  1 42 71 25 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


T0+T1+T2       T3       T4 
      44       71       25 
PATHOLOGY.N.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
N0 N1 N2 N3 
94 14 30  5 
[1] "table(vv)"
vv
N0 N1 N2 N3 
94 14 30  5 
$ClinVariableName
[1] "PATHOLOGY.N.STAGE"

$Table
vv
N0 N1 N2 N3 
94 14 30  5 

$nClasses
[1] 4

$ClinVariableType
[1] "multiclass(4)"


N0 N1 N2 N3 
94 14 30  5 
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=39, binary=FALSE, numeric=TRUE
NUMBER.OF.LYMPH.NODES, nv=13, binary=FALSE, numeric=TRUE

Clustering(1) Variable = CN_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 31 14
  subtype2 45 18
  subtype3 27 10
subtype1 subtype2 subtype3 
      45       63       37 
subtype1 subtype2 subtype3 
      14       18       10 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A20N TCGA-BT-A20T TCGA-BT-A20V TCGA-BT-A2LD 
       40.08         2.66        32.84        14.89         5.06         3.65 
TCGA-BT-A3PH TCGA-BT-A42E TCGA-CF-A47X TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3QU 
        4.64         9.99         0.10         7.20         5.46         5.19 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AD TCGA-DK-A2I1 TCGA-DK-A2I6 
        2.14        31.40        18.41       112.44        10.59        87.29 
TCGA-DK-A3IK TCGA-DK-A3IS TCGA-DK-A3X1 TCGA-DK-A3X2 TCGA-E5-A2PC TCGA-E7-A4IJ 
        2.20        50.27        41.03        17.98        43.59         0.49 
TCGA-E7-A541 TCGA-E7-A5KE TCGA-FD-A3B5 TCGA-FD-A3SJ TCGA-FD-A3SN TCGA-FD-A3SR 
        0.56         0.56         8.94        24.30         6.81        19.79 
TCGA-FT-A3EE TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3RD TCGA-GD-A3OS TCGA-GU-A42R 
        3.22        20.12         0.82         1.02        20.98         3.22 
TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI 
        4.37         6.41         5.69         7.63         7.79         4.11 
TCGA-H4-A2HQ TCGA-K4-A3WV TCGA-MV-A51V 
        6.71         4.64         3.68 

$subtype2
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20O 
        7.33         6.74         6.58        11.93        19.00        12.16 
TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20U TCGA-BT-A20X TCGA-BT-A3PK TCGA-C4-A0F0 
       17.85        19.46        14.93         8.25         2.07         1.94 
TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CF-A47S TCGA-CF-A47T TCGA-CF-A47V 
       23.01         0.46         0.69         0.13         0.07         0.10 
TCGA-CF-A47W TCGA-CF-A47Y TCGA-CU-A0YO TCGA-CU-A3YL TCGA-CU-A5W6 TCGA-DK-A1AA 
        0.07         0.10         4.90         8.09         1.84        19.00 
TCGA-DK-A1AB TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A3IQ TCGA-DK-A3IT 
        8.91        16.14        17.62        15.62        10.49        15.09 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-E7-A4XJ TCGA-FD-A3B4 
        8.28        10.55       131.15         0.10         0.53        15.68 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SM TCGA-FD-A3SP 
        4.01        11.05        15.88        32.02         6.12         4.54 
TCGA-FD-A3SQ TCGA-FD-A43U TCGA-FJ-A3Z9 TCGA-FJ-A3ZE TCGA-G2-A2EJ TCGA-G2-A2EK 
       46.78         6.84         7.10         3.48        30.61         5.65 
TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3BM TCGA-GC-A3I6 
       26.93        35.24        17.26         7.04         2.86         2.24 
TCGA-GC-A3WC TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GU-A42Q TCGA-GV-A3QK TCGA-H4-A2HO 
        2.50         2.10         3.12         7.56         6.64         1.51 
TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A4AB 
        8.71         3.42         2.50 

$subtype3
TCGA-BT-A20R TCGA-BT-A20W TCGA-BT-A2LA TCGA-C4-A0EZ TCGA-CF-A1HS TCGA-CU-A0YN 
        5.06         8.35         5.88         8.98         0.43        12.92 
TCGA-DK-A1A3 TCGA-DK-A1AC TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A3IL 
        2.53       130.85         1.81         7.76       123.85         3.98 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IU TCGA-DK-A3IV TCGA-FD-A3B3 TCGA-FD-A3B6 
        7.82         8.22        20.02         9.67         8.81         6.87 
TCGA-FD-A3N5 TCGA-FD-A3SL TCGA-FD-A3SO TCGA-FD-A3SS TCGA-FD-A43N TCGA-FJ-A3Z7 
        8.94        10.98         5.49         1.94         7.89        15.16 
TCGA-FJ-A3ZF TCGA-G2-A2EF TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3YS 
        4.08        61.94         1.32         4.50         1.38         1.08 
TCGA-GD-A2C5 TCGA-GU-A42P TCGA-GV-A3JX TCGA-GV-A40E TCGA-GV-A40G TCGA-K4-A4AC 
        7.69         6.38         6.15         6.38         5.33         6.48 
TCGA-LT-A5Z6 
        3.42 

subtype1 subtype2 subtype3 
    0.10     0.07     0.43 
subtype1 subtype2 subtype3 
  112.44   131.15   130.85 
subtype1 subtype2 subtype3 
    6.71     7.10     6.48 
[1] "0.1 - 112.4 (6.7)" "0.1 - 131.2 (7.1)" "0.4 - 130.8 (6.5)"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
 [19] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [25] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [37] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [49] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [55] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [67] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [73] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [79] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [97] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[115] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[121] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[145] "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
 [19] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [25] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [37] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [49] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [55] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [67] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [73] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [79] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [97] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[115] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[121] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[145] "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype3"
 [19] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [25] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [37] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [43] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [49] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [55] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [67] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [73] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [79] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype3"
 [97] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[115] "subtype3" "subtype3" "subtype1" "subtype2" "subtype3" "subtype3"
[121] "subtype2" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
[127] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[133] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[139] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
[145] "subtype1"
D1V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1       16         8       22
  subtype2       1       21        30       12
  subtype3       0       12        11       14
D1V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       20 17  5
  subtype2       16 31 13
  subtype3        8 21  4
D1V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 17  8 12  1
  subtype2 53  1  9  1
  subtype3 21  5  6  3
D1V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 26  1 20
  subtype2 43  2 21
  subtype3 21  2 15
D1V6, multiclass
D1V7, binary
          cls
clus        0  1
  subtype1 12 36
  subtype2 16 50
  subtype3  8 30
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   12   36
  subtype2   16   50
  subtype3    8   30
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       12       16        8
  MALE         36       50       30
D1V8, continuous
D1V9, continuous
D1V10, continuous

Clustering(2) Variable = METHLYATION_CNMF
D2V1, survival
          sevent
clus2       0  1
  subtype1 45 13
  subtype2 41 20
  subtype3 21 11
subtype1 subtype2 subtype3 
      58       61       32 
subtype1 subtype2 subtype3 
      13       20       11 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A20W TCGA-BT-A3PH TCGA-C4-A0EZ 
       40.08         6.74        32.84         8.35         4.64         8.98 
TCGA-C4-A0F6 TCGA-CF-A27C TCGA-CF-A47T TCGA-CF-A47X TCGA-CU-A3QU TCGA-DK-A1A5 
       23.01         0.69         0.07         0.10         5.19         2.14 
TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A3IK 
       31.40        19.00       130.85       112.44        16.14         2.20 
TCGA-DK-A3IL TCGA-DK-A3IS TCGA-DK-A3X2 TCGA-E5-A2PC TCGA-E7-A4IJ TCGA-E7-A4XJ 
        3.98        50.27        17.98        43.59         0.49         0.53 
TCGA-E7-A541 TCGA-E7-A5KE TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SN TCGA-FD-A3SR 
        0.56         0.56         8.94        15.88         6.81        19.79 
TCGA-FD-A3SS TCGA-FD-A43N TCGA-FJ-A3Z7 TCGA-FJ-A3Z9 TCGA-FJ-A3ZF TCGA-FT-A3EE 
        1.94         7.89        15.16         7.10         4.08         3.22 
TCGA-G2-A2EO TCGA-G2-A3IB TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RC 
       35.24         7.04         0.82         2.86         4.50         1.38 
TCGA-GC-A3RD TCGA-GD-A2C5 TCGA-GD-A3OQ TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3JX 
        1.02         7.69         3.12         6.38         4.37         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         4.11         6.64         5.33 
TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-LT-A5Z6 TCGA-MV-A51V 
        1.51         6.71         3.42         3.68 

$subtype2
TCGA-BL-A13I TCGA-BL-A5ZZ TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20O 
        7.33         6.48         6.58        11.93        19.00        12.16 
TCGA-BT-A20R TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD 
        5.06        14.93         5.06         8.25         5.88         3.65 
TCGA-BT-A3PK TCGA-BT-A42E TCGA-C4-A0F0 TCGA-C4-A0F1 TCGA-CF-A1HS TCGA-CU-A0YN 
        2.07         9.99         1.94         2.89         0.43        12.92 
TCGA-CU-A3KJ TCGA-DK-A1A3 TCGA-DK-A1AF TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 
        5.46         2.53        17.62        10.59         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IU TCGA-DK-A3WW 
       87.29         7.82         8.22        10.49        20.02         8.28 
TCGA-DK-A3WX TCGA-DK-A3WY TCGA-DK-A3X1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
       10.55       131.15        41.03         8.81        15.68         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SM 
        6.87         4.01        11.05        32.02        24.30         6.12 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A43U TCGA-FT-A61P TCGA-G2-A2EF TCGA-G2-A2EJ 
        5.49         4.54         6.84         6.44        61.94        30.61 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2ES TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OS 
        5.65        26.93        17.26         2.50         1.08        20.98 
TCGA-GU-A42Q TCGA-GV-A40E TCGA-K4-A3WU TCGA-K4-A3WV TCGA-K4-A4AB TCGA-K4-A4AC 
        7.56         6.38         3.42         4.64         2.50         6.48 
TCGA-LC-A66R 
        6.31 

$subtype3
TCGA-BL-A13J TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20T TCGA-C4-A0F7 TCGA-CF-A1HR 
        2.66        17.85        19.46        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 
        8.09         1.84        18.41         8.91        15.62         1.81 
TCGA-DK-A3IT TCGA-DK-A3IV TCGA-E7-A3Y1 TCGA-FD-A3SL TCGA-FD-A3SQ TCGA-FJ-A3ZE 
       15.09         9.67         0.10        10.98        46.78         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         1.32         2.10         3.22 
TCGA-GV-A3JW TCGA-K4-A3WS 
        6.41         8.71 

subtype1 subtype2 subtype3 
    0.07     0.43     0.07 
subtype1 subtype2 subtype3 
  130.85   131.15    46.78 
subtype1 subtype2 subtype3 
   6.265    7.760    5.655 
[1] "0.1 - 130.8 (6.3)" "0.4 - 131.2 (7.8)" "0.1 - 46.8 (5.7)" 
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [13] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [31] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [37] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [43] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [49] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [67] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [97] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[115] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[127] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[133] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[151] "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [13] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [31] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [37] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [43] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [49] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [67] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [97] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[115] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[127] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[133] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[151] "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
  [7] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [13] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [31] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [37] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [43] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [49] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [67] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [97] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[115] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype3"
[127] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[133] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[145] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[151] "subtype1"
D2V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       2       20        16       21
  subtype2       0       18        27       17
  subtype3       0       12         8       13
D2V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       22 25  8
  subtype2       14 33 10
  subtype3        8 13  7
D2V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 34  7 11  2
  subtype2 43  6  9  2
  subtype3 17  1 10  1
D2V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 33  2 25
  subtype2 35  1 27
  subtype3 25  2  7
D2V6, multiclass
D2V7, binary
          cls
clus        0  1
  subtype1 12 49
  subtype2 20 43
  subtype3  6 28
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   12   49
  subtype2   20   43
  subtype3    6   28
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       12       20        6
  MALE         49       43       28
D2V8, continuous
D2V9, continuous
D2V10, continuous

Clustering(3) Variable = RPPA_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1 25  6
  subtype2 16 11
  subtype3 19 15
  subtype4  2  2
  subtype5 13  7
subtype1 subtype2 subtype3 subtype4 subtype5 
      31       27       34        4       20 
subtype1 subtype2 subtype3 subtype4 subtype5 
       6       11       15        2        7 
$subtype1
TCGA-BL-A0C8 TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A3PH TCGA-C4-A0F6 TCGA-CF-A1HR 
       40.08        17.85        19.46         4.64        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         8.09         2.53        19.00       130.85 
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 
       32.02         3.48         4.08         0.82         2.86         7.69 
TCGA-GU-A42R TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40G TCGA-H4-A2HO 
        3.22         5.69         7.79         6.64         5.33         1.51 
TCGA-H4-A2HQ 
        6.71 

$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        15.09       131.15         8.81 
TCGA-FD-A3B4 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3SJ TCGA-FD-A3SL 
       15.68         6.87         4.01        11.05        24.30        10.98 
TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-GD-A3OP 
        6.12         5.49        46.78        19.79         1.94         2.10 
TCGA-GV-A3JV TCGA-K4-A3WU TCGA-K4-A3WV 
        4.37         3.42         4.64 

$subtype3
TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20T 
        2.66         6.74        19.00        32.84        12.16        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-C4-A0F1 TCGA-C4-A0F7 
       14.93         5.06         8.25         5.88         2.89         2.04 
TCGA-CF-A1HS TCGA-CU-A3KJ TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AE TCGA-DK-A2I2 
        0.43         5.46         2.14        31.40        16.14         7.76 
TCGA-DK-A2I4 TCGA-DK-A3IN TCGA-DK-A3IU TCGA-DK-A3X1 TCGA-E5-A2PC TCGA-FD-A3B5 
      123.85         8.22        20.02        41.03        43.59         8.94 
TCGA-FD-A3N5 TCGA-FD-A3SN TCGA-G2-A2EJ TCGA-G2-A2EO TCGA-G2-A2ES TCGA-GC-A3I6 
        8.94         6.81        30.61        35.24        17.26         2.24 
TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GV-A3QI TCGA-GV-A40E 
        2.50         1.08         4.11         6.38 

$subtype4
TCGA-BT-A0YX TCGA-DK-A3IQ TCGA-G2-A2EK TCGA-GD-A3OQ 
       11.93        10.49         5.65         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         4.54        15.16        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         8.71 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.10     1.81     0.43     3.12     2.07 
subtype1 subtype2 subtype3 subtype4 subtype5 
  130.85   131.15   123.85    11.93    61.94 
subtype1 subtype2 subtype3 subtype4 subtype5 
   6.640    6.870    8.235    8.070    9.325 
[1] "0.1 - 130.8 (6.6)" "1.8 - 131.2 (6.9)" "0.4 - 123.8 (8.2)"
[4] "3.1 - 11.9 (8.1)"  "2.1 - 61.9 (9.3)" 
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype4"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [19] "subtype5" "subtype1" "subtype5" "subtype5" "subtype2" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype5"
 [31] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [49] "subtype1" "subtype5" "subtype3" "subtype4" "subtype2" "subtype3"
 [55] "subtype5" "subtype5" "subtype5" "subtype2" "subtype3" "subtype1"
 [61] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [67] "subtype2" "subtype2" "subtype3" "subtype5" "subtype1" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype5" "subtype2"
 [79] "subtype2" "subtype2" "subtype5" "subtype1" "subtype1" "subtype5"
 [85] "subtype5" "subtype3" "subtype4" "subtype5" "subtype3" "subtype3"
 [91] "subtype5" "subtype5" "subtype1" "subtype1" "subtype3" "subtype3"
 [97] "subtype3" "subtype1" "subtype2" "subtype4" "subtype5" "subtype1"
[103] "subtype2" "subtype5" "subtype1" "subtype5" "subtype1" "subtype3"
[109] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype5"
[115] "subtype2" "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype4"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [19] "subtype5" "subtype1" "subtype5" "subtype5" "subtype2" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype5"
 [31] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [49] "subtype1" "subtype5" "subtype3" "subtype4" "subtype2" "subtype3"
 [55] "subtype5" "subtype5" "subtype5" "subtype2" "subtype3" "subtype1"
 [61] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [67] "subtype2" "subtype2" "subtype3" "subtype5" "subtype1" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype5" "subtype2"
 [79] "subtype2" "subtype2" "subtype5" "subtype1" "subtype1" "subtype5"
 [85] "subtype5" "subtype3" "subtype4" "subtype5" "subtype3" "subtype3"
 [91] "subtype5" "subtype5" "subtype1" "subtype1" "subtype3" "subtype3"
 [97] "subtype3" "subtype1" "subtype2" "subtype4" "subtype5" "subtype1"
[103] "subtype2" "subtype5" "subtype1" "subtype5" "subtype1" "subtype3"
[109] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype5"
[115] "subtype2" "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype4"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [19] "subtype5" "subtype1" "subtype5" "subtype5" "subtype2" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype5"
 [31] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
 [49] "subtype1" "subtype5" "subtype3" "subtype4" "subtype2" "subtype3"
 [55] "subtype5" "subtype5" "subtype5" "subtype2" "subtype3" "subtype1"
 [61] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
 [67] "subtype2" "subtype2" "subtype3" "subtype5" "subtype1" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype5" "subtype2"
 [79] "subtype2" "subtype2" "subtype5" "subtype1" "subtype1" "subtype5"
 [85] "subtype5" "subtype3" "subtype4" "subtype5" "subtype3" "subtype3"
 [91] "subtype5" "subtype5" "subtype1" "subtype1" "subtype3" "subtype3"
 [97] "subtype3" "subtype1" "subtype2" "subtype4" "subtype5" "subtype1"
[103] "subtype2" "subtype5" "subtype1" "subtype5" "subtype1" "subtype3"
[109] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype5"
[115] "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        15       11
  subtype4       0        1         2        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 20  5
  subtype4        0  2  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  1
  subtype4  3  1  0  0
  subtype5 11  2  2  0
D3V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 24  2  9
  subtype2 10  2 16
  subtype3 24  0 11
  subtype4  3  0  1
  subtype5  9  1 10
D3V6, multiclass
D3V7, binary
          cls
clus        0  1
  subtype1  7 29
  subtype2 10 18
  subtype3  8 27
  subtype4  1  3
  subtype5  6 14
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7   29
  subtype2   10   18
  subtype3    8   27
  subtype4    1    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

Clustering(4) Variable = RPPA_CHIERARCHICAL
D4V1, survival
          sevent
clus2       0  1
  subtype1 27  8
  subtype2 14  4
  subtype3 10 12
  subtype4 24 17
subtype1 subtype2 subtype3 subtype4 
      35       18       22       41 
subtype1 subtype2 subtype3 subtype4 
       8        4       12       17 
$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        17.85        19.46         2.89 
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         8.09         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-A3Y1 TCGA-FD-A3B5 TCGA-FD-A3NA TCGA-FD-A3SM TCGA-FJ-A3ZF 
       41.03         0.10         8.94        32.02         6.12         4.08 
TCGA-G2-A2EO TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GD-A3OQ TCGA-GU-A42R 
       35.24        20.12         0.82         2.86         3.12         3.22 
TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QK TCGA-GV-A40G TCGA-H4-A2HO 
        5.69         7.79         6.64         5.33         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 
        4.54        15.16         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         6.38         6.71 

$subtype3
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V 
       19.00        32.84        12.16        14.89        14.93         5.06 
TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A3PH TCGA-CF-A1HS TCGA-CU-A3KJ TCGA-DK-A1AC 
        8.25         5.88         4.64         0.43         5.46       130.85 
TCGA-DK-A1AE TCGA-DK-A3X2 TCGA-E5-A2PC TCGA-FD-A3B7 TCGA-FD-A3N6 TCGA-G2-A2EL 
       16.14        17.98        43.59         4.01        15.88        26.93 
TCGA-G2-A2ES TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GV-A3QI 
       17.26         2.50         1.08         4.11 

$subtype4
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20R TCGA-BT-A20W TCGA-BT-A2LD 
        7.33         6.74         6.58         5.06         8.35         3.65 
TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F7 TCGA-DK-A1AB TCGA-DK-A1AF TCGA-DK-A2HX 
        8.98         1.94         2.04         8.91        17.62         1.81 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ 
        7.76       123.85         2.20         3.98         8.22        10.49 
TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WY TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B6 
       15.09        20.02       131.15         8.81        15.68         6.87 
TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SN TCGA-FD-A3SO 
       11.05         8.94        24.30        10.98         6.81         5.49 
TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-G2-A2EK TCGA-GC-A3I6 TCGA-GD-A2C5 
       46.78        19.79         1.94         5.65         2.24         7.69 
TCGA-GD-A3OP TCGA-GV-A3JV TCGA-K4-A3WS TCGA-K4-A3WU TCGA-K4-A3WV 
        2.10         4.37         8.71         3.42         4.64 

subtype1 subtype2 subtype3 subtype4 
    0.10     2.07     0.43     1.81 
subtype1 subtype2 subtype3 subtype4 
  112.44    61.94   130.85   131.15 
subtype1 subtype2 subtype3 subtype4 
   6.640    8.050   13.525    7.690 
[1] "0.1 - 112.4 (6.6)"  "2.1 - 61.9 (8.1)"   "0.4 - 130.8 (13.5)"
[4] "1.8 - 131.2 (7.7)" 
  [1] "subtype1" "subtype4" "subtype1" "subtype4" "subtype4" "subtype1"
  [7] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype4"
 [13] "subtype3" "subtype3" "subtype3" "subtype4" "subtype3" "subtype3"
 [19] "subtype4" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
 [25] "subtype1" "subtype4" "subtype1" "subtype3" "subtype1" "subtype2"
 [31] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
 [43] "subtype1" "subtype4" "subtype1" "subtype4" "subtype4" "subtype4"
 [49] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
 [55] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype3"
 [61] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype4"
 [67] "subtype3" "subtype4" "subtype4" "subtype3" "subtype1" "subtype4"
 [73] "subtype4" "subtype1" "subtype4" "subtype4" "subtype2" "subtype4"
 [79] "subtype4" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype2" "subtype4" "subtype3" "subtype1" "subtype3"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
 [97] "subtype3" "subtype4" "subtype4" "subtype1" "subtype2" "subtype1"
[103] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[109] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[115] "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" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
 [25] "subtype1" "subtype4" "subtype1" "subtype3" "subtype1" "subtype2"
 [31] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
 [43] "subtype1" "subtype4" "subtype1" "subtype4" "subtype4" "subtype4"
 [49] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
 [55] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype3"
 [61] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype4"
 [67] "subtype3" "subtype4" "subtype4" "subtype3" "subtype1" "subtype4"
 [73] "subtype4" "subtype1" "subtype4" "subtype4" "subtype2" "subtype4"
 [79] "subtype4" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype2" "subtype4" "subtype3" "subtype1" "subtype3"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
 [97] "subtype3" "subtype4" "subtype4" "subtype1" "subtype2" "subtype1"
[103] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[109] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[115] "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" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
 [25] "subtype1" "subtype4" "subtype1" "subtype3" "subtype1" "subtype2"
 [31] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype4" "subtype3" "subtype1" "subtype3" "subtype4"
 [43] "subtype1" "subtype4" "subtype1" "subtype4" "subtype4" "subtype4"
 [49] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype4"
 [55] "subtype2" "subtype2" "subtype2" "subtype4" "subtype1" "subtype3"
 [61] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype4"
 [67] "subtype3" "subtype4" "subtype4" "subtype3" "subtype1" "subtype4"
 [73] "subtype4" "subtype1" "subtype4" "subtype4" "subtype2" "subtype4"
 [79] "subtype4" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
 [85] "subtype2" "subtype2" "subtype4" "subtype3" "subtype1" "subtype3"
 [91] "subtype2" "subtype1" "subtype1" "subtype1" "subtype4" "subtype3"
 [97] "subtype3" "subtype4" "subtype4" "subtype1" "subtype2" "subtype1"
[103] "subtype4" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[109] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype4"
[115] "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        10        7
  subtype4       0        8        13       21
D4V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       14 15  6
  subtype2        2  6  1
  subtype3        3 16  2
  subtype4        8 23 10
D4V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 23  4  7  1
  subtype2  9  0  2  1
  subtype3 15  3  4  0
  subtype4 22  5 11  3
D4V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 29  1 10
  subtype2  8  2  8
  subtype3 12  0 10
  subtype4 21  2 19
D4V6, multiclass
D4V7, binary
          cls
clus        0  1
  subtype1  6 35
  subtype2  5 13
  subtype3  6 16
  subtype4 15 27
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   35
  subtype2    5   13
  subtype3    6   16
  subtype4   15   27
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        6        5        6       15
  MALE         35       13       16       27
D4V8, continuous
D4V9, continuous
D4V10, continuous

Clustering(5) Variable = MRNASEQ_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 15 10
  subtype2 30 14
  subtype3 18  7
  subtype4 41 12
subtype1 subtype2 subtype3 subtype4 
      25       44       25       53 
subtype1 subtype2 subtype3 subtype4 
      10       14        7       12 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20V 
       40.08         7.33         6.74         6.58        19.00         5.06 
TCGA-BT-A2LA TCGA-C4-A0EZ TCGA-DK-A1AC TCGA-DK-A3X2 TCGA-E7-A4IJ TCGA-FD-A3SJ 
        5.88         8.98       130.85        17.98         0.49        24.30 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A2EL TCGA-G2-A3VY TCGA-GC-A3RB TCGA-GD-A3OS 
       15.16         4.08        26.93         0.82         4.50        20.98 
TCGA-GU-A42P TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QI TCGA-H4-A2HQ 
        6.38         6.15         5.69         7.79         4.11         6.71 
TCGA-K4-A3WV 
        4.64 

$subtype2
TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20N TCGA-BT-A20U TCGA-BT-A20X TCGA-BT-A3PK 
        2.66        11.93        32.84        14.93         8.25         2.07 
TCGA-BT-A42E TCGA-C4-A0F0 TCGA-C4-A0F1 TCGA-C4-A0F7 TCGA-CF-A1HS TCGA-CU-A0YN 
        9.99         1.94         2.89         2.04         0.43        12.92 
TCGA-CU-A3KJ TCGA-DK-A1AB TCGA-DK-A1AE TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IM 
        5.46         8.91        16.14         7.76        87.29         7.82 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
        8.28        10.55        43.59         8.81        15.68         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SN TCGA-FD-A3SO 
        6.87         4.01         8.94        15.88         6.81         5.49 
TCGA-FD-A3SS TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3I6 
        1.94        61.94        30.61        17.26         7.04         2.24 
TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OQ TCGA-GU-A42Q TCGA-GV-A40E 
        1.38         2.50         1.08         3.12         7.56         6.38 
TCGA-K4-A4AB TCGA-K4-A4AC 
        2.50         6.48 

$subtype3
TCGA-BT-A20O TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A2LD TCGA-DK-A1A3 TCGA-DK-A1A5 
       12.16        19.46         5.06         3.65         2.53         2.14 
TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I4 TCGA-DK-A3IN TCGA-DK-A3IT 
       17.62         1.81        10.59       123.85         8.22        15.09 
TCGA-DK-A3IU TCGA-DK-A3WY TCGA-FD-A3B8 TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SP 
       20.02       131.15        11.05        10.98         6.12         4.54 
TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43U TCGA-G2-A2EO TCGA-GC-A3OO TCGA-K4-A3WS 
       46.78        19.79         6.84        35.24         1.32         8.71 
TCGA-K4-A3WU 
        3.42 

$subtype4
TCGA-BT-A20P TCGA-BT-A20T TCGA-BT-A20W TCGA-BT-A3PH TCGA-C4-A0F6 TCGA-CF-A1HR 
       17.85        14.89         8.35         4.64        23.01         0.46 
TCGA-CF-A27C TCGA-CF-A47S TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W TCGA-CF-A47X 
        0.69         0.13         0.07         0.10         0.07         0.10 
TCGA-CF-A47Y TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-CU-A5W6 
        0.10         4.90         7.20         5.19         8.09         1.84 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AD TCGA-DK-A1AG TCGA-DK-A3IK 
       31.40        18.41        19.00       112.44        15.62         2.20 
TCGA-DK-A3IL TCGA-DK-A3IS TCGA-DK-A3IV TCGA-DK-A3X1 TCGA-E7-A3Y1 TCGA-E7-A4XJ 
        3.98        50.27         9.67        41.03         0.10         0.53 
TCGA-E7-A541 TCGA-E7-A5KE TCGA-FD-A3NA TCGA-FD-A43N TCGA-FJ-A3Z9 TCGA-FJ-A3ZE 
        0.56         0.56        32.02         7.89         7.10         3.48 
TCGA-FT-A3EE TCGA-G2-A2EC TCGA-G2-A2EK TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3RD 
        3.22        22.32         5.65        20.12         2.86         1.02 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3QF 
        7.69         2.10         3.22         4.37         6.41         7.63 
TCGA-GV-A3QK TCGA-GV-A40G TCGA-H4-A2HO TCGA-LT-A5Z6 TCGA-MV-A51V 
        6.64         5.33         1.51         3.42         3.68 

subtype1 subtype2 subtype3 subtype4 
    0.49     0.43     1.32     0.07 
subtype1 subtype2 subtype3 subtype4 
  130.85    87.29   131.15   112.44 
subtype1 subtype2 subtype3 subtype4 
    6.71     7.66    10.59     4.90 
[1] "0.5 - 130.8 (6.7)"  "0.4 - 87.3 (7.7)"   "1.3 - 131.2 (10.6)"
[4] "0.1 - 112.4 (4.9)" 
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
  [7] "subtype1" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [13] "subtype4" "subtype2" "subtype1" "subtype4" "subtype2" "subtype1"
 [19] "subtype3" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype2" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
 [31] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
 [43] "subtype4" "subtype3" "subtype3" "subtype4" "subtype4" "subtype4"
 [49] "subtype2" "subtype1" "subtype4" "subtype2" "subtype3" "subtype4"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype4"
 [61] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [67] "subtype4" "subtype2" "subtype2" "subtype3" "subtype4" "subtype1"
 [73] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype4"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype4" "subtype1" "subtype3" "subtype3"
 [91] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [97] "subtype4" "subtype3" "subtype1" "subtype4" "subtype4" "subtype1"
[103] "subtype4" "subtype4" "subtype2" "subtype2" "subtype4" "subtype1"
[109] "subtype3" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[115] "subtype2" "subtype3" "subtype1" "subtype2" "subtype4" "subtype2"
[121] "subtype2" "subtype4" "subtype4" "subtype2" "subtype1" "subtype1"
[127] "subtype2" "subtype4" "subtype4" "subtype4" "subtype1" "subtype1"
[133] "subtype4" "subtype1" "subtype1" "subtype4" "subtype2" "subtype4"
[139] "subtype4" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[145] "subtype2" "subtype4" "subtype4"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
  [7] "subtype1" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [13] "subtype4" "subtype2" "subtype1" "subtype4" "subtype2" "subtype1"
 [19] "subtype3" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype2" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
 [31] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
 [43] "subtype4" "subtype3" "subtype3" "subtype4" "subtype4" "subtype4"
 [49] "subtype2" "subtype1" "subtype4" "subtype2" "subtype3" "subtype4"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype4"
 [61] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [67] "subtype4" "subtype2" "subtype2" "subtype3" "subtype4" "subtype1"
 [73] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype4"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype4" "subtype1" "subtype3" "subtype3"
 [91] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [97] "subtype4" "subtype3" "subtype1" "subtype4" "subtype4" "subtype1"
[103] "subtype4" "subtype4" "subtype2" "subtype2" "subtype4" "subtype1"
[109] "subtype3" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[115] "subtype2" "subtype3" "subtype1" "subtype2" "subtype4" "subtype2"
[121] "subtype2" "subtype4" "subtype4" "subtype2" "subtype1" "subtype1"
[127] "subtype2" "subtype4" "subtype4" "subtype4" "subtype1" "subtype1"
[133] "subtype4" "subtype1" "subtype1" "subtype4" "subtype2" "subtype4"
[139] "subtype4" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[145] "subtype2" "subtype4" "subtype4"
  [1] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
  [7] "subtype1" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [13] "subtype4" "subtype2" "subtype1" "subtype4" "subtype2" "subtype1"
 [19] "subtype3" "subtype4" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype2" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
 [31] "subtype4" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
 [37] "subtype2" "subtype4" "subtype4" "subtype2" "subtype4" "subtype4"
 [43] "subtype4" "subtype3" "subtype3" "subtype4" "subtype4" "subtype4"
 [49] "subtype2" "subtype1" "subtype4" "subtype2" "subtype3" "subtype4"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype4"
 [61] "subtype4" "subtype2" "subtype3" "subtype4" "subtype3" "subtype3"
 [67] "subtype4" "subtype2" "subtype2" "subtype3" "subtype4" "subtype1"
 [73] "subtype2" "subtype4" "subtype1" "subtype4" "subtype4" "subtype4"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype4" "subtype1" "subtype3" "subtype3"
 [91] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [97] "subtype4" "subtype3" "subtype1" "subtype4" "subtype4" "subtype1"
[103] "subtype4" "subtype4" "subtype2" "subtype2" "subtype4" "subtype1"
[109] "subtype3" "subtype2" "subtype2" "subtype4" "subtype1" "subtype4"
[115] "subtype2" "subtype3" "subtype1" "subtype2" "subtype4" "subtype2"
[121] "subtype2" "subtype4" "subtype4" "subtype2" "subtype1" "subtype1"
[127] "subtype2" "subtype4" "subtype4" "subtype4" "subtype1" "subtype1"
[133] "subtype4" "subtype1" "subtype1" "subtype4" "subtype2" "subtype4"
[139] "subtype4" "subtype1" "subtype3" "subtype3" "subtype1" "subtype2"
[145] "subtype2" "subtype4" "subtype4"
D5V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        7         9        8
  subtype2       0       13        18       13
  subtype3       0        5         9       12
  subtype4       1       25        13       16
D5V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1        5 10  4
  subtype2       11 22  8
  subtype3        5 16  5
  subtype4       23 21  6
D5V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 12  2  4  1
  subtype2 30  6  3  2
  subtype3 14  2  9  1
  subtype4 36  4 12  1
D5V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 12  2 10
  subtype2 25  0 20
  subtype3 15  2  9
  subtype4 40  1 17
D5V6, multiclass
D5V7, binary
          cls
clus        0  1
  subtype1  6 19
  subtype2 12 33
  subtype3  6 20
  subtype4 13 45
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6   19
  subtype2   12   33
  subtype3    6   20
  subtype4   13   45
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        6       12        6       13
  MALE         19       33       20       45
D5V8, continuous
D5V9, continuous
D5V10, continuous

Clustering(6) Variable = MRNASEQ_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 20 10
  subtype2 43 11
  subtype3 41 22
subtype1 subtype2 subtype3 
      30       54       63 
subtype1 subtype2 subtype3 
      10       11       22 
$subtype1
TCGA-BL-A13J TCGA-BT-A20Q TCGA-BT-A20R TCGA-CF-A1HR TCGA-CU-A0YO TCGA-DK-A1A3 
        2.66        19.46         5.06         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       130.85       112.44        17.62         1.81        10.59 
TCGA-DK-A3IL TCGA-DK-A3IT TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SQ 
        3.98        15.09        24.30        10.98         6.12        46.78 
TCGA-FD-A3SR TCGA-FD-A43U TCGA-FJ-A3Z7 TCGA-G2-A2EC TCGA-G2-A2EK TCGA-G2-A2EO 
       19.79         6.84        15.16        22.32         5.65        35.24 
TCGA-GC-A3OO TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GV-A3JZ TCGA-K4-A3WS TCGA-K4-A3WU 
        1.32         7.69         2.10         5.69         8.71         3.42 

$subtype2
TCGA-BL-A0C8 TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A20T TCGA-BT-A20W TCGA-BT-A3PH 
       40.08        32.84        17.85        14.89         8.35         4.64 
TCGA-C4-A0F6 TCGA-CF-A27C TCGA-CF-A47S TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W 
       23.01         0.69         0.13         0.07         0.10         0.07 
TCGA-CF-A47X TCGA-CF-A47Y TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-CU-A5W6 
        0.10         0.10         7.20         5.19         8.09         1.84 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A3IK TCGA-DK-A3IS 
       31.40        18.41        19.00        15.62         2.20        50.27 
TCGA-DK-A3IV TCGA-DK-A3X1 TCGA-E7-A3Y1 TCGA-E7-A4IJ TCGA-E7-A4XJ TCGA-E7-A541 
        9.67        41.03         0.10         0.49         0.53         0.56 
TCGA-E7-A5KE TCGA-FD-A3NA TCGA-FD-A43N TCGA-FJ-A3Z9 TCGA-FJ-A3ZE TCGA-FJ-A3ZF 
        0.56        32.02         7.89         7.10         3.48         4.08 
TCGA-FT-A3EE TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3RD TCGA-GU-A42P 
        3.22        20.12         0.82         2.86         1.02         6.38 
TCGA-GU-A42R TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH 
        3.22         4.37         6.41         6.15         7.63         7.79 
TCGA-GV-A3QK TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-LT-A5Z6 TCGA-MV-A51V 
        6.64         5.33         1.51         6.71         3.42         3.68 

$subtype3
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20O 
        7.33         6.74         6.58        11.93        19.00        12.16 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A2LD TCGA-BT-A3PK 
       14.93         5.06         8.25         5.88         3.65         2.07 
TCGA-BT-A42E TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F1 TCGA-C4-A0F7 TCGA-CF-A1HS 
        9.99         8.98         1.94         2.89         2.04         0.43 
TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-DK-A1AB TCGA-DK-A1AE TCGA-DK-A2I2 TCGA-DK-A2I4 
       12.92         5.46         8.91        16.14         7.76       123.85 
TCGA-DK-A2I6 TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX 
       87.29         7.82         8.22        20.02         8.28        10.55 
TCGA-DK-A3WY TCGA-DK-A3X2 TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 
      131.15        17.98        43.59         8.81        15.68         8.94 
TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SN 
        6.87         4.01        11.05         8.94        15.88         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SS TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL 
        5.49         4.54         1.94        61.94        30.61        26.93 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3I6 TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3WC 
       17.26         7.04         2.24         4.50         1.38         2.50 
TCGA-GC-A3YS TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GV-A3QI TCGA-GV-A40E 
        1.08         3.12        20.98         7.56         4.11         6.38 
TCGA-K4-A3WV TCGA-K4-A4AB TCGA-K4-A4AC 
        4.64         2.50         6.48 

subtype1 subtype2 subtype3 
    0.46     0.07     0.43 
subtype1 subtype2 subtype3 
  130.85    50.27   131.15 
subtype1 subtype2 subtype3 
   7.265    5.260    7.760 
[1] "0.5 - 130.8 (7.3)" "0.1 - 50.3 (5.3)"  "0.4 - 131.2 (7.8)"
  [1] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [13] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [19] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [49] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [61] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [67] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[103] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[109] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[145] "subtype3" "subtype2" "subtype2"
  [1] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [13] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [19] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [49] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [61] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [67] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[103] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[109] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[145] "subtype3" "subtype2" "subtype2"
  [1] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [13] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [19] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [49] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [55] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [61] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [67] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[103] "subtype2" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
[109] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[115] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[139] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[145] "subtype3" "subtype2" "subtype2"
D6V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       0        5         5       19
  subtype2       2       26        16       13
  subtype3       0       19        28       17
D6V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1        4 16  8
  subtype2       25 19  5
  subtype3       15 34 10
D6V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 11  1 17  1
  subtype2 36  5  7  1
  subtype3 45  8  4  3
D6V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 17  2 11
  subtype2 39  2 17
  subtype3 36  1 28
D6V6, multiclass
D6V7, binary
          cls
clus        0  1
  subtype1  8 22
  subtype2 10 49
  subtype3 19 46
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8   22
  subtype2   10   49
  subtype3   19   46
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        8       10       19
  MALE         22       49       46
D6V8, continuous
D6V9, continuous
D6V10, continuous

Clustering(7) Variable = MIRSEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 26  8
  subtype2 28 19
  subtype3 50 17
subtype1 subtype2 subtype3 
      34       47       67 
subtype1 subtype2 subtype3 
       8       19       17 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20W TCGA-BT-A2LD TCGA-BT-A3PK 
       40.08         2.66        11.93         8.35         3.65         2.07 
TCGA-C4-A0F1 TCGA-CF-A47S TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A5W6 TCGA-DK-A1A5 
        2.89         0.13         7.20         5.19         1.84         2.14 
TCGA-DK-A1AC TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-DK-A3IT TCGA-FD-A3B7 
      130.85        10.59        87.29         2.20        15.09         4.01 
TCGA-FD-A3SN TCGA-FD-A3SS TCGA-FD-A43N TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A3VY 
        6.81         1.94         7.89        15.16         4.08         0.82 
TCGA-GC-A3YS TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3QF TCGA-GV-A40G TCGA-H4-A2HO 
        1.08         6.38         4.37         7.63         5.33         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WU TCGA-K4-A4AB TCGA-MV-A51V 
        6.71         3.42         2.50         3.68 

$subtype2
TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20Q TCGA-BT-A20R 
        7.33         6.58        19.00        12.16        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-C4-A0F0 
       14.89        14.93         5.06         8.25         5.88         1.94 
TCGA-C4-A0F7 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CU-A0YO TCGA-DK-A1A3 TCGA-DK-A1AB 
        2.04         0.46         0.43         4.90         2.53         8.91 
TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A2I4 TCGA-DK-A3IL 
      112.44        16.14        17.62         1.81       123.85         3.98 
TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IU TCGA-DK-A3WY TCGA-FD-A3B3 TCGA-FD-A3B4 
        8.22        10.49        20.02       131.15         8.81        15.68 
TCGA-FD-A3B8 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SP TCGA-FD-A3SQ 
       11.05        24.30        10.98         6.12         4.54        46.78 
TCGA-FD-A3SR TCGA-G2-A2EC TCGA-G2-A2EK TCGA-GC-A3OO TCGA-GC-A3WC TCGA-GD-A2C5 
       19.79        22.32         5.65         1.32         2.50         7.69 
TCGA-GD-A3OP TCGA-GD-A3OS TCGA-K4-A3WS TCGA-K4-A3WV TCGA-K4-A4AC 
        2.10        20.98         8.71         4.64         6.48 

$subtype3
TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A3PH TCGA-BT-A42E TCGA-C4-A0EZ 
        6.74        32.84        17.85         4.64         9.99         8.98 
TCGA-C4-A0F6 TCGA-CF-A27C TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W TCGA-CF-A47X 
       23.01         0.69         0.07         0.10         0.07         0.10 
TCGA-CF-A47Y TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A6 TCGA-DK-A1A7 
        0.10        12.92         5.46         8.09        31.40        18.41 
TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A2I2 TCGA-DK-A3IM TCGA-DK-A3IS TCGA-DK-A3IV 
       19.00        15.62         7.76         7.82        50.27         9.67 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3X1 TCGA-DK-A3X2 TCGA-E5-A2PC TCGA-E7-A3Y1 
        8.28        10.55        41.03        17.98        43.59         0.10 
TCGA-E7-A4IJ TCGA-E7-A4XJ TCGA-E7-A541 TCGA-E7-A5KE TCGA-FD-A3B5 TCGA-FD-A3B6 
        0.49         0.53         0.56         0.56         8.94         6.87 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SO TCGA-FD-A43U TCGA-FJ-A3Z9 
        8.94        15.88        32.02         5.49         6.84         7.10 
TCGA-FJ-A3ZE TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A2EO 
        3.48         3.22        61.94        30.61        26.93        35.24 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3RB 
       17.26         7.04        20.12         2.86         2.24         4.50 
TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GD-A3OQ TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JW 
        1.38         1.02         3.12         7.56         3.22         6.41 
TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E 
        6.15         5.69         7.79         4.11         6.64         6.38 
TCGA-LT-A5Z6 
        3.42 

subtype1 subtype2 subtype3 
    0.13     0.43     0.07 
subtype1 subtype2 subtype3 
  130.85   131.15    61.94 
subtype1 subtype2 subtype3 
   4.225    8.250    7.040 
[1] "0.1 - 130.8 (4.2)" "0.4 - 131.2 (8.2)" "0.1 - 61.9 (7.0)" 
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [67] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [85] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[103] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[115] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[127] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [67] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [85] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[103] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[115] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[127] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [25] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
 [67] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [85] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[103] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[115] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[127] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype3" "subtype1"
D7V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        8        13       15
  subtype2       0       10        15       20
  subtype3       1       32        22       14
D7V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       12 16  7
  subtype2        8 26 10
  subtype3       24 28  6
D7V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 21  6  6  2
  subtype2 26  2 17  0
  subtype3 46  6  5  3
D7V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 21  1 15
  subtype2 27  2 18
  subtype3 45  2 23
D7V6, multiclass
D7V7, binary
          cls
clus        0  1
  subtype1  4 34
  subtype2 18 29
  subtype3 15 55
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   34
  subtype2   18   29
  subtype3   15   55
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        4       18       15
  MALE         34       29       55
D7V8, continuous
D7V9, continuous
D7V10, continuous

Clustering(8) Variable = MIRSEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 23  8
  subtype2 76 34
  subtype3  5  2
subtype1 subtype2 subtype3 
      31      110        7 
subtype1 subtype2 subtype3 
       8       34        2 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20W TCGA-BT-A2LD TCGA-BT-A3PH 
       40.08         2.66        11.93         8.35         3.65         4.64 
TCGA-BT-A3PK TCGA-C4-A0F1 TCGA-CF-A47S TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A5W6 
        2.07         2.89         0.13         7.20         5.19         1.84 
TCGA-DK-A1A5 TCGA-DK-A1AC TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-FD-A3SS TCGA-FD-A43N 
        2.14       130.85        87.29         2.20         1.94         7.89 
TCGA-FJ-A3Z7 TCGA-FJ-A3ZF TCGA-G2-A3VY TCGA-GC-A3YS TCGA-GU-A42P TCGA-GV-A3JV 
       15.16         4.08         0.82         1.08         6.38         4.37 
TCGA-GV-A3QF TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WU TCGA-K4-A4AB 
        7.63         5.33         1.51         6.71         3.42         2.50 
TCGA-MV-A51V 
        3.68 

$subtype2
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O 
        7.33         6.74         6.58        19.00        32.84        12.16 
TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V 
       17.85        19.46         5.06        14.89        14.93         5.06 
TCGA-BT-A20X TCGA-BT-A2LA TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-C4-A0F7 
        8.25         5.88         8.98         1.94        23.01         2.04 
TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W 
        0.46         0.43         0.69         0.07         0.10         0.07 
TCGA-CF-A47X TCGA-CF-A47Y TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A3YL TCGA-DK-A1A3 
        0.10         0.10        12.92         4.90         8.09         2.53 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE 
       31.40        18.41        19.00         8.91       112.44        16.14 
TCGA-DK-A1AF TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I4 
       17.62        15.62         1.81        10.59         7.76       123.85 
TCGA-DK-A3IL TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT TCGA-DK-A3IU 
        3.98         8.22        10.49        50.27        15.09        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       131.15        41.03        17.98 
TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-E7-A4IJ TCGA-E7-A4XJ TCGA-E7-A541 TCGA-E7-A5KE 
       43.59         0.10         0.49         0.53         0.56         0.56 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B8 TCGA-FD-A3N5 
        8.81        15.68         8.94         6.87        11.05         8.94 
TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SP 
       15.88        32.02        24.30        10.98         6.12         4.54 
TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43U TCGA-FJ-A3Z9 TCGA-FJ-A3ZE TCGA-FT-A3EE 
       46.78        19.79         6.84         7.10         3.48         3.22 
TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO 
       22.32        61.94        30.61         5.65        26.93        35.24 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO 
       17.26         7.04        20.12         2.86         2.24         1.32 
TCGA-GC-A3RB TCGA-GC-A3RD TCGA-GC-A3WC TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ 
        4.50         1.02         2.50         7.69         2.10         3.12 
TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ 
       20.98         7.56         3.22         6.41         6.15         5.69 
TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40E TCGA-K4-A3WS TCGA-K4-A3WV 
        7.79         4.11         6.64         6.38         8.71         4.64 
TCGA-K4-A4AC TCGA-LT-A5Z6 
        6.48         3.42 

$subtype3
TCGA-BT-A42E TCGA-CU-A3KJ TCGA-DK-A3IM TCGA-FD-A3B7 TCGA-FD-A3SN TCGA-FD-A3SO 
        9.99         5.46         7.82         4.01         6.81         5.49 
TCGA-GC-A3RC 
        1.38 

subtype1 subtype2 subtype3 
    0.13     0.07     1.38 
subtype1 subtype2 subtype3 
  130.85   131.15     9.99 
subtype1 subtype2 subtype3 
   4.080    7.775    5.490 
[1] "0.1 - 130.8 (4.1)" "0.1 - 131.2 (7.8)" "1.4 - 10.0 (5.5)" 
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[133] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype2" "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[133] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype2" "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype2"
 [25] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [31] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [43] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[133] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype2" "subtype1"
D8V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        7        11       15
  subtype2       1       42        35       32
  subtype3       0        1         4        2
D8V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       11 14  7
  subtype2       32 50 16
  subtype3        1  6  0
D8V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 17  6  7  2
  subtype2 70  7 21  3
  subtype3  6  1  0  0
D8V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 19  1 14
  subtype2 70  4 39
  subtype3  4  0  3
D8V6, multiclass
D8V7, binary
          cls
clus        0  1
  subtype1  3 32
  subtype2 34 79
  subtype3  0  7
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   32
  subtype2   34   79
  subtype3    0    7
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        3       34        0
  MALE         32       79        7
D8V8, continuous
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 
       8       37        1 
 [1] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [7] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[31] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[37] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[43] "subtype2" "subtype2" "subtype1"
D8V9, continuous
D8V10, continuous

Clustering(9) Variable = MIRSEQ_MATURE_CNMF
D9V1, survival
          sevent
clus2       0  1
  subtype1 19  8
  subtype2 42 22
  subtype3 43 14
subtype1 subtype2 subtype3 
      27       64       57 
subtype1 subtype2 subtype3 
       8       22       14 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20T TCGA-BT-A20W TCGA-BT-A2LD 
       40.08         2.66        11.93        14.89         8.35         3.65 
TCGA-C4-A0F1 TCGA-CF-A47S TCGA-CU-A0YR TCGA-CU-A5W6 TCGA-DK-A1A5 TCGA-DK-A1AC 
        2.89         0.13         7.20         1.84         2.14       130.85 
TCGA-DK-A2I6 TCGA-DK-A3IK TCGA-FD-A3SS TCGA-FD-A43N TCGA-FJ-A3Z7 TCGA-G2-A3VY 
       87.29         2.20         1.94         7.89        15.16         0.82 
TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3QF TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
        6.38         4.37         7.63         5.33         1.51         6.71 
TCGA-K4-A3WU TCGA-K4-A4AB TCGA-MV-A51V 
        3.42         2.50         3.68 

$subtype2
TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20Q TCGA-BT-A20R 
        7.33         6.58        19.00        12.16        19.46         5.06 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A3PK TCGA-C4-A0F0 
       14.93         5.06         8.25         5.88         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         7.76 
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        15.09        20.02 
TCGA-DK-A3WW TCGA-DK-A3WY TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
        8.28       131.15         8.81        15.68         8.94         6.87 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM 
        4.01        11.05         8.94        24.30        10.98         6.12 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A43U 
        6.81         5.49         4.54        46.78        19.79         6.84 
TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EK TCGA-G2-A2EO TCGA-G2-A2ES TCGA-GC-A3I6 
       22.32        61.94         5.65        35.24        17.26         2.24 
TCGA-GC-A3OO TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OS 
        1.32         2.50         1.08         7.69         2.10        20.98 
TCGA-GU-A42Q TCGA-K4-A3WS TCGA-K4-A3WV TCGA-K4-A4AC 
        7.56         8.71         4.64         6.48 

$subtype3
TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A3PH TCGA-BT-A42E TCGA-C4-A0EZ 
        6.74        32.84        17.85         4.64         9.99         8.98 
TCGA-C4-A0F6 TCGA-C4-A0F7 TCGA-CF-A27C TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W 
       23.01         2.04         0.69         0.07         0.10         0.07 
TCGA-CF-A47X TCGA-CF-A47Y TCGA-CU-A0YN TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A6 
        0.10         0.10        12.92         5.19         8.09        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A3IM TCGA-DK-A3IS TCGA-DK-A3IV 
       18.41        19.00        15.62         7.82        50.27         9.67 
TCGA-DK-A3WX TCGA-DK-A3X1 TCGA-DK-A3X2 TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-E7-A4IJ 
       10.55        41.03        17.98        43.59         0.10         0.49 
TCGA-E7-A4XJ TCGA-E7-A541 TCGA-E7-A5KE TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FJ-A3Z9 
        0.53         0.56         0.56        15.88        32.02         7.10 
TCGA-FJ-A3ZE TCGA-FJ-A3ZF TCGA-FT-A3EE TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A3IB 
        3.48         4.08         3.22        30.61        26.93         7.04 
TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD TCGA-GD-A3OQ 
       20.12         2.86         4.50         1.38         1.02         3.12 
TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QI 
        3.22         6.41         6.15         5.69         7.79         4.11 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-LT-A5Z6 
        6.64         6.38         3.42 

subtype1 subtype2 subtype3 
    0.13     0.43     0.07 
subtype1 subtype2 subtype3 
  130.85   131.15    50.27 
subtype1 subtype2 subtype3 
    4.37     7.99     6.41 
[1] "0.1 - 130.8 (4.4)" "0.4 - 131.2 (8.0)" "0.1 - 50.3 (6.4)" 
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [25] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [67] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[127] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [25] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [67] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[127] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [13] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [25] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [43] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [49] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [61] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [67] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[115] "subtype3" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[127] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[133] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[145] "subtype1" "subtype2" "subtype3" "subtype1"
D9V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        6        10       13
  subtype2       0       16        22       24
  subtype3       1       28        18       12
D9V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1        9 13  7
  subtype2       13 37 10
  subtype3       22 20  6
D9V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 15  5  6  2
  subtype2 40  4 17  1
  subtype3 38  5  5  2
D9V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 18  1 11
  subtype2 35  2 27
  subtype3 40  2 18
D9V6, multiclass
D9V7, binary
          cls
clus        0  1
  subtype1  3 28
  subtype2 20 44
  subtype3 14 46
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   28
  subtype2   20   44
  subtype3   14   46
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        3       20       14
  MALE         28       44       46
D9V8, continuous
D9V9, continuous
D9V10, continuous

Clustering(10) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D10V1, survival
          sevent
clus2       0  1
  subtype1 34 11
  subtype2 53 28
  subtype3 17  5
subtype1 subtype2 subtype3 
      45       81       22 
subtype1 subtype2 subtype3 
      11       28        5 
$subtype1
TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F6 TCGA-CF-A27C 
        6.74        32.84         4.64         8.98        23.01         0.69 
TCGA-CF-A47T TCGA-CF-A47V TCGA-CF-A47W TCGA-CF-A47X TCGA-CF-A47Y TCGA-CU-A0YN 
        0.07         0.10         0.07         0.10         0.10        12.92 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A3IS TCGA-DK-A3IV 
       31.40        18.41        19.00        15.62        50.27         9.67 
TCGA-DK-A3X1 TCGA-DK-A3X2 TCGA-E5-A2PC TCGA-E7-A3Y1 TCGA-E7-A4IJ TCGA-E7-A4XJ 
       41.03        17.98        43.59         0.10         0.49         0.53 
TCGA-E7-A541 TCGA-E7-A5KE TCGA-FD-A3NA TCGA-FD-A43N TCGA-FJ-A3Z9 TCGA-FJ-A3ZE 
        0.56         0.56        32.02         7.89         7.10         3.48 
TCGA-FT-A3EE TCGA-G2-A2EL TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RD 
        3.22        26.93        20.12         2.86         4.50         1.02 
TCGA-GD-A3OQ TCGA-GU-A42R TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QH 
        3.12         3.22         6.41         6.15         5.69         7.79 
TCGA-GV-A3QI TCGA-GV-A3QK TCGA-LT-A5Z6 
        4.11         6.64         3.42 

$subtype2
TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q 
        7.33         6.58        19.00        12.16        17.85        19.46 
TCGA-BT-A20R TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA 
        5.06        14.89        14.93         5.06         8.25         5.88 
TCGA-BT-A3PK TCGA-BT-A42E TCGA-C4-A0F0 TCGA-C4-A0F1 TCGA-C4-A0F7 TCGA-CF-A1HR 
        2.07         9.99         1.94         2.89         2.04         0.46 
TCGA-CF-A1HS TCGA-CU-A0YO TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 
        0.43         4.90         5.46         8.09         2.53         2.14 
TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A2I1 
        8.91       112.44        16.14        17.62         1.81        10.59 
TCGA-DK-A2I2 TCGA-DK-A2I4 TCGA-DK-A2I6 TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN 
        7.76       123.85        87.29         3.98         7.82         8.22 
TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY 
       10.49        15.09        20.02         8.28        10.55       131.15 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81        15.68         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SJ TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
        8.94        15.88        24.30        10.98         6.12         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-FD-A3SS TCGA-FD-A43U 
        5.49         4.54        46.78        19.79         1.94         6.84 
TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EO TCGA-G2-A2ES 
       22.32        61.94        30.61         5.65        35.24        17.26 
TCGA-G2-A3IB TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GC-A3YS 
        7.04         2.24         1.32         1.38         2.50         1.08 
TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GV-A40E TCGA-K4-A3WS 
        7.69         2.10        20.98         7.56         6.38         8.71 
TCGA-K4-A3WV TCGA-K4-A4AB TCGA-K4-A4AC 
        4.64         2.50         6.48 

$subtype3
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20W TCGA-BT-A2LD TCGA-CF-A47S 
       40.08         2.66        11.93         8.35         3.65         0.13 
TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A5W6 TCGA-DK-A1AC TCGA-DK-A3IK TCGA-FJ-A3Z7 
        7.20         5.19         1.84       130.85         2.20        15.16 
TCGA-FJ-A3ZF TCGA-G2-A3VY TCGA-GU-A42P TCGA-GV-A3JV TCGA-GV-A3QF TCGA-GV-A40G 
        4.08         0.82         6.38         4.37         7.63         5.33 
TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WU TCGA-MV-A51V 
        1.51         6.71         3.42         3.68 

subtype1 subtype2 subtype3 
    0.07     0.43     0.13 
subtype1 subtype2 subtype3 
   50.27   131.15   130.85 
subtype1 subtype2 subtype3 
    6.15     7.82     4.78 
[1] "0.1 - 50.3 (6.2)"  "0.4 - 131.2 (7.8)" "0.1 - 130.8 (4.8)"
  [1] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [19] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [31] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [43] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[103] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[115] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[127] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[133] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype1" "subtype3"
  [1] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [19] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [31] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [43] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[103] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[115] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[127] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[133] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype1" "subtype3"
  [1] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
  [7] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [13] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [19] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [25] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [31] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
 [43] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
 [73] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[103] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[115] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[121] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[127] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
[133] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[145] "subtype2" "subtype2" "subtype1" "subtype3"
D10V2, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1       23        14       10
  subtype2       0       22        29       28
  subtype3       1        5         7       11
D10V3, multiclass
          vv
clus       T0+T1+T2 T3 T4
  subtype1       19 18  4
  subtype2       17 43 14
  subtype3        8  9  5
D10V4, multiclass
          vv
clus       N0 N1 N2 N3
  subtype1 31  4  4  2
  subtype2 51  6 18  2
  subtype3 11  4  6  1
D10V5, multiclass
          vv
clus       M0 M1 MX
  subtype1 31  2 16
  subtype2 47  2 32
  subtype3 15  1  8
D10V6, multiclass
D10V7, binary
          cls
clus        0  1
  subtype1 10 39
  subtype2 24 57
  subtype3  3 22
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   10   39
  subtype2   24   57
  subtype3    3   22
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       10       24        3
  MALE         39       57       22
D10V8, continuous
D10V9, continuous
D10V10, continuous
> q(save="no")
