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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.84.4098/Clusters2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.84.4098/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/BLCA-TP/2662494/1.GDAC_mergedClustering.Finished/BLCA-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/BLCA-TP/2585709/1.GDAC_clinicalDataPicker.Finished/BLCA-TP.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"  "-oT="
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  

nPatients in clinical file=128, in cluster file=153, common to both=128
[1]   8 128
[1] "CN_CNMF"
[1] 3
 1  2  3  4  5  6 
13 41 20 26 10 15 
 1  2  3  4  5  6 
13 41 20 26 10 15 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3  4 
30 45 33 20 
 1  2  3  4 
30 45 33 20 
[1] "RPPA_CNMF"
[1] 3
 1  2  3  4 
12 10 14 17 
 1  2  3  4 
12 10 14 17 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3 
14 17 22 
 1  2  3 
14 17 22 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3 
49 31 35 
 1  2  3 
49 31 35 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
37 17 61 
 1  2  3 
37 17 61 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3 
27 60 35 
 1  2  3 
27 60 35 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
17 88 17 
 1  2  3 
17 88 17 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "DAYSTOLASTKNOWNALIVE"                  
[10] "RADIATIONTHERAPY"                      
[11] "KARNOFSKYPERFORMANCESCORE"             
[12] "RADIATIONS.RADIATION.REGIMENINDICATION"
[13] "NUMBERPACKYEARSSMOKED"                 
[14] "STOPPEDSMOKINGYEAR"                    
[15] "TOBACCOSMOKINGHISTORYINDICATOR"        
[16] "DISTANT.METASTASIS"                    
[17] "LYMPH.NODE.METASTASIS"                 
[18] "NUMBER.OF.LYMPH.NODES"                 
[19] "TUMOR.STAGECODE"                       
[20] "NEOPLASM.DISEASESTAGE"                 
[21] "BATCHNUMBER"                           

Input Data has 21 rows and 128 columns.

[1] "Batch" "21"   
[1] "Last Follow UP"
TCGA-BL-A0C8 TCGA-BL-A13I TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A0YX 
         389           NA           NA           NA           NA          363 
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
          NA           NA           NA           NA           NA           NA 
TCGA-BT-A20T TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20W TCGA-BT-A20X TCGA-BT-A2LA 
          NA           NA           NA           NA           NA          179 
TCGA-BT-A2LD TCGA-BT-A3PH TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-C4-A0F1 TCGA-C4-A0F6 
         111           NA           NA           59           88           61 
TCGA-C4-A0F7 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C TCGA-CF-A3MF TCGA-CF-A3MG 
          NA           14           13           21           NA           NA 
TCGA-CF-A3MH TCGA-CF-A3MI TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ 
          NA           NA           NA           NA          219          166 
TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1A7 
         158          246           77           NA          955          273 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AC TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF 
         214          271         3616         3056          218          178 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IK 
         202           55          322           NA         2291           67 
TCGA-DK-A3IL TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-DK-A3IT 
         121          238           NA          319         1151          168 
TCGA-DK-A3IU TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
         350           NA          252           NA         3989         1108 
TCGA-E7-A3X6 TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 
          NA            3          268          253           NA          209 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SL 
          NA          336          272          242          974          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-A43U TCGA-FT-A3EE TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EJ 
          59          208           71          417         1518          806 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
         172           NA          997          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-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX 
         177          194          230          133          195          187 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QG TCGA-GV-A3QH TCGA-GV-A3QI TCGA-GV-A3QK 
         173          232           NA          237          125          202 
TCGA-GV-A40E TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-HQ-A2OE TCGA-K4-A3WS 
         194          162           46          204           NA          265 
TCGA-K4-A3WU TCGA-K4-A3WV 
         104          141 
Variable 1:'AGE':	nDistinctValues=43,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=31,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=86,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=13,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'KARNOFSKY.PERFORMANCE.SCORE':	nDistinctValues=7,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 12:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 13:'NUMBERPACKYEARSSMOKED':	nDistinctValues=34,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 14:'STOPPEDSMOKINGYEAR':	nDistinctValues=35,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 15:'TOBACCOSMOKINGHISTORYINDICATOR':	nDistinctValues=5,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 16:'DISTANT.METASTASIS':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'LYMPH.NODE.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 18:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=13,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 19:'TUMOR.STAGECODE':	nDistinctValues=10,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 20:'NEOPLASM.DISEASESTAGE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 21:'BATCH.NUMBER':	nDistinctValues=15,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                            "GENDER"                        
 [3] "KARNOFSKY.PERFORMANCE.SCORE"    "NUMBERPACKYEARSSMOKED"         
 [5] "STOPPEDSMOKINGYEAR"             "TOBACCOSMOKINGHISTORYINDICATOR"
 [7] "DISTANT.METASTASIS"             "LYMPH.NODE.METASTASIS"         
 [9] "NUMBER.OF.LYMPH.NODES"          "TUMOR.STAGECODE"               
[11] "NEOPLASM.DISEASESTAGE"         
[1] "TUMOR.?STAGE" "10"          
[1] "stage2"
vv
 T1  T2 T2A T2B  T3 T3A T3B  T4 T4A T4B 
  1   6   4  19  24  21  19   2  17   1 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 128 columns, 1 survival variables, and 11 non-survival variables.
AGE, nv=43, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
KARNOFSKY.PERFORMANCE.SCORE, nv=7, binary=FALSE, numeric=TRUE
NUMBERPACKYEARSSMOKED, nv=34, binary=FALSE, numeric=TRUE
STOPPEDSMOKINGYEAR, nv=35, binary=FALSE, numeric=TRUE
TOBACCOSMOKINGHISTORYINDICATOR, nv=5, binary=FALSE, numeric=TRUE
DISTANT.METASTASIS, nv=3, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
NUMBER.OF.LYMPH.NODES, nv=13, binary=FALSE, numeric=TRUE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=4, binary=FALSE, numeric=FALSE

Clustering(1) Variable = CN_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 11  2
  subtype2 27 12
  subtype3 15  4
  subtype4 18  5
  subtype5  5  5
  subtype6 11  3
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
      13       39       19       23       10       14 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
       2       12        4        5        5        3 
$subtype1
TCGA-BL-A0C8 TCGA-BT-A20W TCGA-CU-A0YR TCGA-DK-A1A6 TCGA-DK-A1AC TCGA-DK-A3IK 
       12.79         8.35         7.20        31.40       118.88         2.20 
TCGA-G2-A3IE TCGA-GC-A3RB TCGA-GV-A3JV TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A40E 
       20.12         4.50         4.37         5.69         7.79         6.38 
TCGA-H4-A2HQ 
        6.71 

$subtype2
TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20O TCGA-BT-A20R TCGA-BT-A20U 
        7.33         6.58        11.93        12.16         5.06         8.61 
TCGA-BT-A20X TCGA-C4-A0F0 TCGA-CU-A0YO TCGA-DK-A1AA TCGA-DK-A1AE TCGA-DK-A1AF 
        8.25         1.94         4.90         7.04         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A3IN TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX 
        6.64         8.22         5.52        11.51         8.28        10.55 
TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B7 TCGA-FD-A3B8 
      131.15         0.10         8.81         8.32         4.01        11.05 
TCGA-FD-A3N6 TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FD-A3SP TCGA-G2-A2EK TCGA-G2-A2EL 
        7.96         6.12         5.49         4.54         5.65        26.93 
TCGA-G2-A3IB TCGA-GC-A3OO TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GD-A3OP TCGA-GD-A3OQ 
        7.04         1.32         1.38         2.50         2.10         3.12 
TCGA-H4-A2HO TCGA-K4-A3WS TCGA-K4-A3WU 
        1.51         8.71         3.42 

$subtype3
TCGA-BL-A13J TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A2LA TCGA-CF-A1HS TCGA-CU-A3KJ 
        2.66        19.00        26.10         5.88         0.43         5.46 
TCGA-DK-A1A7 TCGA-DK-A1AD TCGA-DK-A3IM TCGA-FD-A3SN TCGA-FD-A3SR TCGA-G2-A2EF 
        8.98       100.47         7.82         6.81        19.79        49.91 
TCGA-G2-A3VY TCGA-GC-A3YS TCGA-GD-A2C5 TCGA-GD-A3OS TCGA-GV-A3JW TCGA-GV-A40G 
        0.82         1.08         7.69         5.82         6.41         5.33 
TCGA-K4-A3WV 
        4.64 

$subtype4
TCGA-BL-A3JM TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20T TCGA-C4-A0F6 TCGA-CF-A1HR 
        6.74        17.85        19.46        14.89         2.01         0.46 
TCGA-CF-A27C TCGA-CU-A3YL TCGA-DK-A1AB TCGA-DK-A3IQ TCGA-DK-A3IS TCGA-E5-A2PC 
        0.69         8.09         8.91        10.49        37.84        36.43 
TCGA-FD-A3NA TCGA-FD-A3SQ TCGA-FD-A43U TCGA-G2-A2EJ TCGA-G2-A2EO TCGA-G2-A2ES 
       32.02        46.78         6.84        26.50        32.78        17.26 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GU-A42Q TCGA-GV-A3QI TCGA-GV-A3QK 
        2.86         2.24         7.56         4.11         6.64 

$subtype5
TCGA-BT-A20V TCGA-BT-A2LD TCGA-C4-A0EZ TCGA-CU-A0YN TCGA-CU-A3QU TCGA-DK-A2I2 
        5.06         3.65         8.98        12.92         5.19         7.76 
TCGA-DK-A3IV TCGA-FD-A3B6 TCGA-FD-A3N5 TCGA-GV-A3JX 
        9.67         6.87         8.94         6.15 

$subtype6
TCGA-BT-A3PH TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A2I6 
        4.64         2.53         2.14         1.81        10.59        75.32 
TCGA-DK-A3IL TCGA-FD-A3B5 TCGA-FD-A3SL TCGA-FD-A3SS TCGA-FT-A3EE TCGA-GC-A3RD 
        3.98         8.94        10.98         1.94         2.33         1.02 
TCGA-GU-A42P TCGA-GV-A3QF 
        6.38         7.63 

subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
    2.20     0.10     0.43     0.46     3.65     1.02 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
  118.88   131.15   100.47    46.78    12.92    75.32 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
   7.200    6.640    6.410    8.910    7.315    4.310 
[1] "2.2 - 118.9 (7.2)" "0.1 - 131.2 (6.6)" "0.4 - 100.5 (6.4)"
[4] "0.5 - 46.8 (8.9)"  "3.6 - 12.9 (7.3)"  "1.0 - 75.3 (4.3)" 
  [1] "subtype1" "subtype2" "subtype3" "subtype4" "subtype2" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype4" "subtype4" "subtype2"
 [13] "subtype4" "subtype2" "subtype5" "subtype1" "subtype2" "subtype3"
 [19] "subtype5" "subtype6" "subtype5" "subtype2" "subtype4" "subtype4"
 [25] "subtype3" "subtype4" "subtype5" "subtype2" "subtype1" "subtype3"
 [31] "subtype5" "subtype4" "subtype6" "subtype6" "subtype1" "subtype3"
 [37] "subtype2" "subtype4" "subtype1" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype6" "subtype6" "subtype5" "subtype6" "subtype1"
 [49] "subtype6" "subtype3" "subtype2" "subtype4" "subtype4" "subtype2"
 [55] "subtype2" "subtype5" "subtype2" "subtype2" "subtype2" "subtype4"
 [61] "subtype2" "subtype2" "subtype2" "subtype6" "subtype5" "subtype2"
 [67] "subtype2" "subtype5" "subtype2" "subtype4" "subtype6" "subtype2"
 [73] "subtype3" "subtype2" "subtype2" "subtype4" "subtype3" "subtype6"
 [79] "subtype4" "subtype6" "subtype3" "subtype4" "subtype2" "subtype2"
 [85] "subtype4" "subtype4" "subtype2" "subtype1" "subtype3" "subtype4"
 [91] "subtype4" "subtype2" "subtype1" "subtype2" "subtype6" "subtype2"
 [97] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype6"
[103] "subtype4" "subtype1" "subtype3" "subtype5" "subtype1" "subtype6"
[109] "subtype1" "subtype4" "subtype4" "subtype1" "subtype3" "subtype2"
[115] "subtype1" "subtype2" "subtype2" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype4" "subtype2" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype4" "subtype4" "subtype2"
 [13] "subtype4" "subtype2" "subtype5" "subtype1" "subtype2" "subtype3"
 [19] "subtype5" "subtype6" "subtype5" "subtype2" "subtype4" "subtype4"
 [25] "subtype3" "subtype4" "subtype5" "subtype2" "subtype1" "subtype3"
 [31] "subtype5" "subtype4" "subtype6" "subtype6" "subtype1" "subtype3"
 [37] "subtype2" "subtype4" "subtype1" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype6" "subtype6" "subtype5" "subtype6" "subtype1"
 [49] "subtype6" "subtype3" "subtype2" "subtype4" "subtype4" "subtype2"
 [55] "subtype2" "subtype5" "subtype2" "subtype2" "subtype2" "subtype4"
 [61] "subtype2" "subtype2" "subtype2" "subtype6" "subtype5" "subtype2"
 [67] "subtype2" "subtype5" "subtype2" "subtype4" "subtype6" "subtype2"
 [73] "subtype3" "subtype2" "subtype2" "subtype4" "subtype3" "subtype6"
 [79] "subtype4" "subtype6" "subtype3" "subtype4" "subtype2" "subtype2"
 [85] "subtype4" "subtype4" "subtype2" "subtype1" "subtype3" "subtype4"
 [91] "subtype4" "subtype2" "subtype1" "subtype2" "subtype6" "subtype2"
 [97] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype6"
[103] "subtype4" "subtype1" "subtype3" "subtype5" "subtype1" "subtype6"
[109] "subtype1" "subtype4" "subtype4" "subtype1" "subtype3" "subtype2"
[115] "subtype1" "subtype2" "subtype2" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype4" "subtype2" "subtype2"
  [7] "subtype3" "subtype3" "subtype2" "subtype4" "subtype4" "subtype2"
 [13] "subtype4" "subtype2" "subtype5" "subtype1" "subtype2" "subtype3"
 [19] "subtype5" "subtype6" "subtype5" "subtype2" "subtype4" "subtype4"
 [25] "subtype3" "subtype4" "subtype5" "subtype2" "subtype1" "subtype3"
 [31] "subtype5" "subtype4" "subtype6" "subtype6" "subtype1" "subtype3"
 [37] "subtype2" "subtype4" "subtype1" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype6" "subtype6" "subtype5" "subtype6" "subtype1"
 [49] "subtype6" "subtype3" "subtype2" "subtype4" "subtype4" "subtype2"
 [55] "subtype2" "subtype5" "subtype2" "subtype2" "subtype2" "subtype4"
 [61] "subtype2" "subtype2" "subtype2" "subtype6" "subtype5" "subtype2"
 [67] "subtype2" "subtype5" "subtype2" "subtype4" "subtype6" "subtype2"
 [73] "subtype3" "subtype2" "subtype2" "subtype4" "subtype3" "subtype6"
 [79] "subtype4" "subtype6" "subtype3" "subtype4" "subtype2" "subtype2"
 [85] "subtype4" "subtype4" "subtype2" "subtype1" "subtype3" "subtype4"
 [91] "subtype4" "subtype2" "subtype1" "subtype2" "subtype6" "subtype2"
 [97] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype6"
[103] "subtype4" "subtype1" "subtype3" "subtype5" "subtype1" "subtype6"
[109] "subtype1" "subtype4" "subtype4" "subtype1" "subtype3" "subtype2"
[115] "subtype1" "subtype2" "subtype2" "subtype3"
D1V2, continuous
D1V3, binary
          cls
clus        0  1
  subtype1  1 12
  subtype2 12 29
  subtype3  5 15
  subtype4  6 20
  subtype5  4  6
  subtype6  5 10
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   12
  subtype2   12   29
  subtype3    5   15
  subtype4    6   20
  subtype5    4    6
  subtype6    5   10
D1V4, continuous
[1] "Remove cluster labels:" "subtype5"              
clus
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
       5        8        7       11        2        4 
 [1] "subtype3" "subtype4" "subtype4" "subtype4" "subtype2" "subtype6"
 [7] "subtype6" "subtype2" "subtype2" "subtype4" "subtype3" "subtype4"
[13] "subtype2" "subtype2" "subtype4" "subtype4" "subtype2" "subtype1"
[19] "subtype3" "subtype4" "subtype4" "subtype2" "subtype2" "subtype6"
[25] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype6"
[31] "subtype1" "subtype4" "subtype4" "subtype1" "subtype3"
D1V5, continuous
D1V6, continuous
D1V7, continuous
          vv
clus       M0 M1 MX
  subtype1  7  1  5
  subtype2 22  1 18
  subtype3  9  0 10
  subtype4 20  0  6
  subtype5  6  1  3
  subtype6  9  1  5
D1V8, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1  3  2  2  1  5
  subtype2 31  3  5  1  1
  subtype3 10  1  5  0  3
  subtype4 18  2  5  0  0
  subtype5  4  3  1  1  1
  subtype6  5  3  6  1  0
D1V9, multiclass
D1V10, continuous
D1V11, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        4         2        6
  subtype2       0       11        20        9
  subtype3       0        8         4        7
  subtype4       0        6        10        7
  subtype5       0        3         2        5
  subtype6       0        3         2       10
D1V12, multiclass

Clustering(2) Variable = METHLYATION_CNMF
D2V1, survival
          sevent
clus2       0  1
  subtype1 24  5
  subtype2 29 15
  subtype3 23  5
  subtype4 13  7
subtype1 subtype2 subtype3 subtype4 
      29       44       28       20 
subtype1 subtype2 subtype3 subtype4 
       5       15        5        7 
$subtype1
TCGA-BL-A0C8 TCGA-BT-A20R TCGA-BT-A20W TCGA-BT-A2LA TCGA-BT-A2LD TCGA-C4-A0EZ 
       12.79         5.06         8.35         5.88         3.65         8.98 
TCGA-C4-A0F6 TCGA-CU-A3QU TCGA-DK-A1A3 TCGA-DK-A1A7 TCGA-DK-A1AC TCGA-DK-A1AD 
        2.01         5.19         2.53         8.98       118.88       100.47 
TCGA-DK-A2I1 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-FD-A3NA TCGA-FD-A3SR TCGA-G2-A2EK 
       10.59         2.20         3.98        32.02        19.79         5.65 
TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3RB TCGA-GC-A3RD TCGA-GD-A2C5 TCGA-GU-A42P 
       20.12         0.82         4.50         1.02         7.69         6.38 
TCGA-GV-A3JZ TCGA-GV-A3QF TCGA-GV-A3QH TCGA-H4-A2HO TCGA-H4-A2HQ 
        5.69         7.63         7.79         1.51         6.71 

$subtype2
TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A0YX TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20U 
        7.33         6.58        11.93        19.00        12.16         8.61 
TCGA-BT-A20V TCGA-BT-A20X TCGA-C4-A0F0 TCGA-C4-A0F1 TCGA-CF-A1HS TCGA-CU-A0YN 
        5.06         8.25         1.94         2.89         0.43        12.92 
TCGA-CU-A3KJ TCGA-DK-A1AE TCGA-DK-A1AF TCGA-DK-A2I2 TCGA-DK-A2I6 TCGA-DK-A3IM 
        5.46         7.17         5.85         7.76        75.32         7.82 
TCGA-DK-A3IN TCGA-DK-A3IU TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC 
        8.22        11.51         8.28        10.55       131.15        36.43 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FD-A43U TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.12         5.49         4.54         6.84        49.91        26.50 
TCGA-G2-A2EL TCGA-GC-A3WC TCGA-GC-A3YS TCGA-GD-A3OS TCGA-GU-A42Q TCGA-GV-A40E 
       26.93         2.50         1.08         5.82         7.56         6.38 
TCGA-K4-A3WU TCGA-K4-A3WV 
        3.42         4.64 

$subtype3
TCGA-BL-A13J TCGA-BL-A3JM TCGA-BT-A20N TCGA-BT-A3PH TCGA-CF-A27C TCGA-CU-A3YL 
        2.66         6.74        26.10         4.64         0.69         8.09 
TCGA-DK-A1A5 TCGA-DK-A1A6 TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A3IS TCGA-FD-A3N5 
        2.14        31.40         7.04         6.64        37.84         8.94 
TCGA-FD-A3N6 TCGA-FD-A3SN TCGA-FD-A3SS TCGA-FT-A3EE TCGA-G2-A2EO TCGA-G2-A2ES 
        7.96         6.81         1.94         2.33        32.78        17.26 
TCGA-G2-A3IB TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3RC TCGA-GD-A3OQ TCGA-GV-A3JV 
        7.04         2.86         2.24         1.38         3.12         4.37 
TCGA-GV-A3JX TCGA-GV-A3QI TCGA-GV-A3QK TCGA-GV-A40G 
        6.15         4.11         6.64         5.33 

$subtype4
TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20T TCGA-C4-A0F7 TCGA-CF-A1HR TCGA-CU-A0YO 
       17.85        19.46        14.89         2.04         0.46         4.90 
TCGA-CU-A0YR TCGA-DK-A1AB TCGA-DK-A2HX TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A3IV 
        7.20         8.91         1.81        10.49         5.52         9.67 
TCGA-E7-A3Y1 TCGA-FD-A3SL TCGA-FD-A3SQ TCGA-G2-A2EC TCGA-GC-A3OO TCGA-GD-A3OP 
        0.10        10.98        46.78        13.71         1.32         2.10 
TCGA-GV-A3JW TCGA-K4-A3WS 
        6.41         8.71 

subtype1 subtype2 subtype3 subtype4 
    0.82     0.43     0.69     0.10 
subtype1 subtype2 subtype3 subtype4 
  118.88   131.15    37.84    46.78 
subtype1 subtype2 subtype3 subtype4 
   6.380    7.660    6.395    7.955 
[1] "0.8 - 118.9 (6.4)" "0.4 - 131.2 (7.7)" "0.7 - 37.8 (6.4)" 
[4] "0.1 - 46.8 (8.0)" 
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
 [13] "subtype4" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype4" "subtype4" "subtype2" "subtype3" "subtype2" "subtype4"
 [31] "subtype4" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype3" "subtype4" "subtype1" "subtype1"
 [43] "subtype2" "subtype2" "subtype3" "subtype4" "subtype1" "subtype2"
 [49] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype4"
 [55] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
 [61] "subtype2" "subtype2" "subtype4" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype4" "subtype2" "subtype3" "subtype2" "subtype2" "subtype4"
 [79] "subtype1" "subtype3" "subtype2" "subtype3" "subtype4" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [91] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype4"
[103] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype4"
[109] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[115] "subtype2" "subtype3" "subtype1" "subtype1" "subtype4" "subtype2"
[121] "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
 [13] "subtype4" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype4" "subtype4" "subtype2" "subtype3" "subtype2" "subtype4"
 [31] "subtype4" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype3" "subtype4" "subtype1" "subtype1"
 [43] "subtype2" "subtype2" "subtype3" "subtype4" "subtype1" "subtype2"
 [49] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype4"
 [55] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
 [61] "subtype2" "subtype2" "subtype4" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype4" "subtype2" "subtype3" "subtype2" "subtype2" "subtype4"
 [79] "subtype1" "subtype3" "subtype2" "subtype3" "subtype4" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [91] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype4"
[103] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype4"
[109] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[115] "subtype2" "subtype3" "subtype1" "subtype1" "subtype4" "subtype2"
[121] "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
  [7] "subtype2" "subtype3" "subtype2" "subtype4" "subtype4" "subtype1"
 [13] "subtype4" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
 [19] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
 [25] "subtype4" "subtype4" "subtype2" "subtype3" "subtype2" "subtype4"
 [31] "subtype4" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype3" "subtype4" "subtype1" "subtype1"
 [43] "subtype2" "subtype2" "subtype3" "subtype4" "subtype1" "subtype2"
 [49] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype4"
 [55] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype2"
 [61] "subtype2" "subtype2" "subtype4" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
 [73] "subtype4" "subtype2" "subtype3" "subtype2" "subtype2" "subtype4"
 [79] "subtype1" "subtype3" "subtype2" "subtype3" "subtype4" "subtype2"
 [85] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
 [91] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
 [97] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype4"
[103] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype4"
[109] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[115] "subtype2" "subtype3" "subtype1" "subtype1" "subtype4" "subtype2"
[121] "subtype2"
D2V2, continuous
D2V3, binary
          cls
clus        0  1
  subtype1 10 20
  subtype2 16 29
  subtype3  3 30
  subtype4  5 15
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   10   20
  subtype2   16   29
  subtype3    3   30
  subtype4    5   15
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       10       16        3        5
  MALE         20       29       30       15
D2V4, continuous
D2V5, continuous
D2V6, continuous
D2V7, continuous
          vv
clus       M0 M1 MX
  subtype1 18  2  9
  subtype2 24  1 20
  subtype3 20  0 13
  subtype4 14  1  5
D2V8, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 10  5  9  1  4
  subtype2 31  5  5  2  2
  subtype3 24  3  3  1  2
  subtype4  8  1  8  0  2
D2V9, multiclass
D2V10, continuous
D2V11, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        7         6       15
  subtype2       0       11        20       12
  subtype3       0       13        11        8
  subtype4       0        5         4       10
D2V12, multiclass

Clustering(3) Variable = RPPA_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1  8  4
  subtype2  5  5
  subtype3 11  2
  subtype4  8  9
subtype1 subtype2 subtype3 subtype4 
      12       10       13       17 
subtype1 subtype2 subtype3 subtype4 
       4        5        2        9 
$subtype1
TCGA-BL-A0C8 TCGA-BT-A0S7 TCGA-C4-A0EZ TCGA-CU-A0YN TCGA-FD-A3B3 TCGA-FD-A3B4 
       12.79         6.58         8.98        12.92         8.81         8.32 
TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EK TCGA-G2-A2EL TCGA-H4-A2HQ 
       13.71        49.91        26.50         5.65        26.93         6.71 

$subtype2
TCGA-BL-A13I TCGA-BL-A13J TCGA-BT-A20R TCGA-BT-A20U TCGA-BT-A20W TCGA-C4-A0F0 
        7.33         2.66         5.06         8.61         8.35         1.94 
TCGA-DK-A1A3 TCGA-DK-A1AD TCGA-DK-A1AF TCGA-DK-A2HX 
        2.53       100.47         5.85         1.81 

$subtype3
TCGA-BT-A0YX TCGA-BT-A20Q TCGA-C4-A0F1 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C 
       11.93        19.46         2.89         2.01         0.46         0.69 
TCGA-DK-A1A5 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AG TCGA-DK-A2I1 TCGA-GD-A2C5 
        2.14         7.04         8.91         6.64        10.59         7.69 
TCGA-H4-A2HO 
        1.51 

$subtype4
TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20P TCGA-BT-A20T TCGA-BT-A20V 
       19.00        26.10        12.16        17.85        14.89         5.06 
TCGA-BT-A20X TCGA-BT-A2LA TCGA-C4-A0F7 TCGA-CF-A1HS TCGA-DK-A1A6 TCGA-DK-A1AC 
        8.25         5.88         2.04         0.43        31.40       118.88 
TCGA-DK-A1AE TCGA-DK-A2I2 TCGA-E5-A2PC TCGA-G2-A2EO TCGA-G2-A2ES 
        7.17         7.76        36.43        32.78        17.26 

subtype1 subtype2 subtype3 subtype4 
    5.65     1.81     0.46     0.43 
subtype1 subtype2 subtype3 subtype4 
   49.91   100.47    19.46   118.88 
subtype1 subtype2 subtype3 subtype4 
  10.885    5.455    6.640   14.890 
[1] "5.7 - 49.9 (10.9)"  "1.8 - 100.5 (5.5)"  "0.5 - 19.5 (6.6)"  
[4] "0.4 - 118.9 (14.9)"
 [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype4"
 [7] "subtype4" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[13] "subtype2" "subtype4" "subtype2" "subtype4" "subtype4" "subtype1"
[19] "subtype2" "subtype3" "subtype3" "subtype4" "subtype3" "subtype4"
[25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype4" "subtype3"
[31] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype3"
[37] "subtype2" "subtype3" "subtype4" "subtype4" "subtype1" "subtype1"
[43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[49] "subtype4" "subtype3" "subtype3" "subtype1"
 [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype4"
 [7] "subtype4" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[13] "subtype2" "subtype4" "subtype2" "subtype4" "subtype4" "subtype1"
[19] "subtype2" "subtype3" "subtype3" "subtype4" "subtype3" "subtype4"
[25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype4" "subtype3"
[31] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype3"
[37] "subtype2" "subtype3" "subtype4" "subtype4" "subtype1" "subtype1"
[43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[49] "subtype4" "subtype3" "subtype3" "subtype1"
 [1] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype4"
 [7] "subtype4" "subtype4" "subtype4" "subtype3" "subtype2" "subtype4"
[13] "subtype2" "subtype4" "subtype2" "subtype4" "subtype4" "subtype1"
[19] "subtype2" "subtype3" "subtype3" "subtype4" "subtype3" "subtype4"
[25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype4" "subtype3"
[31] "subtype3" "subtype4" "subtype2" "subtype4" "subtype2" "subtype3"
[37] "subtype2" "subtype3" "subtype4" "subtype4" "subtype1" "subtype1"
[43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
[49] "subtype4" "subtype3" "subtype3" "subtype1"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1  6  6
  subtype2  5  5
  subtype3  5  9
  subtype4  5 12
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6    6
  subtype2    5    5
  subtype3    5    9
  subtype4    5   12
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE        6        5        5        5
  MALE          6        5        9       12
D3V4, continuous
[1] "Remove cluster labels:" "subtype2"               "subtype3"              
clus
subtype1 subtype2 subtype3 subtype4 
       5        1        1        4 
[1] "subtype4" "subtype4" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[8] "subtype4" "subtype4"
D3V5, continuous
D3V6, continuous
[1] "Remove cluster labels:" "subtype2"              
clus
subtype1 subtype2 subtype3 subtype4 
       6        2        5        8 
 [1] "subtype1" "subtype1" "subtype4" "subtype4" "subtype3" "subtype4"
 [7] "subtype3" "subtype3" "subtype4" "subtype4" "subtype4" "subtype4"
[13] "subtype1" "subtype1" "subtype1" "subtype4" "subtype3" "subtype1"
[19] "subtype3"
D3V7, continuous
          vv
clus       M0 M1 MX
  subtype1  7  2  3
  subtype2 10  0  0
  subtype3 11  0  3
  subtype4 13  0  4
D3V8, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1  9  1  0  0  2
  subtype2  4  1  5  0  0
  subtype3 10  0  3  0  0
  subtype4 10  3  3  1  0
D3V9, multiclass
D3V10, continuous
D3V11, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        5         4        2
  subtype2       0        2         2        6
  subtype3       0        2         6        3
  subtype4       0        2         7        7
D3V12, multiclass

Clustering(4) Variable = RPPA_CHIERARCHICAL
D4V1, survival
          sevent
clus2       0  1
  subtype1  9  5
  subtype2  7 10
  subtype3 16  5
subtype1 subtype2 subtype3 
      14       17       21 
subtype1 subtype2 subtype3 
       5       10        5 
$subtype1
TCGA-BL-A13I TCGA-BT-A0S7 TCGA-BT-A20W TCGA-C4-A0EZ TCGA-C4-A0F0 TCGA-CU-A0YN 
        7.33         6.58         8.35         8.98         1.94        12.92 
TCGA-DK-A1AF TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EJ 
        5.85         8.81         8.32        13.71        49.91        26.50 
TCGA-G2-A2EK TCGA-H4-A2HQ 
        5.65         6.71 

$subtype2
TCGA-BL-A13J TCGA-BT-A20J TCGA-BT-A20N TCGA-BT-A20O TCGA-BT-A20R TCGA-BT-A20T 
        2.66        19.00        26.10        12.16         5.06        14.89 
TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-CF-A1HS TCGA-DK-A1A3 TCGA-DK-A1AC 
        8.61         5.06         8.25         0.43         2.53       118.88 
TCGA-DK-A1AE TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-E5-A2PC TCGA-G2-A2ES 
        7.17         1.81         7.76        36.43        17.26 

$subtype3
TCGA-BL-A0C8 TCGA-BT-A0YX TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A2LA TCGA-C4-A0F1 
       12.79        11.93        17.85        19.46         5.88         2.89 
TCGA-C4-A0F6 TCGA-C4-A0F7 TCGA-CF-A1HR TCGA-CF-A27C TCGA-DK-A1A5 TCGA-DK-A1A6 
        2.01         2.04         0.46         0.69         2.14        31.40 
TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AG TCGA-DK-A2I1 TCGA-G2-A2EL 
        7.04         8.91       100.47         6.64        10.59        26.93 
TCGA-G2-A2EO TCGA-GD-A2C5 TCGA-H4-A2HO 
       32.78         7.69         1.51 

subtype1 subtype2 subtype3 
    1.94     0.43     0.46 
subtype1 subtype2 subtype3 
   49.91   118.88   100.47 
subtype1 subtype2 subtype3 
   8.335    8.250    7.690 
[1] "1.9 - 49.9 (8.3)"  "0.4 - 118.9 (8.2)" "0.5 - 100.5 (7.7)"
 [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [7] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[19] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[31] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[49] "subtype2" "subtype3" "subtype3" "subtype1"
 [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [7] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[19] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[31] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[49] "subtype2" "subtype3" "subtype3" "subtype1"
 [1] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
 [7] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
[13] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype1"
[19] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[25] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype3"
[31] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
[37] "subtype2" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[49] "subtype2" "subtype3" "subtype3" "subtype1"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1  8  6
  subtype2  7 10
  subtype3  6 16
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8    6
  subtype2    7   10
  subtype3    6   16
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        8        7        6
  MALE          6       10       16
D4V4, continuous
D4V5, continuous
D4V6, continuous
D4V7, continuous
          vv
clus       M0 M1 MX
  subtype1  9  2  3
  subtype2 13  0  4
  subtype3 19  0  3
D4V8, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 11  1  1  0  1
  subtype2  8  3  5  1  0
  subtype3 14  1  5  0  1
D4V9, multiclass
D4V10, continuous
D4V11, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       0        6         5        3
  subtype2       0        2         5        9
  subtype3       1        3         9        6
D4V12, multiclass

Clustering(5) Variable = MRNASEQ_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 35  9
  subtype2 19 11
  subtype3 24 10
subtype1 subtype2 subtype3 
      44       30       34 
subtype1 subtype2 subtype3 
       9       11       10 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20T TCGA-BT-A20W 
       12.79         2.66        17.85        19.46        14.89         8.35 
TCGA-BT-A3PH TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C TCGA-CU-A0YO TCGA-CU-A0YR 
        4.64         2.01         0.46         0.69         4.90         7.20 
TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AD 
        5.19         8.09        31.40         8.98         7.04       100.47 
TCGA-DK-A1AG TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IS TCGA-DK-A3IV TCGA-E7-A3Y1 
        6.64         2.20         3.98        37.84         9.67         0.10 
TCGA-FD-A3NA TCGA-FT-A3EE TCGA-G2-A2EC TCGA-G2-A2EK TCGA-G2-A2EO TCGA-G2-A3IE 
       32.02         2.33        13.71         5.65        32.78        20.12 
TCGA-G2-A3VY TCGA-GC-A3BM TCGA-GC-A3RB TCGA-GC-A3RD TCGA-GD-A2C5 TCGA-GD-A3OP 
        0.82         2.86         4.50         1.02         7.69         2.10 
TCGA-GV-A3JV TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI 
        4.37         6.41         6.15         7.63         7.79         4.11 
TCGA-H4-A2HO TCGA-H4-A2HQ 
        1.51         6.71 

$subtype2
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20R 
        7.33         6.74         6.58        19.00        12.16         5.06 
TCGA-BT-A2LA TCGA-BT-A2LD TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A1AC TCGA-DK-A1AF 
        5.88         3.65         2.53         2.14       118.88         5.85 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A3IN TCGA-DK-A3IT TCGA-DK-A3IU TCGA-DK-A3WY 
        1.81        10.59         8.22         5.52        11.51       131.15 
TCGA-FD-A3B7 TCGA-FD-A3B8 TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SP TCGA-FD-A3SQ 
        4.01        11.05        10.98         6.12         4.54        46.78 
TCGA-FD-A3SR TCGA-GC-A3OO TCGA-GC-A3WC TCGA-GD-A3OS TCGA-GV-A3JZ TCGA-K4-A3WS 
       19.79         1.32         2.50         5.82         5.69         8.71 

$subtype3
TCGA-BT-A0YX TCGA-BT-A20N TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-C4-A0F0 
       11.93        26.10         8.61         5.06         8.25         1.94 
TCGA-CF-A1HS TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-DK-A1AB TCGA-DK-A1AE TCGA-DK-A2I2 
        0.43        12.92         5.46         8.91         7.17         7.76 
TCGA-DK-A2I6 TCGA-DK-A3IM TCGA-DK-A3WX TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 
       75.32         7.82        10.55        36.43         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3SN TCGA-FD-A3SO 
        8.94         6.87         8.94         7.96         6.81         5.49 
TCGA-FD-A3SS TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A2ES TCGA-G2-A3IB 
        1.94        49.91        26.50        26.93        17.26         7.04 
TCGA-GC-A3I6 TCGA-GC-A3RC TCGA-GD-A3OQ TCGA-K4-A3WV 
        2.24         1.38         3.12         4.64 

subtype1 subtype2 subtype3 
    0.10     1.32     0.43 
subtype1 subtype2 subtype3 
  100.47   131.15    75.32 
subtype1 subtype2 subtype3 
   6.525    6.350    8.105 
[1] "0.1 - 100.5 (6.5)" "1.3 - 131.2 (6.3)" "0.4 - 75.3 (8.1)" 
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [19] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [37] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [43] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [67] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [19] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [37] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [43] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [67] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
  [7] "subtype2" "subtype3" "subtype2" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [19] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
 [37] "subtype3" "subtype2" "subtype1" "subtype3" "subtype2" "subtype1"
 [43] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
 [49] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [55] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [67] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 10 39
  subtype2  9 22
  subtype3 13 22
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   10   39
  subtype2    9   22
  subtype3   13   22
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       10        9       13
  MALE         39       22       22
D5V4, continuous
D5V5, continuous
D5V6, continuous
D5V7, continuous
          vv
clus       M0 M1 MX
  subtype1 32  1 15
  subtype2 16  2 13
  subtype3 21  0 14
D5V8, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 25  4 13  0  6
  subtype2 19  2  7  2  1
  subtype3 23  5  2  2  2
D5V9, multiclass
D5V10, continuous
D5V11, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1       15        13       17
  subtype2       0        7        13       11
  subtype3       0       12        11       11
D5V12, multiclass

Clustering(6) Variable = MRNASEQ_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 27  9
  subtype2  9  7
  subtype3 42 14
subtype1 subtype2 subtype3 
      36       16       56 
subtype1 subtype2 subtype3 
       9        7       14 
$subtype1
TCGA-BT-A0YX TCGA-BT-A20U TCGA-BT-A20X TCGA-BT-A2LD TCGA-C4-A0F0 TCGA-CF-A1HS 
       11.93         8.61         8.25         3.65         1.94         0.43 
TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-DK-A1AB TCGA-DK-A1AE TCGA-DK-A2I2 TCGA-DK-A2I6 
       12.92         5.46         8.91         7.17         7.76        75.32 
TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3WX TCGA-E5-A2PC TCGA-FD-A3B3 TCGA-FD-A3B4 
        7.82         8.22        10.55        36.43         8.81         8.32 
TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA 
        8.94         6.87         4.01         8.94         7.96        32.02 
TCGA-FD-A3SN TCGA-FD-A3SO TCGA-FD-A3SS TCGA-FT-A3EE TCGA-G2-A2EF TCGA-G2-A2EJ 
        6.81         5.49         1.94         2.33        49.91        26.50 
TCGA-G2-A2ES TCGA-G2-A3IB TCGA-GC-A3I6 TCGA-GC-A3RC TCGA-GC-A3WC TCGA-GD-A3OQ 
       17.26         7.04         2.24         1.38         2.50         3.12 

$subtype2
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20V 
        7.33         6.74         6.58        19.00        12.16         5.06 
TCGA-BT-A2LA TCGA-DK-A1AC TCGA-DK-A3IU TCGA-DK-A3WY TCGA-FD-A3B8 TCGA-FD-A3SP 
        5.88       118.88        11.51       131.15        11.05         4.54 
TCGA-G2-A2EL TCGA-GD-A3OS TCGA-GV-A3JZ TCGA-K4-A3WV 
       26.93         5.82         5.69         4.64 

$subtype3
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20R 
       12.79         2.66        26.10        17.85        19.46         5.06 
TCGA-BT-A20T TCGA-BT-A20W TCGA-BT-A3PH TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A27C 
       14.89         8.35         4.64         2.01         0.46         0.69 
TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3QU TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1A5 
        4.90         7.20         5.19         8.09         2.53         2.14 
TCGA-DK-A1A6 TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AD TCGA-DK-A1AF TCGA-DK-A1AG 
       31.40         8.98         7.04       100.47         5.85         6.64 
TCGA-DK-A2HX TCGA-DK-A2I1 TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IS TCGA-DK-A3IT 
        1.81        10.59         2.20         3.98        37.84         5.52 
TCGA-DK-A3IV TCGA-E7-A3Y1 TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SQ TCGA-FD-A3SR 
        9.67         0.10        10.98         6.12        46.78        19.79 
TCGA-G2-A2EC TCGA-G2-A2EK TCGA-G2-A2EO TCGA-G2-A3IE TCGA-G2-A3VY TCGA-GC-A3BM 
       13.71         5.65        32.78        20.12         0.82         2.86 
TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RD TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GV-A3JV 
        1.32         4.50         1.02         7.69         2.10         4.37 
TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3QF TCGA-GV-A3QH TCGA-GV-A3QI TCGA-H4-A2HO 
        6.41         6.15         7.63         7.79         4.11         1.51 
TCGA-H4-A2HQ TCGA-K4-A3WS 
        6.71         8.71 

subtype1 subtype2 subtype3 
    0.43     4.54     0.10 
subtype1 subtype2 subtype3 
   75.32   131.15   100.47 
subtype1 subtype2 subtype3 
   7.890    7.035    6.280 
[1] "0.4 - 75.3 (7.9)"  "4.5 - 131.2 (7.0)" "0.1 - 100.5 (6.3)"
  [1] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
 [19] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [55] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [73] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [79] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
 [85] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [91] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [97] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
  [1] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
 [19] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [55] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [73] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [79] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
 [85] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [91] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [97] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
  [1] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype2"
 [19] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [25] "subtype3" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [37] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [43] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [55] "subtype1" "subtype2" "subtype1" "subtype3" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [67] "subtype1" "subtype3" "subtype3" "subtype1" "subtype1" "subtype2"
 [73] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [79] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype1"
 [85] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [91] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [97] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 14 23
  subtype2  5 12
  subtype3 13 48
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   14   23
  subtype2    5   12
  subtype3   13   48
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       14        5       13
  MALE         23       12       48
D6V4, continuous
D6V5, continuous
D6V6, continuous
D6V7, continuous
          vv
clus       M0 M1 MX
  subtype1 21  0 16
  subtype2  8  0  9
  subtype3 40  3 17
D6V8, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 25  6  1  2  2
  subtype2 13  0  1  2  1
  subtype3 29  5 20  0  6
D6V9, multiclass
D6V10, continuous
D6V11, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       0       11        14       11
  subtype2       0        6         8        3
  subtype3       1       17        15       25
D6V12, multiclass

Clustering(7) Variable = MIRSEQ_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 20  3
  subtype2 39 18
  subtype3 26  9
subtype1 subtype2 subtype3 
      23       57       35 
subtype1 subtype2 subtype3 
       3       18        9 
$subtype1
TCGA-BL-A0C8 TCGA-BL-A13J TCGA-BT-A0YX TCGA-BT-A20W TCGA-BT-A2LD TCGA-CU-A0YR 
       12.79         2.66        11.93         8.35         3.65         7.20 
TCGA-CU-A3QU TCGA-DK-A1A5 TCGA-DK-A1AC TCGA-DK-A2I1 TCGA-DK-A2I6 TCGA-DK-A3IK 
        5.19         2.14       118.88        10.59        75.32         2.20 
TCGA-DK-A3IT TCGA-FD-A3SN TCGA-FD-A3SS TCGA-G2-A3VY TCGA-GC-A3YS TCGA-GV-A3JV 
        5.52         6.81         1.94         0.82         1.08         4.37 
TCGA-GV-A3QF TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ TCGA-K4-A3WU 
        7.63         5.33         1.51         6.71         3.42 

$subtype2
TCGA-BL-A13I TCGA-BL-A3JM TCGA-BT-A0S7 TCGA-BT-A20N TCGA-BT-A20P TCGA-BT-A20U 
        7.33         6.74         6.58        26.10        17.85         8.61 
TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA TCGA-BT-A3PH TCGA-C4-A0F0 TCGA-C4-A0F6 
        5.06         8.25         5.88         4.64         1.94         2.01 
TCGA-CF-A1HS TCGA-CF-A27C TCGA-CU-A0YN TCGA-CU-A3KJ TCGA-DK-A1A6 TCGA-DK-A1A7 
        0.43         0.69        12.92         5.46        31.40         8.98 
TCGA-DK-A1AA TCGA-DK-A1AG TCGA-DK-A2I2 TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IS 
        7.04         6.64         7.76         7.82         8.22        37.84 
TCGA-DK-A3WW TCGA-DK-A3WX TCGA-E5-A2PC TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 
        8.28        10.55        36.43         8.94         6.87         4.01 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SM TCGA-FD-A3SO TCGA-FT-A3EE 
        8.94         7.96        32.02         6.12         5.49         2.33 
TCGA-G2-A2EF TCGA-G2-A2EJ TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB 
       49.91        26.50        26.93        32.78        17.26         7.04 
TCGA-G2-A3IE TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
       20.12         2.86         2.24         4.50         1.38         1.02 
TCGA-GD-A3OQ TCGA-GV-A3JW TCGA-GV-A3JX TCGA-GV-A3JZ TCGA-GV-A3QH TCGA-GV-A3QI 
        3.12         6.41         6.15         5.69         7.79         4.11 
TCGA-GV-A3QK TCGA-GV-A40E TCGA-K4-A3WV 
        6.64         6.38         4.64 

$subtype3
TCGA-BT-A20J TCGA-BT-A20O TCGA-BT-A20Q TCGA-BT-A20R TCGA-BT-A20T TCGA-CF-A1HR 
       19.00        12.16        19.46         5.06        14.89         0.46 
TCGA-CU-A0YO TCGA-CU-A3YL TCGA-DK-A1A3 TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE 
        4.90         8.09         2.53         8.91       100.47         7.17 
TCGA-DK-A1AF TCGA-DK-A2HX TCGA-DK-A3IL TCGA-DK-A3IQ TCGA-DK-A3IU TCGA-DK-A3IV 
        5.85         1.81         3.98        10.49        11.51         9.67 
TCGA-DK-A3WY TCGA-E7-A3Y1 TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B8 TCGA-FD-A3SL 
      131.15         0.10         8.81         8.32        11.05        10.98 
TCGA-FD-A3SP TCGA-FD-A3SQ TCGA-FD-A3SR TCGA-G2-A2EC TCGA-G2-A2EK TCGA-GC-A3OO 
        4.54        46.78        19.79        13.71         5.65         1.32 
TCGA-GC-A3WC TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OS TCGA-K4-A3WS 
        2.50         7.69         2.10         5.82         8.71 

subtype1 subtype2 subtype3 
    0.82     0.43     0.10 
subtype1 subtype2 subtype3 
  118.88    49.91   131.15 
subtype1 subtype2 subtype3 
    5.33     6.87     8.32 
[1] "0.8 - 118.9 (5.3)" "0.4 - 49.9 (6.9)"  "0.1 - 131.2 (8.3)"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [25] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [49] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [55] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [67] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [73] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
 [79] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [97] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[115] "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [25] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [49] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [55] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [67] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [73] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
 [79] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [97] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[115] "subtype2"
  [1] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [25] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [31] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [37] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [43] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [49] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [55] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [67] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
 [73] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype2"
 [79] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype1"
 [97] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[115] "subtype2"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1  4 23
  subtype2 16 44
  subtype3 13 22
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4   23
  subtype2   16   44
  subtype3   13   22
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        4       16       13
  MALE         23       44       22
D7V4, continuous
D7V5, continuous
D7V6, continuous
D7V7, continuous
          vv
clus       M0 M1 MX
  subtype1 15  1 10
  subtype2 37  1 22
  subtype3 20  1 14
D7V8, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1 12  5  5  2  2
  subtype2 41  5  6  2  6
  subtype3 18  2 12  0  2
D7V9, multiclass
D7V10, continuous
D7V11, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        6         5       13
  subtype2       0       21        24       13
  subtype3       0        9        10       15
D7V12, multiclass

Clustering(8) Variable = MIRSEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2       0  1
  subtype1 12  1
  subtype2 62 23
  subtype3 11  6
subtype1 subtype2 subtype3 
      13       85       17 
subtype1 subtype2 subtype3 
       1       23        6 
$subtype1
TCGA-BL-A0C8 TCGA-BT-A0YX TCGA-BT-A20W TCGA-BT-A2LD TCGA-CU-A3QU TCGA-DK-A1AC 
       12.79        11.93         8.35         3.65         5.19       118.88 
TCGA-DK-A2I6 TCGA-GV-A3JV TCGA-GV-A3QF TCGA-GV-A40G TCGA-H4-A2HO TCGA-H4-A2HQ 
       75.32         4.37         7.63         5.33         1.51         6.71 
TCGA-K4-A3WU 
        3.42 

$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        26.10        12.16 
TCGA-BT-A20P TCGA-BT-A20Q TCGA-BT-A20U TCGA-BT-A20V TCGA-BT-A20X TCGA-BT-A2LA 
       17.85        19.46         8.61         5.06         8.25         5.88 
TCGA-BT-A3PH TCGA-C4-A0F0 TCGA-C4-A0F6 TCGA-CF-A1HR TCGA-CF-A1HS TCGA-CF-A27C 
        4.64         1.94         2.01         0.46         0.43         0.69 
TCGA-CU-A0YN TCGA-CU-A0YO TCGA-CU-A0YR TCGA-CU-A3KJ TCGA-CU-A3YL TCGA-DK-A1A6 
       12.92         4.90         7.20         5.46         8.09        31.40 
TCGA-DK-A1A7 TCGA-DK-A1AA TCGA-DK-A1AB TCGA-DK-A1AD TCGA-DK-A1AE TCGA-DK-A1AF 
        8.98         7.04         8.91       100.47         7.17         5.85 
TCGA-DK-A1AG TCGA-DK-A2HX TCGA-DK-A2I2 TCGA-DK-A3IM TCGA-DK-A3IN TCGA-DK-A3IS 
        6.64         1.81         7.76         7.82         8.22        37.84 
TCGA-DK-A3IV TCGA-DK-A3WW TCGA-DK-A3WX TCGA-DK-A3WY TCGA-E5-A2PC TCGA-E7-A3Y1 
        9.67         8.28        10.55       131.15        36.43         0.10 
TCGA-FD-A3B3 TCGA-FD-A3B4 TCGA-FD-A3B5 TCGA-FD-A3B6 TCGA-FD-A3B7 TCGA-FD-A3B8 
        8.81         8.32         8.94         6.87         4.01        11.05 
TCGA-FD-A3N5 TCGA-FD-A3N6 TCGA-FD-A3NA TCGA-FD-A3SL TCGA-FD-A3SM TCGA-FD-A3SN 
        8.94         7.96        32.02        10.98         6.12         6.81 
TCGA-FD-A3SO TCGA-FD-A3SP TCGA-FT-A3EE TCGA-G2-A2EC TCGA-G2-A2EF TCGA-G2-A2EJ 
        5.49         4.54         2.33        13.71        49.91        26.50 
TCGA-G2-A2EK TCGA-G2-A2EL TCGA-G2-A2EO TCGA-G2-A2ES TCGA-G2-A3IB TCGA-G2-A3IE 
        5.65        26.93        32.78        17.26         7.04        20.12 
TCGA-GC-A3BM TCGA-GC-A3I6 TCGA-GC-A3OO TCGA-GC-A3RB TCGA-GC-A3RC TCGA-GC-A3RD 
        2.86         2.24         1.32         4.50         1.38         1.02 
TCGA-GC-A3WC TCGA-GD-A2C5 TCGA-GD-A3OP TCGA-GD-A3OQ TCGA-GD-A3OS TCGA-GV-A3JW 
        2.50         7.69         2.10         3.12         5.82         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-K4-A3WV 
        4.64 

$subtype3
TCGA-BL-A13J TCGA-BT-A20R TCGA-BT-A20T TCGA-DK-A1A3 TCGA-DK-A1A5 TCGA-DK-A2I1 
        2.66         5.06        14.89         2.53         2.14        10.59 
TCGA-DK-A3IK TCGA-DK-A3IL TCGA-DK-A3IQ TCGA-DK-A3IT TCGA-DK-A3IU TCGA-FD-A3SQ 
        2.20         3.98        10.49         5.52        11.51        46.78 
TCGA-FD-A3SR TCGA-FD-A3SS TCGA-G2-A3VY TCGA-GC-A3YS TCGA-K4-A3WS 
       19.79         1.94         0.82         1.08         8.71 

subtype1 subtype2 subtype3 
    1.51     0.10     0.82 
subtype1 subtype2 subtype3 
  118.88   131.15    46.78 
subtype1 subtype2 subtype3 
    6.71     7.04     5.06 
[1] "1.5 - 118.9 (6.7)" "0.1 - 131.2 (7.0)" "0.8 - 46.8 (5.1)" 
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [31] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [49] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[115] "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [31] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [49] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[115] "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
 [19] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
 [31] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype3" "subtype2" "subtype1" "subtype3" "subtype3"
 [49] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [61] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [79] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[115] "subtype2"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1  3 14
  subtype2 27 61
  subtype3  3 14
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   14
  subtype2   27   61
  subtype3    3   14
        clus
vv       subtype1 subtype2 subtype3
  FEMALE        3       27        3
  MALE         14       61       14
D8V4, continuous
[1] "Remove cluster labels:" "subtype3"              
clus
subtype1 subtype2 subtype3 
       5       31        2 
 [1] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
 [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[13] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[25] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
[31] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
D8V5, continuous
D8V6, continuous
D8V7, continuous
          vv
clus       M0 M1 MX
  subtype1  9  1  7
  subtype2 52  2 34
  subtype3 11  0  5
D8V8, multiclass
          vv
clus       N0 N1 N2 N3 NX
  subtype1  8  4  2  1  2
  subtype2 57  5 15  2  8
  subtype3  6  3  6  1  0
D8V9, multiclass
D8V10, continuous
D8V11, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IV
  subtype1       1        3         4        7
  subtype2       0       29        32       24
  subtype3       0        4         3       10
D8V12, multiclass
                            V1.D                               V2 
                 "Time to Death"                            "AGE" 
                              V3                               V4 
                        "GENDER"    "KARNOFSKY.PERFORMANCE.SCORE" 
                              V5                               V6 
         "NUMBERPACKYEARSSMOKED"             "STOPPEDSMOKINGYEAR" 
                              V7                               V8 
"TOBACCOSMOKINGHISTORYINDICATOR"             "DISTANT.METASTASIS" 
                              V9                              V10 
         "LYMPH.NODE.METASTASIS"          "NUMBER.OF.LYMPH.NODES" 
                             V11                              V12 
               "TUMOR.STAGECODE"          "NEOPLASM.DISEASESTAGE" 
> q(save="no")
