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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.59.3844/Clusters2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Clusters_onlysig.59.3844/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/THCA/1712884/1.GDAC_mergedClustering.Finished/THCA.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/THCA/1669739/1.GDAC_clinicalDataPicker.Finished/THCA.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=1", "-MF=ALL", "-oT=", "-nV=Nozzle.R1", "-OP=AGGREGRATED_CLUSTER", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"  "-oT="
[1] "opt"                     "-OP=AGGREGRATED_CLUSTER"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  

nPatients in clinical file=193, in cluster file=251, common to both=177
[1]   5 177
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
43 23 91 
 1  2  3 
43 23 91 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3  4 
34 27 42 13 
 1  2  3  4 
34 27 42 13 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
31 64 21 
 1  2  3 
31 64 21 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3 
47 56 47 
 1  2  3 
47 56 47 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
43 55 52 
 1  2  3 
43 55 52 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "HISTOLOGICALTYPE"                      
[10] "RADIATIONS.RADIATION.REGIMENINDICATION"
[11] "NEOADJUVANTTHERAPY"                    
[12] "BATCHNUMBER"                           

Input Data has 12 rows and 177 columns.

[1] "Batch" "12"   
[1] "Last Follow UP"
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 
         479          356          232          182          197          251 
TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZF TCGA-BJ-A0ZG TCGA-BJ-A0ZH 
         122          183          237          210          230           22 
TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28R 
         152           85           13          235          246          148 
TCGA-BJ-A28V TCGA-CE-A13K TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-DE-A0XZ 
         155           16            3            6            7          377 
TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13P 
         231          952          161          274          215         4199 
TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13W 
          92          265          758          393          362          454 
TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG TCGA-DJ-A1QH 
         243          334         3041          549          212          243 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ 
         151          212           30          273           31          181 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PR TCGA-DJ-A2PS TCGA-DJ-A2PU 
         304          242          152          318           59          312 
TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 
         242          234          153          267          256          247 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 
         284          280          287          301          291          215 
TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DO-A1JZ TCGA-DO-A1K0 
         315          378          330          304         1225           93 
TCGA-E3-A3DY TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
         945          365         1544         1222         1421          635 
TCGA-E3-A3E5 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-EM-A1CS TCGA-EM-A1CT 
         427           34           11           NA          580          153 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC 
         214           NA          245          217          284         1421 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
        1209          650           81          207          202          138 
TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ 
         106          209          189          174          192          348 
TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CM TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP 
         249          209          357          344          183           90 
TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-ET-A25G 
         199          218          284          319          176         1088 
TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25L TCGA-ET-A25M TCGA-ET-A25N 
          10          903          589          450          375           75 
TCGA-ET-A25O TCGA-ET-A25P TCGA-ET-A25R TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 
         135           15          621          579          373         1049 
TCGA-ET-A2N1 TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K 
         449           43         1182            9          362         2058 
TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R 
          59         2266         2535         1309          406         1413 
TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BO TCGA-ET-A3BP TCGA-ET-A3BQ 
          20          237           51          177          127           74 
TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BV TCGA-ET-A3BW TCGA-ET-A3BX 
         168          752           39           56           72          137 
TCGA-ET-A3DO TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU 
        2095         1366           65            9          145          138 
TCGA-ET-A3DV TCGA-ET-A3DW TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 
        3424          751         1565         1442          374         1346 
TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A238 
         751         1333         3130         2031         2292         1215 
TCGA-FE-A239 TCGA-FE-A23A TCGA-FY-A2QD TCGA-FY-A3BL TCGA-GE-A2C6 TCGA-H2-A26U 
          NA         1907           38           35          206          106 
TCGA-H2-A2K9 TCGA-IM-A3EB TCGA-IM-A3ED 
         145         1070          939 
Variable 1:'AGE':	nDistinctValues=61,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=155,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=TRUE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=12,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'HISTOLOGICAL.TYPE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'NEOADJUVANT.THERAPY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'BATCH.NUMBER':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                                   
[2] "GENDER"                                
[3] "HISTOLOGICAL.TYPE"                     
[4] "RADIATIONS.RADIATION.REGIMENINDICATION"
[5] "NEOADJUVANT.THERAPY"                   
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 177 columns, 1 survival variables, and 5 non-survival variables.
AGE, nv=61, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL.TYPE, nv=4, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
NEOADJUVANT.THERAPY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = METHLYATION_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 42  1
  subtype2 23  0
  subtype3 91  0
subtype1 subtype2 subtype3 
      43       23       91 
subtype1 subtype2 subtype3 
       1        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZF 
       15.75        11.70         7.63         6.02         7.79         6.90 
TCGA-BJ-A0ZG TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28V 
        7.56         2.79         0.43         7.73         8.09         5.10 
TCGA-CE-A3ME TCGA-DE-A2OL TCGA-DJ-A13M TCGA-DJ-A13S TCGA-DJ-A13W TCGA-DJ-A1QG 
        0.23         5.29         9.01         8.71        14.93         6.97 
TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A2PP TCGA-DJ-A2Q0 TCGA-DJ-A2QB TCGA-E3-A3DZ 
        6.97         0.99         5.00         8.12        10.85        12.00 
TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE 
        8.05         7.13         9.34        46.72        39.75        21.37 
TCGA-EM-A2CN TCGA-EM-A2CO TCGA-ET-A25I TCGA-ET-A25P TCGA-ET-A2N1 TCGA-ET-A2N5 
       11.31         6.02         0.33         0.49        14.76        38.86 
TCGA-ET-A39I TCGA-ET-A39L TCGA-ET-A39N TCGA-ET-A3DS TCGA-ET-A3DV TCGA-FE-A239 
        0.30         1.94        65.88         0.30        65.79        65.92 
TCGA-FY-A2QD 
        1.25 

$subtype2
TCGA-BJ-A0Z3 TCGA-BJ-A0ZJ TCGA-CE-A27D TCGA-DJ-A13O TCGA-DJ-A13R TCGA-DJ-A2PX 
        5.98         5.00         0.10         7.07         3.02         5.03 
TCGA-DJ-A2Q1 TCGA-DJ-A2Q3 TCGA-DJ-A2Q5 TCGA-DJ-A2Q9 TCGA-E8-A242 TCGA-E8-A2JQ 
        9.34         9.21         9.90        10.36         1.12        66.12 
TCGA-EM-A22P TCGA-ET-A39M TCGA-ET-A3BV TCGA-ET-A3DO TCGA-ET-A3DQ TCGA-ET-A3DT 
        5.72        65.88         1.84        65.92        44.91         4.77 
TCGA-ET-A3DU TCGA-FE-A230 TCGA-GE-A2C6 TCGA-H2-A26U TCGA-IM-A3EB 
        4.54        47.41         6.77         3.48        35.18 

$subtype3
TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A0ZH TCGA-BJ-A28R TCGA-CE-A13K 
        6.48         8.25         4.01         0.72         4.87         0.53 
TCGA-CE-A3MD TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13P TCGA-DJ-A13T TCGA-DJ-A13U 
        0.20         7.59        31.30        65.72        24.92        12.92 
TCGA-DJ-A13V TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QH 
       11.90         7.99        10.98        65.85        18.05         7.99 
TCGA-DJ-A1QI TCGA-DJ-A1QN TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO 
        4.96         8.98         1.02         5.95         9.99         7.96 
TCGA-DJ-A2PR TCGA-DJ-A2PS TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PY 
       10.45         1.94        10.26         7.96         7.69         8.78 
TCGA-DJ-A2PZ TCGA-DJ-A2Q4 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2QA TCGA-DJ-A2QC 
        8.42         9.44         9.57         7.07        12.43         9.99 
TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 
       40.27         3.06        31.07        50.76        40.18        46.72 
TCGA-E3-A3E3 TCGA-E3-A3E5 TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV 
       20.88        14.04        19.07         5.03         7.04        66.08 
TCGA-EM-A2CS TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25L TCGA-ET-A25M 
        9.34        35.77        29.69        19.36        14.79        12.33 
TCGA-ET-A25N TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 
        2.47         4.44        20.42        19.04        12.26        34.49 
TCGA-ET-A2N4 TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R 
        1.41        11.90        65.95        43.04        13.35        46.45 
TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BO TCGA-ET-A3BP TCGA-ET-A3BQ 
        0.66         7.79         1.68         5.82         4.18         2.43 
TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DR 
        5.52        24.72         1.28         2.37         4.50         2.14 
TCGA-ET-A3DW TCGA-FE-A22Z TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 
       24.69        51.45        12.30        44.25        24.69        43.82 
TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A238 TCGA-FE-A23A TCGA-FY-A3BL 
       65.82        65.88        65.92        39.95        62.70         1.15 
TCGA-IM-A3ED 
       30.87 

subtype1 subtype2 subtype3 
    0.23     0.10     0.20 
subtype1 subtype2 subtype3 
   65.92    66.12    66.08 
subtype1 subtype2 subtype3 
    7.73     6.77    10.45 
[1] "0.2 - 65.9 (7.7)"  "0.1 - 66.1 (6.8)"  "0.2 - 66.1 (10.4)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [25] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[109] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[115] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[133] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[139] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[145] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[151] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [25] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[109] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[115] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[133] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[139] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[145] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[151] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [25] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
 [31] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [43] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [67] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[103] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[109] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[115] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[121] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[133] "subtype2" "subtype3" "subtype1" "subtype2" "subtype2" "subtype1"
[139] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
[145] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[151] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3"
D1V2, continuous
D1V3, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   30   13
  subtype2   17    6
  subtype3   66   25
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       30       17       66
  MALE         13        6       25
D1V4, multiclass
D1V5, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   42
  subtype2    1   22
  subtype3   12   79
     clus
vv    subtype1 subtype2 subtype3
  NO         1        1       12
  YES       42       22       79
D1V6, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   42
  subtype2    0   23
  subtype3    2   89
     clus
vv    subtype1 subtype2 subtype3
  NO         1        0        2
  YES       42       23       89

Clustering(2) Variable = MRNASEQ_CNMF
D2V1, survival
          sevent
clus2       0  1
  subtype1 33  1
  subtype2 27  0
  subtype3 42  0
  subtype4 13  0
subtype1 subtype2 subtype3 subtype4 
      34       27       42       13 
subtype1 subtype2 subtype3 subtype4 
       1        0        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A190 
       15.75        11.70         7.63         6.02         7.79         0.43 
TCGA-BJ-A28V TCGA-DE-A2OL TCGA-DJ-A13M TCGA-DJ-A13W TCGA-DJ-A1QG TCGA-DJ-A1QL 
        5.10         5.29         9.01        14.93         6.97         6.97 
TCGA-DJ-A1QM TCGA-DJ-A2PP TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-EM-A1CW TCGA-EM-A1YA 
        0.99         5.00        12.43        10.85         8.05         7.13 
TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A2CN TCGA-EM-A2CO 
        9.34        46.72        39.75        21.37        11.31         6.02 
TCGA-ET-A25I TCGA-ET-A25P TCGA-ET-A39I TCGA-ET-A39L TCGA-ET-A39N TCGA-ET-A39S 
        0.33         0.49         0.30         1.94        65.88         0.66 
TCGA-ET-A3DS TCGA-ET-A3DV TCGA-FE-A239 TCGA-FY-A2QD 
        0.30        65.79        65.92         1.25 

$subtype2
TCGA-BJ-A0Z5 TCGA-CE-A13K TCGA-DJ-A13P TCGA-DJ-A13T TCGA-DJ-A13V TCGA-DJ-A13X 
        6.48         0.53        65.72        24.92        11.90         7.99 
TCGA-DJ-A1QF TCGA-DJ-A1QN TCGA-DJ-A2PO TCGA-DJ-A2PR TCGA-DJ-A2PS TCGA-DJ-A2PU 
       18.05         8.98         7.96        10.45         1.94        10.26 
TCGA-DJ-A2PV TCGA-DJ-A2Q7 TCGA-DJ-A2QC TCGA-DO-A1JZ TCGA-EM-A1CS TCGA-ET-A25J 
        7.96         9.57         9.99        40.27        19.07        29.69 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A2N4 TCGA-ET-A39J TCGA-ET-A3BP TCGA-ET-A3BQ 
       19.36         4.44         1.41        11.90         4.18         2.43 
TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BW 
        5.52        24.72         2.37 

$subtype3
TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A28R TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13U 
        8.25         4.01         4.87         7.59        31.30        12.92 
TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QH TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PW 
       10.98        65.85         7.99         1.02         5.95         7.69 
TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q4 TCGA-DO-A1K0 TCGA-E8-A242 TCGA-EM-A1CT 
        8.78         8.42         9.44         3.06         1.12         5.03 
TCGA-EM-A1CU TCGA-ET-A25G TCGA-ET-A25L TCGA-ET-A25M TCGA-ET-A25N TCGA-ET-A25R 
        7.04        35.77        14.79        12.33         2.47        20.42 
TCGA-ET-A2MY TCGA-ET-A2N0 TCGA-ET-A39O TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BU 
       19.04        34.49        43.04         7.79         1.68         1.28 
TCGA-ET-A3BX TCGA-ET-A3DW TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A233 
        4.50        24.69        51.45        47.41        12.30        24.69 
TCGA-FE-A236 TCGA-FE-A238 TCGA-FE-A23A TCGA-FY-A3BL TCGA-IM-A3EB TCGA-IM-A3ED 
       65.88        39.95        62.70         1.15        35.18        30.87 

$subtype4
TCGA-BJ-A0ZJ TCGA-CE-A27D TCGA-DJ-A2PX TCGA-DJ-A2Q1 TCGA-DJ-A2Q3 TCGA-DJ-A2Q5 
        5.00         0.10         5.03         9.34         9.21         9.90 
TCGA-DJ-A2Q9 TCGA-EM-A22P TCGA-ET-A39R TCGA-ET-A3BO TCGA-ET-A3DO TCGA-FE-A237 
       10.36         5.72        46.45         5.82        65.92        65.92 
TCGA-H2-A26U 
        3.48 

subtype1 subtype2 subtype3 subtype4 
    0.30     0.53     1.02     0.10 
subtype1 subtype2 subtype3 subtype4 
   65.92    65.72    65.88    65.92 
subtype1 subtype2 subtype3 subtype4 
    7.38     9.57    10.21     9.21 
[1] "0.3 - 65.9 (7.4)"  "0.5 - 65.7 (9.6)"  "1.0 - 65.9 (10.2)"
[4] "0.1 - 65.9 (9.2)" 
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype1" "subtype1" "subtype4" "subtype1" "subtype3" "subtype1"
 [13] "subtype2" "subtype4" "subtype3" "subtype3" "subtype1" "subtype1"
 [19] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
 [43] "subtype3" "subtype3" "subtype4" "subtype4" "subtype3" "subtype4"
 [49] "subtype2" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
 [67] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [85] "subtype1" "subtype3" "subtype4" "subtype1" "subtype3" "subtype3"
 [91] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype3" "subtype4" "subtype1" "subtype1" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype4"
[109] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype4"
[115] "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype1" "subtype1" "subtype4" "subtype1" "subtype3" "subtype1"
 [13] "subtype2" "subtype4" "subtype3" "subtype3" "subtype1" "subtype1"
 [19] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
 [43] "subtype3" "subtype3" "subtype4" "subtype4" "subtype3" "subtype4"
 [49] "subtype2" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
 [67] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [85] "subtype1" "subtype3" "subtype4" "subtype1" "subtype3" "subtype3"
 [91] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype3" "subtype4" "subtype1" "subtype1" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype4"
[109] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype4"
[115] "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype1" "subtype1" "subtype4" "subtype1" "subtype3" "subtype1"
 [13] "subtype2" "subtype4" "subtype3" "subtype3" "subtype1" "subtype1"
 [19] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [25] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
 [31] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [37] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype4"
 [43] "subtype3" "subtype3" "subtype4" "subtype4" "subtype3" "subtype4"
 [49] "subtype2" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
 [55] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype4"
 [67] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
 [79] "subtype3" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
 [85] "subtype1" "subtype3" "subtype4" "subtype1" "subtype3" "subtype3"
 [91] "subtype4" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [97] "subtype2" "subtype3" "subtype4" "subtype1" "subtype1" "subtype3"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype4"
[109] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype4"
[115] "subtype3" "subtype3"
D2V2, continuous
D2V3, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   23   11
  subtype2   23    4
  subtype3   25   17
  subtype4   10    3
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       23       23       25       10
  MALE         11        4       17        3
D2V4, multiclass
D2V5, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   33
  subtype2    1   26
  subtype3    8   34
  subtype4    1   12
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        1        8        1
  YES       33       26       34       12
D2V6, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   33
  subtype2    1   26
  subtype3    1   41
  subtype4    0   13
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        1        1        0
  YES       33       26       41       13

Clustering(3) Variable = MRNASEQ_CHIERARCHICAL
D3V1, survival
          sevent
clus2       0  1
  subtype1 30  1
  subtype2 64  0
  subtype3 21  0
subtype1 subtype2 subtype3 
      31       64       21 
subtype1 subtype2 subtype3 
       1        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A190 
       15.75        11.70         7.63         6.02         7.79         0.43 
TCGA-BJ-A28V TCGA-DE-A2OL TCGA-DJ-A13M TCGA-DJ-A13W TCGA-DJ-A1QG TCGA-DJ-A1QL 
        5.10         5.29         9.01        14.93         6.97         6.97 
TCGA-DJ-A1QM TCGA-DJ-A2PP TCGA-DJ-A2QB TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB 
        0.99         5.00        10.85         8.05         7.13         9.34 
TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A2CN TCGA-EM-A2CO TCGA-ET-A25I 
       46.72        39.75        21.37        11.31         6.02         0.33 
TCGA-ET-A25P TCGA-ET-A39I TCGA-ET-A39N TCGA-ET-A3DS TCGA-ET-A3DV TCGA-FE-A239 
        0.49         0.30        65.88         0.30        65.79        65.92 
TCGA-FY-A2QD 
        1.25 

$subtype2
TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A0ZJ TCGA-BJ-A28R TCGA-CE-A27D 
        6.48         8.25         4.01         5.00         4.87         0.10 
TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13U TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QH 
        7.59        31.30        12.92        10.98        65.85         7.99 
TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PO TCGA-DJ-A2PR TCGA-DJ-A2PW TCGA-DJ-A2PX 
        1.02         5.95         7.96        10.45         7.69         5.03 
TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q1 TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 
        8.78         8.42         9.34         9.21         9.44         9.90 
TCGA-DJ-A2Q9 TCGA-DO-A1K0 TCGA-E8-A242 TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A22P 
       10.36         3.06         1.12         5.03         7.04         5.72 
TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25L TCGA-ET-A25M TCGA-ET-A25N 
       35.77        29.69        19.36        14.79        12.33         2.47 
TCGA-ET-A25R TCGA-ET-A2MY TCGA-ET-A2N0 TCGA-ET-A39J TCGA-ET-A39O TCGA-ET-A39R 
       20.42        19.04        34.49        11.90        43.04        46.45 
TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BO TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT 
        7.79         1.68         5.82         2.43         5.52        24.72 
TCGA-ET-A3BU TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DW TCGA-FE-A22Z TCGA-FE-A230 
        1.28         4.50        65.92        24.69        51.45        47.41 
TCGA-FE-A231 TCGA-FE-A233 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A238 TCGA-FE-A23A 
       12.30        24.69        65.88        65.92        39.95        62.70 
TCGA-FY-A3BL TCGA-H2-A26U TCGA-IM-A3EB TCGA-IM-A3ED 
        1.15         3.48        35.18        30.87 

$subtype3
TCGA-CE-A13K TCGA-DJ-A13P TCGA-DJ-A13T TCGA-DJ-A13V TCGA-DJ-A13X TCGA-DJ-A1QF 
        0.53        65.72        24.92        11.90         7.99        18.05 
TCGA-DJ-A1QN TCGA-DJ-A2PS TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2Q7 TCGA-DJ-A2QA 
        8.98         1.94        10.26         7.96         9.57        12.43 
TCGA-DJ-A2QC TCGA-DO-A1JZ TCGA-EM-A1CS TCGA-ET-A25O TCGA-ET-A2N4 TCGA-ET-A39L 
        9.99        40.27        19.07         4.44         1.41         1.94 
TCGA-ET-A39S TCGA-ET-A3BP TCGA-ET-A3BW 
        0.66         4.18         2.37 

subtype1 subtype2 subtype3 
    0.30     0.10     0.53 
subtype1 subtype2 subtype3 
   65.92    65.92    65.72 
subtype1 subtype2 subtype3 
    7.63     9.39     8.98 
[1] "0.3 - 65.9 (7.6)" "0.1 - 65.9 (9.4)" "0.5 - 65.7 (9.0)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [19] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [25] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [31] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [37] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [85] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[115] "subtype2" "subtype2"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [19] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [25] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [31] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [37] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [85] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[115] "subtype2" "subtype2"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype1"
 [19] "subtype3" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [25] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype1"
 [31] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
 [37] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [49] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [61] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [85] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[115] "subtype2" "subtype2"
D3V2, continuous
D3V3, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   20   11
  subtype2   40   24
  subtype3   21    0
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       20       40       21
  MALE         11       24        0
D3V4, multiclass
D3V5, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   30
  subtype2    9   55
  subtype3    1   20
     clus
vv    subtype1 subtype2 subtype3
  NO         1        9        1
  YES       30       55       20
D3V6, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   30
  subtype2    1   63
  subtype3    1   20
     clus
vv    subtype1 subtype2 subtype3
  NO         1        1        1
  YES       30       63       20

Clustering(4) Variable = MIRSEQ_CNMF
D4V1, survival
          sevent
clus2       0  1
  subtype1 46  1
  subtype2 56  0
  subtype3 47  0
subtype1 subtype2 subtype3 
      47       56       47 
subtype1 subtype2 subtype3 
       1        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZF 
       15.75        11.70         7.63         6.02         7.79         6.90 
TCGA-BJ-A0ZG TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A191 TCGA-BJ-A192 
        7.56         5.00         2.79         0.43         7.73         8.09 
TCGA-BJ-A28V TCGA-DE-A2OL TCGA-DJ-A13M TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13W 
        5.10         5.29         9.01         3.02         8.71        14.93 
TCGA-DJ-A1QG TCGA-DJ-A1QL TCGA-DO-A1JZ TCGA-E3-A3DZ TCGA-EM-A1CW TCGA-EM-A1YA 
        6.97         6.97        40.27        12.00         8.05         7.13 
TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YE TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
        9.34        46.72        21.37         6.81         6.64         4.54 
TCGA-EM-A22N TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CM 
        6.87         6.31        11.44         8.19         6.87        11.74 
TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CT TCGA-ET-A25I TCGA-ET-A25P 
        2.96         6.54         7.17        10.49         0.33         0.49 
TCGA-ET-A2N1 TCGA-ET-A2N5 TCGA-FE-A239 TCGA-FY-A2QD TCGA-H2-A2K9 
       14.76        38.86        65.92         1.25         4.77 

$subtype2
TCGA-BJ-A0Z3 TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 TCGA-BJ-A0ZH TCGA-BJ-A28R TCGA-CE-A13K 
        5.98         6.48         8.25         0.72         4.87         0.53 
TCGA-CE-A3ME TCGA-DE-A0XZ TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13P TCGA-DJ-A13T 
        0.23        12.39         7.59        31.30        65.72        24.92 
TCGA-DJ-A13U TCGA-DJ-A13X TCGA-DJ-A1QI TCGA-DJ-A1QN TCGA-DJ-A2PX TCGA-DJ-A2Q4 
       12.92         7.99         4.96         8.98         5.03         9.44 
TCGA-DJ-A2Q7 TCGA-DJ-A2QC TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E0 TCGA-E3-A3E2 
        9.57         9.99         3.06        31.07        50.76        46.72 
TCGA-E3-A3E3 TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CV TCGA-EM-A22I TCGA-EM-A22O 
       20.88        19.07         5.03        66.08         2.66         6.21 
TCGA-EM-A2CS TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25N TCGA-ET-A25O 
        9.34        35.77        29.69        19.36         2.47         4.44 
TCGA-ET-A25R TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N4 TCGA-ET-A39K TCGA-ET-A39L 
       20.42        19.04        12.26         1.41        65.95         1.94 
TCGA-ET-A39R TCGA-ET-A39T TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DW TCGA-FE-A230 
       46.45         7.79         2.37         4.50        24.69        47.41 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
       12.30        44.25        24.69        43.82        65.82        65.88 
TCGA-FE-A23A TCGA-FY-A3BL 
       62.70         1.15 

$subtype3
TCGA-BJ-A0ZB TCGA-CE-A27D TCGA-CE-A3MD TCGA-DJ-A13O TCGA-DJ-A1QD TCGA-DJ-A1QE 
        4.01         0.10         0.20         7.07        10.98        65.85 
TCGA-DJ-A1QF TCGA-DJ-A1QH TCGA-DJ-A1QM TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN 
       18.05         7.99         0.99         1.02         5.95         9.99 
TCGA-DJ-A2PS TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q3 TCGA-DJ-A2Q5 TCGA-DJ-A2Q8 
        1.94         8.78         8.42         9.21         9.90         7.07 
TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-E3-A3E1 TCGA-E3-A3E5 TCGA-E8-A242 TCGA-E8-A2EA 
       10.36        12.43        40.18        14.04         1.12         0.36 
TCGA-E8-A2JQ TCGA-EM-A1CU TCGA-EM-A1YD TCGA-EM-A22M TCGA-EM-A22P TCGA-EM-A2CU 
       66.12         7.04        39.75         3.48         5.72         5.79 
TCGA-ET-A25L TCGA-ET-A25M TCGA-ET-A2N0 TCGA-ET-A39M TCGA-ET-A39P TCGA-ET-A39S 
       14.79        12.33        34.49        65.88        13.35         0.66 
TCGA-ET-A3BN TCGA-ET-A3BV TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DT TCGA-ET-A3DU 
        1.68         1.84        44.91         2.14         4.77         4.54 
TCGA-FE-A22Z TCGA-FE-A237 TCGA-FE-A238 TCGA-GE-A2C6 TCGA-H2-A26U 
       51.45        65.92        39.95         6.77         3.48 

subtype1 subtype2 subtype3 
    0.33     0.23     0.10 
subtype1 subtype2 subtype3 
   65.92    66.08    66.12 
subtype1 subtype2 subtype3 
   7.170   11.125    7.990 
[1] "0.3 - 65.9 (7.2)"  "0.2 - 66.1 (11.1)" "0.1 - 66.1 (8.0)" 
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [31] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [61] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[145] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [31] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [61] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[145] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
 [31] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
 [37] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [43] "subtype1" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [49] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [61] "subtype1" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[133] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[139] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype1"
[145] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
D4V2, continuous
D4V3, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   31   16
  subtype2   44   12
  subtype3   33   14
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       31       44       33
  MALE         16       12       14
D4V4, multiclass
D4V5, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   45
  subtype2    9   47
  subtype3    3   44
     clus
vv    subtype1 subtype2 subtype3
  NO         2        9        3
  YES       45       47       44
D4V6, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   45
  subtype2    1   55
  subtype3    0   47
     clus
vv    subtype1 subtype2 subtype3
  NO         2        1        0
  YES       45       55       47

Clustering(5) Variable = MIRSEQ_CHIERARCHICAL
D5V1, survival
          sevent
clus2       0  1
  subtype1 42  1
  subtype2 55  0
  subtype3 52  0
subtype1 subtype2 subtype3 
      43       55       52 
subtype1 subtype2 subtype3 
       1        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZF 
       15.75        11.70         7.63         6.02         7.79         6.90 
TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28V TCGA-DE-A2OL 
        2.79         0.43         7.73         8.09         5.10         5.29 
TCGA-DJ-A13M TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13W TCGA-DJ-A1QG TCGA-DJ-A1QL 
        9.01         3.02         8.71        14.93         6.97         6.97 
TCGA-E3-A3DZ TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A22J 
       12.00         8.05         7.13         9.34        46.72         6.81 
TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22N TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
        6.64         4.54         6.87         6.31        11.44         8.19 
TCGA-EM-A2CL TCGA-EM-A2CM TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CT 
        6.87        11.74         2.96         6.54         7.17        10.49 
TCGA-ET-A25I TCGA-ET-A25P TCGA-ET-A2N1 TCGA-ET-A2N5 TCGA-FE-A239 TCGA-FY-A2QD 
        0.33         0.49        14.76        38.86        65.92         1.25 
TCGA-H2-A2K9 
        4.77 

$subtype2
TCGA-BJ-A0Z3 TCGA-BJ-A0ZB TCGA-BJ-A0ZG TCGA-CE-A27D TCGA-CE-A3MD TCGA-DJ-A13O 
        5.98         4.01         7.56         0.10         0.20         7.07 
TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QM TCGA-DJ-A1QO 
       10.98        65.85         7.99         4.96         0.99         1.02 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PS TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q3 
        5.95         9.99         1.94         8.78         8.42         9.21 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-E3-A3E1 TCGA-E3-A3E2 
        9.90         7.07        10.36        12.43        40.18        46.72 
TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-EM-A1YD TCGA-EM-A1YE 
       20.88         1.12         0.36        66.12        39.75        21.37 
TCGA-EM-A22P TCGA-EM-A2CU TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25L 
        5.72         5.79        35.77        29.69        19.36        14.79 
TCGA-ET-A25M TCGA-ET-A25R TCGA-ET-A2N0 TCGA-ET-A39K TCGA-ET-A39M TCGA-ET-A39P 
       12.33        20.42        34.49        65.95        65.88        13.35 
TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A3BN TCGA-ET-A3BV TCGA-ET-A3DQ TCGA-ET-A3DR 
       46.45         0.66         1.68         1.84        44.91         2.14 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-FE-A22Z TCGA-FE-A235 TCGA-FE-A237 TCGA-GE-A2C6 
        4.77         4.54        51.45        65.82        65.92         6.77 
TCGA-H2-A26U 
        3.48 

$subtype3
TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A28R TCGA-CE-A13K 
        6.48         8.25         0.72         5.00         4.87         0.53 
TCGA-CE-A3ME TCGA-DE-A0XZ TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13P TCGA-DJ-A13T 
        0.23        12.39         7.59        31.30        65.72        24.92 
TCGA-DJ-A13U TCGA-DJ-A13X TCGA-DJ-A1QF TCGA-DJ-A1QN TCGA-DJ-A2PX TCGA-DJ-A2Q4 
       12.92         7.99        18.05         8.98         5.03         9.44 
TCGA-DJ-A2Q7 TCGA-DJ-A2QC TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E0 
        9.57         9.99        40.27         3.06        31.07        50.76 
TCGA-E3-A3E5 TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A22I 
       14.04        19.07         5.03         7.04        66.08         2.66 
TCGA-EM-A22M TCGA-EM-A22O TCGA-EM-A2CS TCGA-ET-A25N TCGA-ET-A25O TCGA-ET-A2MY 
        3.48         6.21         9.34         2.47         4.44        19.04 
TCGA-ET-A2MZ TCGA-ET-A2N4 TCGA-ET-A39L TCGA-ET-A39T TCGA-ET-A3BW TCGA-ET-A3BX 
       12.26         1.41         1.94         7.79         2.37         4.50 
TCGA-ET-A3DW TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 
       24.69        47.41        12.30        44.25        24.69        43.82 
TCGA-FE-A236 TCGA-FE-A238 TCGA-FE-A23A TCGA-FY-A3BL 
       65.88        39.95        62.70         1.15 

subtype1 subtype2 subtype3 
    0.33     0.10     0.23 
subtype1 subtype2 subtype3 
   65.92    66.12    66.08 
subtype1 subtype2 subtype3 
    7.13     9.21     9.39 
[1] "0.3 - 65.9 (7.1)" "0.1 - 66.1 (9.2)" "0.2 - 66.1 (9.4)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [13] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
 [31] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [43] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[115] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[145] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [13] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
 [31] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [43] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[115] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[145] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [13] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype1" "subtype1" "subtype2" "subtype3"
 [31] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype3"
 [37] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
 [43] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [49] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [55] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [67] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [73] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
 [79] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
 [85] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [97] "subtype1" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[103] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[109] "subtype3" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
[115] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[121] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[127] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
[145] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
D5V2, continuous
D5V3, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   29   14
  subtype2   43   12
  subtype3   36   16
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       29       43       36
  MALE         14       12       16
D5V4, multiclass
D5V5, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   42
  subtype2    3   52
  subtype3   10   42
     clus
vv    subtype1 subtype2 subtype3
  NO         1        3       10
  YES       42       52       42
D5V6, binary
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   42
  subtype2    0   55
  subtype3    2   50
     clus
vv    subtype1 subtype2 subtype3
  NO         1        0        2
  YES       42       55       50
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
                                "GENDER" 
                                      V4 
                     "HISTOLOGICAL.TYPE" 
                                      V5 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                      V6 
                   "NEOADJUVANT.THERAPY" 
> q(save="no")
