
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/THCA-TP/2667405/1.GDAC_mergedClustering.Finished/THCA-TP.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPickerPipeline/THCA-TP/2589062/1.GDAC_clinicalDataPicker.Finished/THCA-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=290, in cluster file=435, common to both=288
[1]   8 288
[1] "CN_CNMF"
[1] 3
  1   2   3 
 22 220  42 
  1   2   3 
 22 220  42 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3 
 92  39 157 
  1   2   3 
 92  39 157 
[1] "RPPA_CNMF"
[1] 3
 1  2  3 
47 58 58 
 1  2  3 
47 58 58 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3 
25 69 69 
 1  2  3 
25 69 69 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3  4 
88 30 65 88 
 1  2  3  4 
88 30 65 88 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 97 123  51 
  1   2   3 
 97 123  51 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
 85 104  93 
  1   2   3 
 85 104  93 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 78 107  97 
  1   2   3 
 78 107  97 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "VITALSTATUS"                           
 [5] "DCCUPLOADDATE"                         
 [6] "PRIMARYSITEOFDESEASE"                  
 [7] "GENDER"                                
 [8] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
 [9] "RADIATIONTHERAPY"                      
[10] "HISTOLOGICALTYPE"                      
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "RADIATIONEXPOSURE"                     
[13] "DISTANT.METASTASIS"                    
[14] "EXTRATHYROIDAL.EXTENSION"              
[15] "LYMPH.NODE.METASTASIS"                 
[16] "COMPLETENESS.OF.RESECTION"             
[17] "NUMBER.OF.LYMPH.NODES"                 
[18] "TUMOR.STAGECODE"                       
[19] "NEOPLASM.DISEASESTAGE"                 
[20] "MULTIFOCALITY"                         
[21] "TUMOR.SIZE"                            
[22] "BATCHNUMBER"                           

Input Data has 22 rows and 288 columns.

[1] "Batch" "22"   
[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-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC TCGA-BJ-A0ZE TCGA-BJ-A0ZF TCGA-BJ-A0ZG 
         264          122          183          237          210          230 
TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A191 TCGA-BJ-A192 
          22          152           85           13          235          246 
TCGA-BJ-A28R TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A290 TCGA-BJ-A3PR 
         148           84          155          532          626          244 
TCGA-BJ-A3PT TCGA-CE-A13K TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-DE-A0XZ 
         367           16            3            6            7          402 
TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DJ-A13M TCGA-DJ-A13O 
         231          952          161          286          274          215 
TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V 
        4199           92          265          758          393          362 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QG 
         454          243          334         3041          549          212 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A1QO 
         243          151          212           30          273           31 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PR 
         181          304          242          152          623          318 
TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX 
          59          292          312          242          234          153 
TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q0 TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 TCGA-DJ-A2Q3 
         267          256          247          284          206          280 
TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 
         287          301          262          291          215          315 
TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A2QC TCGA-DJ-A3UN TCGA-DJ-A3US TCGA-DJ-A3UY 
         378          330          304          380          630          405 
TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V4 TCGA-DJ-A3V6 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
         225          540          443          454          299          259 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG 
         217          363          350          134          235          253 
TCGA-DJ-A3VJ TCGA-DJ-A3VM TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY 
         528          481         1225           93           70          945 
TCGA-E3-A3DZ TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E3-A3E5 
         365         1544         1222         1421          635          427 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
          34           11           NA           45           10            7 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A418 TCGA-E8-A419 TCGA-E8-A432 
           5           22            8           45           NA           16 
TCGA-E8-A433 TCGA-E8-A434 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K 
           5            7           35          234          210           12 
TCGA-E8-A44M TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW 
          12          580          153          214           NA          245 
TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22I 
         217          284         1421         1209          650           81 
TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22N TCGA-EM-A22O 
         207          202          138          106          209          189 
TCGA-EM-A22P TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CM 
         174          192          348          249          209          357 
TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CS 
         344          183           90          199          218          284 
TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OY 
         319          176          353          219           88          347 
TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 TCGA-EM-A2P3 TCGA-EM-A3AJ 
         284          191          194          224           10          397 
TCGA-EM-A3AK TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AP TCGA-EM-A3AQ TCGA-EM-A3AR 
         282          341          336          161          262          207 
TCGA-EM-A3O8 TCGA-EM-A3OB TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J TCGA-ET-A25K 
          15           71         1088           10          903          589 
TCGA-ET-A25L TCGA-ET-A25M TCGA-ET-A25N TCGA-ET-A25O TCGA-ET-A25P TCGA-ET-A25R 
         450          375           75          135           15          621 
TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 
        1643          579          373         1049          449          198 
TCGA-ET-A2N4 TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39L 
          43         1182            9          362         2058           59 
TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S 
        2266         2535         1309          406         1413           20 
TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BO TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS 
         237           51          177          127           74          168 
TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BV TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO 
         752           39           56           72          137         2095 
TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DT TCGA-ET-A3DU 
        1536         1366           65            9          145          138 
TCGA-ET-A3DV TCGA-ET-A3DW TCGA-ET-A40P TCGA-ET-A40S TCGA-FE-A22Z TCGA-FE-A230 
        3424          751           98          152         1565         1442 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
         374         1346          751         1333         3130         2031 
TCGA-FE-A237 TCGA-FE-A238 TCGA-FE-A239 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB 
        2292         1215           NA         1907         2872         2589 
TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH 
        1868         1913         1401          669           28         1463 
TCGA-FY-A2QD TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NN 
          38           35           34           50           30           NA 
TCGA-FY-A3NP TCGA-FY-A3ON TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3R9 
          18           46           23            1          141           66 
TCGA-FY-A3RA TCGA-FY-A3TY TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A3YR TCGA-FY-A40K 
         278           NA           23           29          208          126 
TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A2K9 
         199          138           27          206          106          145 
TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED 
         148           90           67           88         1070          939 
TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-J8-A3NZ TCGA-J8-A3O0 TCGA-J8-A3O1 TCGA-J8-A3O2 
          80           99           68          392          415           41 
TCGA-J8-A3YD TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S 
         968          846          751          678          174           75 
Variable 1:'AGE':	nDistinctValues=67,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=230,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=TRUE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=3,	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:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'HISTOLOGICAL.TYPE':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'RADIATIONEXPOSURE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'DISTANT.METASTASIS':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'EXTRATHYROIDAL.EXTENSION':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'LYMPH.NODE.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'NUMBER.OF.LYMPH.NODES':	nDistinctValues=26,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 18:'TUMOR.STAGECODE':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'NEOPLASM.DISEASESTAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 20:'MULTIFOCALITY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 21:'TUMOR.SIZE':	nDistinctValues=58,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 22:'BATCH.NUMBER':	nDistinctValues=20,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "AGE"                                   
 [2] "GENDER"                                
 [3] "HISTOLOGICAL.TYPE"                     
 [4] "RADIATIONS.RADIATION.REGIMENINDICATION"
 [5] "RADIATIONEXPOSURE"                     
 [6] "DISTANT.METASTASIS"                    
 [7] "EXTRATHYROIDAL.EXTENSION"              
 [8] "LYMPH.NODE.METASTASIS"                 
 [9] "COMPLETENESS.OF.RESECTION"             
[10] "NUMBER.OF.LYMPH.NODES"                 
[11] "TUMOR.STAGECODE"                       
[12] "NEOPLASM.DISEASESTAGE"                 
[13] "MULTIFOCALITY"                         
[14] "TUMOR.SIZE"                            
[1] "TUMOR.?STAGE" "11"          
[1] "stage2"
vv
 T1 T1A T1B  T2  T3  T4 T4A  TX 
 24  10  56 100  89   1   7   1 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 288 columns, 1 survival variables, and 14 non-survival variables.
AGE, nv=67, 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
RADIATIONEXPOSURE, nv=2, binary=FALSE, numeric=FALSE
DISTANT.METASTASIS, nv=3, binary=FALSE, numeric=FALSE
EXTRATHYROIDAL.EXTENSION, nv=3, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
COMPLETENESS.OF.RESECTION, nv=4, binary=FALSE, numeric=FALSE
NUMBER.OF.LYMPH.NODES, nv=26, binary=FALSE, numeric=TRUE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=5, binary=FALSE, numeric=FALSE
MULTIFOCALITY, nv=2, binary=FALSE, numeric=FALSE
TUMOR.SIZE, nv=58, binary=FALSE, numeric=TRUE

Clustering(1) Variable = CN_CNMF
D1V1, survival
          sevent
clus2        0   1
  subtype1  21   1
  subtype2 220   0
  subtype3  42   0
subtype1 subtype2 subtype3 
      22      220       42 
subtype1 subtype2 subtype3 
       1        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A190 TCGA-BJ-A192 TCGA-DJ-A2PV TCGA-DJ-A2Q0 TCGA-E8-A432 
       15.75         0.43         8.09         7.96         8.12         0.53 
TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22N TCGA-EM-A2CJ TCGA-EM-A2CO 
       46.72        39.75        21.37         6.87        11.44         6.02 
TCGA-EM-A2OY TCGA-ET-A25L TCGA-ET-A2MZ TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A40S 
       11.41        14.79        12.26        65.88        65.88         5.00 
TCGA-FE-A231 TCGA-FE-A239 TCGA-FY-A3I5 TCGA-FY-A3NM 
       12.30        65.92         1.64         0.99 

$subtype2
TCGA-BJ-A0Z0 TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 TCGA-BJ-A0ZA TCGA-BJ-A0ZB TCGA-BJ-A0ZC 
       11.70         5.98         8.25         8.68         4.01         6.02 
TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZJ TCGA-BJ-A191 TCGA-BJ-A28R TCGA-BJ-A28T 
        7.79         7.56         5.00         7.73         4.87         2.76 
TCGA-BJ-A28V TCGA-BJ-A28X TCGA-BJ-A290 TCGA-BJ-A3PR TCGA-CE-A13K TCGA-CE-A27D 
        5.10        17.49        20.58         8.02         0.53         0.10 
TCGA-CE-A3MD TCGA-CE-A3ME TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A2OL TCGA-DE-A3KN 
        0.20         0.23         7.59        31.30         5.29         9.40 
TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13U TCGA-DJ-A13V 
        7.07        65.72         3.02         8.71        12.92        11.90 
TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QH 
       14.93         7.99        10.98        65.85        18.05         7.99 
TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN 
        4.96         6.97         0.99         1.02         5.95         9.99 
TCGA-DJ-A2PO TCGA-DJ-A2PP TCGA-DJ-A2PQ TCGA-DJ-A2PR TCGA-DJ-A2PT TCGA-DJ-A2PU 
        7.96         5.00        20.48        10.45         9.60        10.26 
TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q1 TCGA-DJ-A2Q2 
        7.69         5.03         8.78         8.42         9.34         6.77 
TCGA-DJ-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 
        9.21         9.44         9.90         8.61         7.07        10.36 
TCGA-DJ-A2QC TCGA-DJ-A3US TCGA-DJ-A3UY TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V4 
        9.99        20.71        13.32         7.40        17.75        14.56 
TCGA-DJ-A3V6 TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VD 
       14.93         9.83         8.52         7.13        11.93        11.51 
TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VG TCGA-DJ-A3VJ TCGA-DO-A1JZ TCGA-DO-A1K0 
        4.41         7.73         8.32        17.36        40.27         3.06 
TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
        2.30        31.07        50.76        40.18        46.72        20.88 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
        1.12         0.36        66.12         1.48         0.33         0.23 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A417 TCGA-E8-A418 TCGA-E8-A419 TCGA-E8-A433 
        0.16         0.72         0.26         1.48        66.15         0.16 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-E8-A44M TCGA-EM-A1CT 
        1.15         7.69         6.90         0.39         0.39         5.03 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A22I 
        7.04        66.08         8.05         7.13         9.34         2.66 
TCGA-EM-A22J TCGA-EM-A22O TCGA-EM-A22Q TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CN 
        6.81         6.21         6.31         8.19         6.87        11.31 
TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CS TCGA-EM-A2CT TCGA-EM-A2CU TCGA-EM-A2OV 
        2.96         6.54         9.34        10.49         5.79        11.61 
TCGA-EM-A2OW TCGA-EM-A2OX TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P2 
        7.20         2.89         9.34         6.28         6.38         7.36 
TCGA-EM-A2P3 TCGA-EM-A3AJ TCGA-EM-A3AK TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AQ 
        0.33        13.05         9.27        11.21        11.05         8.61 
TCGA-EM-A3AR TCGA-EM-A3O8 TCGA-EM-A3OB TCGA-ET-A25G TCGA-ET-A25I TCGA-ET-A25J 
        6.81         0.49         2.33        35.77         0.33        29.69 
TCGA-ET-A25K TCGA-ET-A25M TCGA-ET-A25N TCGA-ET-A25P TCGA-ET-A25R TCGA-ET-A2MX 
       19.36        12.33         2.47         0.49        20.42        54.02 
TCGA-ET-A2MY TCGA-ET-A2N0 TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N5 TCGA-ET-A39I 
       19.04        34.49        14.76         6.51        38.86         0.30 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S 
       11.90        65.95        43.04        13.35        46.45         0.66 
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-A3BV TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP 
        1.28         1.84         2.37         4.50        65.92        50.50 
TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DV TCGA-ET-A3DW 
       44.91         2.14         4.77         4.54        65.79        24.69 
TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       51.45        47.41        44.25        24.69        43.82        65.82 
TCGA-FE-A236 TCGA-FE-A238 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PC TCGA-FE-A3PD 
       65.88        39.95        62.70        65.82        61.41        62.89 
TCGA-FK-A3S3 TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FY-A2QD TCGA-FY-A3BL 
       46.06        21.99         0.92        48.10         1.25         1.15 
TCGA-FY-A3I4 TCGA-FY-A3NN TCGA-FY-A3R6 TCGA-FY-A3R8 TCGA-FY-A3R9 TCGA-FY-A3RA 
        1.12        66.12         0.76         4.64         2.17         9.14 
TCGA-FY-A3TY TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-FY-A40M TCGA-FY-A40N 
       66.15         6.84         4.14         6.54         4.54         0.89 
TCGA-H2-A26U TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
        3.48         4.77         4.87         2.96         2.20         2.89 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-J8-A3NZ TCGA-J8-A3O1 TCGA-J8-A3O2 
       35.18        30.87         2.63         2.24        13.64         1.35 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A42S 
       27.81        24.69        22.29         2.47 

$subtype3
TCGA-BJ-A0Z2 TCGA-BJ-A0Z5 TCGA-BJ-A0ZH TCGA-BJ-A18Y TCGA-BJ-A3PT TCGA-DE-A0XZ 
        7.63         6.48         0.72         2.79        12.07        13.22 
TCGA-DJ-A13M TCGA-DJ-A13T TCGA-DJ-A1QG TCGA-DJ-A1QN TCGA-DJ-A2PS TCGA-DJ-A2Q7 
        9.01        24.92         6.97         8.98         1.94         9.57 
TCGA-DJ-A2QA TCGA-DJ-A2QB TCGA-DJ-A3UN TCGA-DJ-A3VM TCGA-E3-A3DZ TCGA-E3-A3E5 
       12.43        10.85        12.49        15.81        12.00        14.04 
TCGA-E8-A434 TCGA-EM-A1CS TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22M TCGA-EM-A22P 
        0.23        19.07         6.64         4.54         3.48         5.72 
TCGA-EM-A2CM TCGA-EM-A3AP TCGA-ET-A25O TCGA-ET-A2N4 TCGA-ET-A39L TCGA-ET-A3BP 
       11.74         5.29         4.44         1.41         1.94         4.18 
TCGA-ET-A3DS TCGA-ET-A40P TCGA-FE-A237 TCGA-FE-A3PB TCGA-FY-A3R7 TCGA-FY-A3W9 
        0.30         3.22        65.92        65.88         0.03         0.76 
TCGA-FY-A3WA TCGA-GE-A2C6 TCGA-IM-A3U3 TCGA-J8-A3O0 TCGA-J8-A3YD TCGA-J8-A3YH 
        0.95         6.77         3.25        12.89        31.82         5.72 

subtype1 subtype2 subtype3 
    0.43     0.10     0.03 
subtype1 subtype2 subtype3 
   65.92    66.15    65.92 
subtype1 subtype2 subtype3 
  11.425    7.975    6.705 
[1] "0.4 - 65.9 (11.4)" "0.1 - 66.2 (8.0)"  "0.0 - 65.9 (6.7)" 
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [49] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[181] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[235] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[283] "subtype3" "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [49] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[181] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[235] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[283] "subtype3" "subtype2"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
  [7] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [13] "subtype2" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [25] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [37] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [43] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [49] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [61] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
 [79] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [85] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
 [97] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[133] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
[139] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[151] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype2"
[163] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[169] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[175] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[181] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[187] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[193] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[199] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype2"
[229] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[235] "subtype1" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
[241] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[247] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
[253] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[265] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[277] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[283] "subtype3" "subtype2"
D1V2, continuous
D1V3, binary
          cls
clus         0   1
  subtype1  15   7
  subtype2 163  57
  subtype3  33   9
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   15    7
  subtype2  163   57
  subtype3   33    9
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       15      163       33
  MALE          7       57        9
          vv
clus       OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1     5                                            10
  subtype2    10                                           138
  subtype3     3                                            19
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                      6
  subtype2                                                                     46
  subtype3                                                                     17
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   1
  subtype2                                                                  26
  subtype3                                                                   3
D1V4, multiclass
D1V5, binary
          cls
clus         0   1
  subtype1   2  20
  subtype2  11 209
  subtype3   1  41
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   20
  subtype2   11  209
  subtype3    1   41
     clus
vv    subtype1 subtype2 subtype3
  NO         2       11        1
  YES       20      209       41
D1V6, binary
          cls
clus         0   1
  subtype1  19   2
  subtype2 179   9
  subtype3  39   0
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   19    2
  subtype2  179    9
  subtype3   39    0
     clus
vv    subtype1 subtype2 subtype3
  NO        19      179       39
  YES        2        9        0
          vv
clus        M0  M1  MX
  subtype1   5   0  17
  subtype2 101   3 115
  subtype3  18   1  23
D1V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1            3                       0   19
  subtype2           53                       5  150
  subtype3            8                       0   32
D1V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 15  0   0   2  5
  subtype2 99 13  54  31 23
  subtype3 23  1   9   7  2
D1V9, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1  17   1   0   4
  subtype2 175  16   1  10
  subtype3  30   3   0   6
D1V10, multiclass
D1V11, continuous
D1V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1       5       10         5         2         0
  subtype2     132       19        47        19         2
  subtype3      24        3        10         4         1
D1V13, multiclass
D1V14, binary
          cls
clus         0   1
  subtype1   9  13
  subtype2 103 110
  subtype3  26  14
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    9   13
  subtype2  103  110
  subtype3   26   14
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL        9      103       26
  UNIFOCAL         13      110       14
D1V15, continuous

Clustering(2) Variable = METHLYATION_CNMF
D2V1, survival
          sevent
clus2        0   1
  subtype1  91   1
  subtype2  39   0
  subtype3 157   0
subtype1 subtype2 subtype3 
      92       39      157 
subtype1 subtype2 subtype3 
       1        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZA TCGA-BJ-A0ZC TCGA-BJ-A0ZE 
       15.75        11.70         7.63         8.68         6.02         7.79 
TCGA-BJ-A0ZF TCGA-BJ-A0ZG TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A191 TCGA-BJ-A192 
        6.90         7.56         2.79         0.43         7.73         8.09 
TCGA-BJ-A28V TCGA-BJ-A3PT TCGA-CE-A3ME TCGA-DE-A2OL TCGA-DJ-A13M TCGA-DJ-A13S 
        5.10        12.07         0.23         5.29         9.01         8.71 
TCGA-DJ-A13W TCGA-DJ-A1QG TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A2PP TCGA-DJ-A2PS 
       14.93         6.97         6.97         0.99         5.00         1.94 
TCGA-DJ-A2Q0 TCGA-DJ-A2Q2 TCGA-DJ-A2QB TCGA-DJ-A3UY TCGA-DJ-A3VG TCGA-DJ-A3VM 
        8.12         6.77        10.85        13.32         8.32        15.81 
TCGA-E3-A3DZ TCGA-E8-A413 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A434 TCGA-EM-A1CW 
       12.00         0.33         0.16         0.72         0.23         8.05 
TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22J 
        7.13         9.34        46.72        39.75        21.37         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-A2CN TCGA-EM-A2CO TCGA-EM-A2CQ TCGA-EM-A2CR 
        6.87        11.74        11.31         6.02         6.54         7.17 
TCGA-EM-A2CT TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OY TCGA-EM-A2P2 TCGA-EM-A3AP 
       10.49        11.61         7.20        11.41         7.36         5.29 
TCGA-EM-A3AR TCGA-EM-A3O8 TCGA-EM-A3OB TCGA-ET-A25I TCGA-ET-A25P TCGA-ET-A2N1 
        6.81         0.49         2.33         0.33         0.49        14.76 
TCGA-ET-A2N3 TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39L TCGA-ET-A39N TCGA-ET-A3DS 
        6.51        38.86         0.30         1.94        65.88         0.30 
TCGA-ET-A3DV TCGA-ET-A40P TCGA-FE-A239 TCGA-FY-A2QD TCGA-FY-A3I4 TCGA-FY-A3I5 
       65.79         3.22        65.92         1.25         1.12         1.64 
TCGA-FY-A3NM TCGA-FY-A3NN TCGA-FY-A3NP TCGA-FY-A3R7 TCGA-FY-A3R9 TCGA-FY-A3W9 
        0.99        66.12         0.59         0.03         2.17         0.76 
TCGA-FY-A3WA TCGA-FY-A40M TCGA-FY-A40N TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-J8-A3O0 
        0.95         4.54         0.89         4.77         4.87        12.89 
TCGA-J8-A3YD TCGA-J8-A3YE 
       31.82        27.81 

$subtype2
TCGA-BJ-A0Z3 TCGA-BJ-A0ZJ TCGA-BJ-A28T TCGA-BJ-A28X TCGA-BJ-A3PR TCGA-CE-A27D 
        5.98         5.00         2.76        17.49         8.02         0.10 
TCGA-DJ-A13O TCGA-DJ-A13R TCGA-DJ-A2PT TCGA-DJ-A2Q1 TCGA-DJ-A2Q3 TCGA-DJ-A2Q5 
        7.07         3.02         9.60         9.34         9.21         9.90 
TCGA-DJ-A2Q9 TCGA-DJ-A3US TCGA-DJ-A3VD TCGA-DO-A2HM TCGA-E8-A242 TCGA-E8-A2EA 
       10.36        20.71        11.51         2.30         1.12         0.36 
TCGA-E8-A2JQ TCGA-E8-A414 TCGA-E8-A419 TCGA-E8-A44M TCGA-EM-A22M TCGA-EM-A22P 
       66.12         0.23        66.15         0.39         3.48         5.72 
TCGA-EM-A2CP TCGA-EM-A2P1 TCGA-EM-A3AJ TCGA-ET-A39M TCGA-ET-A3BV TCGA-ET-A3DO 
        2.96         6.38        13.05        65.88         1.84        65.92 
TCGA-ET-A3DQ TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A40S TCGA-FE-A230 TCGA-FY-A3R6 
       44.91         4.77         4.54         5.00        47.41         0.76 
TCGA-FY-A3TY TCGA-GE-A2C6 TCGA-H2-A26U 
       66.15         6.77         3.48 

$subtype3
TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A0ZH TCGA-BJ-A28R TCGA-BJ-A290 
        6.48         8.25         4.01         0.72         4.87        20.58 
TCGA-CE-A13K TCGA-CE-A3MD TCGA-DE-A0XZ TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A3KN 
        0.53         0.20        13.22         7.59        31.30         9.40 
TCGA-DJ-A13P TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13X TCGA-DJ-A1QD 
       65.72        24.92        12.92        11.90         7.99        10.98 
TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QN TCGA-DJ-A1QO 
       65.85        18.05         7.99         4.96         8.98         1.02 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PR TCGA-DJ-A2PU 
        5.95         9.99         7.96        20.48        10.45        10.26 
TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q4 
        7.96         7.69         5.03         8.78         8.42         9.44 
TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2Q8 TCGA-DJ-A2QA TCGA-DJ-A2QC TCGA-DJ-A3UN 
        8.61         9.57         7.07        12.43         9.99        12.49 
TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V4 TCGA-DJ-A3V6 TCGA-DJ-A3V7 TCGA-DJ-A3V8 
        7.40        17.75        14.56        14.93         9.83         8.52 
TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VJ TCGA-DO-A1JZ 
        7.13        11.93         4.41         7.73        17.36        40.27 
TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
        3.06        31.07        50.76        40.18        46.72        20.88 
TCGA-E3-A3E5 TCGA-E8-A3X7 TCGA-E8-A417 TCGA-E8-A418 TCGA-E8-A432 TCGA-E8-A433 
       14.04         1.48         0.26         1.48         0.53         0.16 
TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A438 TCGA-E8-A44K TCGA-EM-A1CS TCGA-EM-A1CT 
        1.15         7.69         6.90         0.39        19.07         5.03 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A22I TCGA-EM-A22O TCGA-EM-A2CS TCGA-EM-A2CU 
        7.04        66.08         2.66         6.21         9.34         5.79 
TCGA-EM-A2OX TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P3 TCGA-EM-A3AK TCGA-EM-A3AN 
        2.89         9.34         6.28         0.33         9.27        11.21 
TCGA-EM-A3AO TCGA-EM-A3AQ TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25L 
       11.05         8.61        35.77        29.69        19.36        14.79 
TCGA-ET-A25M TCGA-ET-A25N TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY 
       12.33         2.47         4.44        20.42        54.02        19.04 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N4 TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39O 
       12.26        34.49         1.41        11.90        65.95        43.04 
TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BO 
       13.35        46.45         0.66         7.79         1.68         5.82 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BW 
        4.18         2.43         5.52        24.72         1.28         2.37 
TCGA-ET-A3BX TCGA-ET-A3DP TCGA-ET-A3DR TCGA-ET-A3DW TCGA-FE-A22Z TCGA-FE-A231 
        4.50        50.50         2.14        24.69        51.45        12.30 
TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A237 
       44.25        24.69        43.82        65.82        65.88        65.92 
TCGA-FE-A238 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FE-A3PD 
       39.95        62.70        65.82        65.88        61.41        62.89 
TCGA-FK-A3S3 TCGA-FK-A3SE TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FY-A3BL TCGA-FY-A3ON 
       46.06        21.99         0.92        48.10         1.15         1.51 
TCGA-FY-A3R8 TCGA-FY-A3RA TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L TCGA-H2-A3RI 
        4.64         9.14         6.84         4.14         6.54         2.96 
TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 
        2.20         2.89        35.18        30.87         2.63         3.25 
TCGA-J8-A3NZ TCGA-J8-A3O1 TCGA-J8-A3O2 TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH 
        2.24        13.64         1.35        24.69        22.29         5.72 
TCGA-J8-A42S 
        2.47 

subtype1 subtype2 subtype3 
    0.03     0.10     0.16 
subtype1 subtype2 subtype3 
   66.12    66.15    66.08 
subtype1 subtype2 subtype3 
   6.885    6.380    9.340 
[1] "0.0 - 66.1 (6.9)" "0.1 - 66.2 (6.4)" "0.2 - 66.1 (9.3)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [37] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [49] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [67] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [73] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [79] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[103] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[145] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[157] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[169] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[175] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[187] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[193] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[199] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[217] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[223] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[229] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[241] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[253] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[259] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[265] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[271] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [37] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [49] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [67] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [73] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [79] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[103] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[145] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[157] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[169] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[175] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[187] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[193] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[199] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[217] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[223] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[229] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[241] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[253] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[259] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[265] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[271] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
  [7] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
 [25] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [37] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
 [43] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [49] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
 [55] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [67] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [73] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
 [79] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [91] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[103] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[109] "subtype2" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
[115] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
[133] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[145] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[151] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
[157] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[163] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype2"
[169] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[175] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype3"
[181] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
[187] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype1"
[193] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
[199] "subtype2" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[211] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
[217] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[223] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[229] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[235] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[241] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[247] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[253] "subtype1" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[259] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype3"
[265] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
[271] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[277] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[283] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
D2V2, continuous
D2V3, binary
          cls
clus         0   1
  subtype1  70  22
  subtype2  28  11
  subtype3 115  42
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   70   22
  subtype2   28   11
  subtype3  115   42
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       70       28      115
  MALE         22       11       42
          vv
clus       OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1    14                                            22
  subtype2     2                                            26
  subtype3     2                                           120
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                     53
  subtype2                                                                      6
  subtype3                                                                     13
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   3
  subtype2                                                                   5
  subtype3                                                                  22
D2V4, multiclass
D2V5, binary
          cls
clus         0   1
  subtype1   1  91
  subtype2   1  38
  subtype3  12 145
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   91
  subtype2    1   38
  subtype3   12  145
     clus
vv    subtype1 subtype2 subtype3
  NO         1        1       12
  YES       91       38      145
D2V6, binary
          cls
clus         0   1
  subtype1  75   3
  subtype2  32   2
  subtype3 133   6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   75    3
  subtype2   32    2
  subtype3  133    6
     clus
vv    subtype1 subtype2 subtype3
  NO        75       32      133
  YES        3        2        6
          vv
clus       M0 M1 MX
  subtype1 35  2 54
  subtype2 20  0 19
  subtype3 71  2 84
D2V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1            9                       0   78
  subtype2            7                       0   30
  subtype3           48                       5   97
D2V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 65  1   7   5 14
  subtype2 16  2  12   7  2
  subtype3 59 12  44  28 14
D2V9, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1  75   3   0   7
  subtype2  27   4   0   4
  subtype3 124  13   1   9
D2V10, multiclass
D2V11, continuous
D2V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      49       20        18         2         2
  subtype2      24        2         9         4         0
  subtype3      90       12        35        19         1
D2V13, multiclass
D2V14, binary
          cls
clus        0  1
  subtype1 42 48
  subtype2 16 21
  subtype3 82 70
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   42   48
  subtype2   16   21
  subtype3   82   70
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       42       16       82
  UNIFOCAL         48       21       70
D2V15, continuous

Clustering(3) Variable = RPPA_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1 47  0
  subtype2 58  0
  subtype3 57  1
subtype1 subtype2 subtype3 
      47       58       58 
subtype1 subtype2 subtype3 
       0        0        1 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0ZA TCGA-BJ-A0ZC 
       15.75        11.70         7.63         5.98         8.68         6.02 
TCGA-BJ-A0ZE TCGA-BJ-A0ZG TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A192 
        7.79         7.56         5.00         2.79         0.43         8.09 
TCGA-DE-A3KN TCGA-DJ-A13M TCGA-DJ-A13W TCGA-DJ-A13X TCGA-DJ-A1QF TCGA-DJ-A1QM 
        9.40         9.01        14.93         7.99        18.05         0.99 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PV TCGA-DJ-A2PZ TCGA-DJ-A2Q2 TCGA-DJ-A2Q6 
        9.99         7.96         7.96         8.42         6.77         8.61 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QC TCGA-E3-A3DZ TCGA-EM-A1CW 
        9.57        10.36        12.43         9.99        12.00         8.05 
TCGA-EM-A1YD TCGA-EM-A22L TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CQ 
       39.75         4.54        11.44         8.19         6.87         6.54 
TCGA-EM-A2CU TCGA-EM-A2OV TCGA-EM-A3AJ TCGA-EM-A3AN TCGA-EM-A3AP TCGA-ET-A2N5 
        5.79        11.61        13.05        11.21         5.29        38.86 
TCGA-ET-A39I TCGA-ET-A3BP TCGA-ET-A3DP TCGA-FY-A2QD TCGA-J8-A3O0 
        0.30         4.18        50.50         1.25        12.89 

$subtype2
TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A28R TCGA-BJ-A290 TCGA-CE-A3ME 
        6.48         8.25         4.01         4.87        20.58         0.23 
TCGA-DE-A0Y2 TCGA-DJ-A13O TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A1QD TCGA-DJ-A1QE 
        7.59         7.07         3.02         8.71        10.98        65.85 
TCGA-DJ-A1QG TCGA-DJ-A1QO TCGA-DJ-A2PP TCGA-DJ-A2PY TCGA-DJ-A2Q0 TCGA-DJ-A2Q8 
        6.97         1.02         5.00         8.78         8.12         7.07 
TCGA-DJ-A2QB TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E1 TCGA-E3-A3E3 TCGA-E3-A3E5 
       10.85         3.06        31.07        40.18        20.88        14.04 
TCGA-E8-A2EA TCGA-EM-A1CT TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A22I 
        0.36         5.03         7.13         9.34        46.72         2.66 
TCGA-EM-A22J TCGA-EM-A22O TCGA-EM-A2CM TCGA-EM-A2CO TCGA-EM-A2OY TCGA-EM-A2P1 
        6.81         6.21        11.74         6.02        11.41         6.38 
TCGA-ET-A25G TCGA-ET-A25L TCGA-ET-A25M TCGA-ET-A25O TCGA-ET-A2MY TCGA-ET-A2N0 
       35.77        14.79        12.33         4.44        19.04        34.49 
TCGA-ET-A39P TCGA-ET-A39T TCGA-ET-A3BT TCGA-ET-A3DO TCGA-ET-A3DW TCGA-FE-A22Z 
       13.35         7.79        24.72        65.92        24.69        51.45 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A234 TCGA-FE-A236 TCGA-FE-A237 
       47.41        12.30        44.25        43.82        65.88        65.92 
TCGA-FE-A23A TCGA-FY-A3BL TCGA-IM-A3EB TCGA-J8-A3NZ 
       62.70         1.15        35.18         2.24 

$subtype3
TCGA-BJ-A0ZF TCGA-BJ-A191 TCGA-BJ-A28T TCGA-BJ-A28V TCGA-CE-A13K TCGA-CE-A27D 
        6.90         7.73         2.76         5.10         0.53         0.10 
TCGA-CE-A3MD TCGA-DE-A2OL TCGA-DJ-A13V TCGA-DJ-A1QI TCGA-DJ-A1QL TCGA-DJ-A1QN 
        0.20         5.29        11.90         4.96         6.97         8.98 
TCGA-DJ-A2PQ TCGA-DJ-A2PR TCGA-DJ-A2PS TCGA-DJ-A2PU TCGA-DJ-A2PW TCGA-DJ-A2Q1 
       20.48        10.45         1.94        10.26         7.69         9.34 
TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DO-A1JZ TCGA-E3-A3E0 TCGA-E8-A2JQ TCGA-EM-A1CU 
        9.44         9.90        40.27        50.76        66.12         7.04 
TCGA-EM-A1CV TCGA-EM-A1YE TCGA-EM-A22M TCGA-EM-A22Q TCGA-EM-A2CN TCGA-EM-A2CP 
       66.08        21.37         3.48         6.31        11.31         2.96 
TCGA-EM-A2CR TCGA-EM-A2CS TCGA-EM-A3AO TCGA-ET-A2MZ TCGA-ET-A2N1 TCGA-ET-A2N4 
        7.17         9.34        11.05        12.26        14.76         1.41 
TCGA-ET-A39J TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39N TCGA-ET-A39R TCGA-ET-A3BN 
       11.90         1.94        65.88        65.88        46.45         1.68 
TCGA-ET-A3BS TCGA-ET-A3BU TCGA-ET-A3BV TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DS 
        5.52         1.28         1.84         2.37         4.50         0.30 
TCGA-ET-A3DT TCGA-ET-A3DV TCGA-FE-A233 TCGA-FE-A235 TCGA-FE-A239 TCGA-FY-A3ON 
        4.77        65.79        24.69        65.82        65.92         1.51 
TCGA-GE-A2C6 TCGA-H2-A2K9 TCGA-IM-A3ED TCGA-J8-A3O1 
        6.77         4.77        30.87        13.64 

subtype1 subtype2 subtype3 
    0.30     0.23     0.10 
subtype1 subtype2 subtype3 
   50.50    65.92    66.12 
subtype1 subtype2 subtype3 
   8.190   10.095    7.710 
[1] "0.3 - 50.5 (8.2)"  "0.2 - 65.9 (10.1)" "0.1 - 66.1 (7.7)" 
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [19] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [31] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [43] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [49] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [55] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [85] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[103] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[109] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[163] "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [19] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [31] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [43] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [49] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [55] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [85] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[103] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[109] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[163] "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype1" "subtype2" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
 [13] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
 [19] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [25] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [31] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
 [37] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
 [43] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
 [49] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
 [55] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
 [61] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
 [67] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
 [79] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
 [85] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
 [91] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
 [97] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[103] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[109] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[121] "subtype1" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[127] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
[133] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
[139] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[151] "subtype2" "subtype3" "subtype2" "subtype1" "subtype2" "subtype3"
[157] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[163] "subtype3"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1 32 15
  subtype2 40 18
  subtype3 38 20
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   32   15
  subtype2   40   18
  subtype3   38   20
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       32       40       38
  MALE         15       18       20
          vv
clus       OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1     2                                            12
  subtype2     9                                            30
  subtype3     1                                            42
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                     31
  subtype2                                                                      8
  subtype3                                                                     13
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   2
  subtype2                                                                  11
  subtype3                                                                   2
D3V4, multiclass
D3V5, binary
          cls
clus        0  1
  subtype1  0 47
  subtype2  9 49
  subtype3  4 54
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    0   47
  subtype2    9   49
  subtype3    4   54
     clus
vv    subtype1 subtype2 subtype3
  NO         0        9        4
  YES       47       49       54
D3V6, binary
          cls
clus        0  1
  subtype1 42  1
  subtype2 48  3
  subtype3 47  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   42    1
  subtype2   48    3
  subtype3   47    3
     clus
vv    subtype1 subtype2 subtype3
  NO        42       48       47
  YES        1        3        3
          vv
clus       M0 M1 MX
  subtype1 26  1 19
  subtype2 24  0 34
  subtype3 21  1 36
D3V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1            9                       0   38
  subtype2           16                       3   36
  subtype3            8                       0   45
D3V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 29  0   7   4  7
  subtype2 24  6  11  10  7
  subtype3 23  5  15   7  8
D3V9, multiclass
          vv
clus       R0 R1 RX
  subtype1 38  3  5
  subtype2 45  6  2
  subtype3 45  2  3
D3V10, multiclass
D3V11, continuous
D3V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      24        9        11         1         1
  subtype2      22       12        15         9         0
  subtype3      40        6         8         3         1
D3V13, multiclass
D3V14, binary
          cls
clus        0  1
  subtype1 28 16
  subtype2 20 36
  subtype3 28 27
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   28   16
  subtype2   20   36
  subtype3   28   27
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       28       20       28
  UNIFOCAL         16       36       27
D3V15, continuous

Clustering(4) Variable = RPPA_CHIERARCHICAL
D4V1, survival
          sevent
clus2       0  1
  subtype1 25  0
  subtype2 69  0
  subtype3 68  1
subtype1 subtype2 subtype3 
      25       69       69 
subtype1 subtype2 subtype3 
       0        0        1 
$subtype1
TCGA-BJ-A192 TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A1QG TCGA-DJ-A2PP TCGA-DJ-A2Q0 
        8.09         3.02         8.71         6.97         5.00         8.12 
TCGA-DJ-A2QB TCGA-E3-A3DY TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A22I 
       10.85        31.07         7.13         9.34        46.72         2.66 
TCGA-EM-A22J TCGA-EM-A2CM TCGA-EM-A2CO TCGA-EM-A2OV TCGA-EM-A2OY TCGA-ET-A25O 
        6.81        11.74         6.02        11.61        11.41         4.44 
TCGA-ET-A2MY TCGA-ET-A2N0 TCGA-ET-A39T TCGA-ET-A3BT TCGA-FE-A231 TCGA-FE-A237 
       19.04        34.49         7.79        24.72        12.30        65.92 
TCGA-FY-A3BL 
        1.15 

$subtype2
TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A191 TCGA-BJ-A28R TCGA-BJ-A28T 
        6.48         8.25         4.01         7.73         4.87         2.76 
TCGA-BJ-A290 TCGA-CE-A13K TCGA-CE-A27D TCGA-CE-A3MD TCGA-CE-A3ME TCGA-DE-A0Y2 
       20.58         0.53         0.10         0.20         0.23         7.59 
TCGA-DJ-A13V TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QI TCGA-DJ-A1QN 
       11.90        10.98        65.85        18.05         4.96         8.98 
TCGA-DJ-A1QO TCGA-DJ-A2PR TCGA-DJ-A2PU TCGA-DJ-A2PW TCGA-DJ-A2PY TCGA-DJ-A2Q1 
        1.02        10.45        10.26         7.69         8.78         9.34 
TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q8 TCGA-DO-A1JZ TCGA-DO-A1K0 TCGA-E3-A3E0 
        9.44         9.90         7.07        40.27         3.06        50.76 
TCGA-E3-A3E1 TCGA-E3-A3E3 TCGA-E3-A3E5 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-EM-A1CU 
       40.18        20.88        14.04         0.36        66.12         7.04 
TCGA-EM-A1CV TCGA-EM-A22M TCGA-EM-A22O TCGA-EM-A2CS TCGA-EM-A2P1 TCGA-EM-A3AO 
       66.08         3.48         6.21         9.34         6.38        11.05 
TCGA-ET-A25G TCGA-ET-A25L TCGA-ET-A2N4 TCGA-ET-A39J TCGA-ET-A39M TCGA-ET-A39R 
       35.77        14.79         1.41        11.90        65.88        46.45 
TCGA-ET-A3BN TCGA-ET-A3BS TCGA-ET-A3BU TCGA-ET-A3BV TCGA-ET-A3BW TCGA-ET-A3BX 
        1.68         5.52         1.28         1.84         2.37         4.50 
TCGA-ET-A3DO TCGA-ET-A3DT TCGA-ET-A3DW TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A233 
       65.92         4.77        24.69        51.45        47.41        24.69 
TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A23A TCGA-FY-A3ON TCGA-GE-A2C6 TCGA-IM-A3EB 
       43.82        65.82        62.70         1.51         6.77        35.18 
TCGA-IM-A3ED TCGA-J8-A3NZ TCGA-J8-A3O1 
       30.87         2.24        13.64 

$subtype3
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0Z3 TCGA-BJ-A0ZA TCGA-BJ-A0ZC 
       15.75        11.70         7.63         5.98         8.68         6.02 
TCGA-BJ-A0ZE TCGA-BJ-A0ZF TCGA-BJ-A0ZG TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A190 
        7.79         6.90         7.56         5.00         2.79         0.43 
TCGA-BJ-A28V TCGA-DE-A2OL TCGA-DE-A3KN TCGA-DJ-A13M TCGA-DJ-A13O TCGA-DJ-A13W 
        5.10         5.29         9.40         9.01         7.07        14.93 
TCGA-DJ-A13X TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PQ 
        7.99         6.97         0.99         9.99         7.96        20.48 
TCGA-DJ-A2PS TCGA-DJ-A2PV TCGA-DJ-A2PZ TCGA-DJ-A2Q2 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 
        1.94         7.96         8.42         6.77         8.61         9.57 
TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QC TCGA-E3-A3DZ TCGA-EM-A1CT TCGA-EM-A1CW 
       10.36        12.43         9.99        12.00         5.03         8.05 
TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22L TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK 
       39.75        21.37         4.54         6.31        11.44         8.19 
TCGA-EM-A2CL TCGA-EM-A2CN TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CU 
        6.87        11.31         2.96         6.54         7.17         5.79 
TCGA-EM-A3AJ TCGA-EM-A3AN TCGA-EM-A3AP TCGA-ET-A25M TCGA-ET-A2MZ TCGA-ET-A2N1 
       13.05        11.21         5.29        12.33        12.26        14.76 
TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39L TCGA-ET-A39N TCGA-ET-A39P TCGA-ET-A3BP 
       38.86         0.30         1.94        65.88        13.35         4.18 
TCGA-ET-A3DP TCGA-ET-A3DS TCGA-ET-A3DV TCGA-FE-A232 TCGA-FE-A236 TCGA-FE-A239 
       50.50         0.30        65.79        44.25        65.88        65.92 
TCGA-FY-A2QD TCGA-H2-A2K9 TCGA-J8-A3O0 
        1.25         4.77        12.89 

subtype1 subtype2 subtype3 
    1.15     0.10     0.30 
subtype1 subtype2 subtype3 
   65.92    66.12    65.92 
subtype1 subtype2 subtype3 
    8.71     9.34     8.05 
[1] "1.1 - 65.9 (8.7)" "0.1 - 66.1 (9.3)" "0.3 - 65.9 (8.1)"
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [31] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [67] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [85] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [91] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[115] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[151] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[163] "subtype2"
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [31] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [67] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [85] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [91] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[115] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[151] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[163] "subtype2"
  [1] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
  [7] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [13] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
 [19] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [31] "subtype1" "subtype1" "subtype2" "subtype3" "subtype3" "subtype2"
 [37] "subtype2" "subtype2" "subtype1" "subtype2" "subtype3" "subtype3"
 [43] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
 [67] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [73] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [79] "subtype2" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
 [85] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype2"
 [91] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [97] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
[103] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[109] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[115] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[121] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[133] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[139] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[151] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype2"
[157] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
[163] "subtype2"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 19  6
  subtype2 48 21
  subtype3 43 26
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   19    6
  subtype2   48   21
  subtype3   43   26
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       19       48       43
  MALE          6       21       26
          vv
clus       OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1    10                                             7
  subtype2     2                                            53
  subtype3     0                                            24
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                      7
  subtype2                                                                      4
  subtype3                                                                     41
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   1
  subtype2                                                                  10
  subtype3                                                                   4
D4V4, multiclass
D4V5, binary
          cls
clus        0  1
  subtype1  2 23
  subtype2  8 61
  subtype3  3 66
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   23
  subtype2    8   61
  subtype3    3   66
     clus
vv    subtype1 subtype2 subtype3
  NO         2        8        3
  YES       23       61       66
D4V6, binary
          cls
clus        0  1
  subtype1 21  3
  subtype2 54  3
  subtype3 62  1
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   21    3
  subtype2   54    3
  subtype3   62    1
     clus
vv    subtype1 subtype2 subtype3
  NO        21       54       62
  YES        3        3        1
          vv
clus       M0 M1 MX
  subtype1  9  0 16
  subtype2 33  0 36
  subtype3 29  2 37
D4V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1            5                       0   20
  subtype2           17                       3   43
  subtype3           11                       0   56
D4V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 12  1   3   3  6
  subtype2 22  8  20  12  7
  subtype3 42  2  10   6  9
D4V9, multiclass
          vv
clus       R0 R1 RX
  subtype1 22  1  2
  subtype2 50  6  3
  subtype3 56  4  5
D4V10, multiclass
D4V11, continuous
D4V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1       7        8         7         3         0
  subtype2      41        8        12         8         0
  subtype3      38       11        15         2         2
D4V13, multiclass
D4V14, binary
          cls
clus        0  1
  subtype1 10 14
  subtype2 33 32
  subtype3 33 33
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   10   14
  subtype2   33   32
  subtype3   33   33
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       10       33       33
  UNIFOCAL         14       32       33
D4V15, continuous

Clustering(5) Variable = MRNASEQ_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 87  1
  subtype2 30  0
  subtype3 65  0
  subtype4 88  0
subtype1 subtype2 subtype3 subtype4 
      88       30       65       88 
subtype1 subtype2 subtype3 subtype4 
       1        0        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZA TCGA-BJ-A0ZC TCGA-BJ-A0ZE 
       15.75        11.70         7.63         8.68         6.02         7.79 
TCGA-BJ-A0ZF TCGA-BJ-A0ZG TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A192 TCGA-BJ-A28V 
        6.90         7.56         2.79         0.43         8.09         5.10 
TCGA-BJ-A3PT TCGA-DE-A2OL TCGA-DJ-A13M TCGA-DJ-A13R TCGA-DJ-A13W TCGA-DJ-A1QG 
       12.07         5.29         9.01         3.02        14.93         6.97 
TCGA-DJ-A1QL TCGA-DJ-A1QM TCGA-DJ-A2PP TCGA-DJ-A2Q0 TCGA-DJ-A2Q2 TCGA-DJ-A2QA 
        6.97         0.99         5.00         8.12         6.77        12.43 
TCGA-DJ-A2QB TCGA-DJ-A3US TCGA-DJ-A3V4 TCGA-DJ-A3VG TCGA-DJ-A3VM TCGA-E3-A3DZ 
       10.85        20.71        14.56         8.32        15.81        12.00 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A434 TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB 
        0.16         0.72         0.23         8.05         7.13         9.34 
TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L 
       46.72        39.75        21.37         6.81         6.64         4.54 
TCGA-EM-A22N TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CM TCGA-EM-A2CN TCGA-EM-A2CO 
        6.87         8.19         6.87        11.74        11.31         6.02 
TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CT TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OY 
        2.96         6.54        10.49        11.61         7.20        11.41 
TCGA-EM-A2P2 TCGA-EM-A3AJ TCGA-EM-A3AP TCGA-EM-A3AR TCGA-EM-A3O8 TCGA-EM-A3OB 
        7.36        13.05         5.29         6.81         0.49         2.33 
TCGA-ET-A25I TCGA-ET-A25P TCGA-ET-A2N3 TCGA-ET-A2N5 TCGA-ET-A39I TCGA-ET-A39L 
        0.33         0.49         6.51        38.86         0.30         1.94 
TCGA-ET-A39N TCGA-ET-A39S TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DS TCGA-ET-A3DV 
       65.88         0.66        44.91         2.14         0.30        65.79 
TCGA-ET-A40P TCGA-FE-A239 TCGA-FY-A2QD TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
        3.22        65.92         1.25         1.64         0.99         0.59 
TCGA-FY-A3R7 TCGA-FY-A3R9 TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-FY-A40M TCGA-FY-A40N 
        0.03         2.17         0.76         0.95         4.54         0.89 
TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-J8-A3O0 TCGA-J8-A3YD 
        4.77         4.87        12.89        31.82 

$subtype2
TCGA-BJ-A0Z3 TCGA-BJ-A0ZJ TCGA-BJ-A28T TCGA-BJ-A28X TCGA-BJ-A3PR TCGA-CE-A27D 
        5.98         5.00         2.76        17.49         8.02         0.10 
TCGA-DJ-A13O TCGA-DJ-A2PX TCGA-DJ-A2Q1 TCGA-DJ-A2Q3 TCGA-DJ-A2Q9 TCGA-DJ-A3VD 
        7.07         5.03         9.34         9.21        10.36        11.51 
TCGA-DO-A2HM TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A417 
        2.30         0.36        66.12         0.33         0.23         0.26 
TCGA-E8-A44M TCGA-EM-A22P TCGA-EM-A2P1 TCGA-ET-A39R TCGA-ET-A3BO TCGA-ET-A40S 
        0.39         5.72         6.38        46.45         5.82         5.00 
TCGA-FE-A3PB TCGA-FY-A3R6 TCGA-FY-A3TY TCGA-GE-A2C6 TCGA-H2-A26U TCGA-J8-A3O2 
       65.88         0.76        66.15         6.77         3.48         1.35 

$subtype3
TCGA-BJ-A0Z5 TCGA-BJ-A290 TCGA-CE-A13K TCGA-CE-A3MD TCGA-DE-A0XZ TCGA-DE-A3KN 
        6.48        20.58         0.53         0.20        13.22         9.40 
TCGA-DJ-A13P TCGA-DJ-A13T TCGA-DJ-A13V TCGA-DJ-A13X TCGA-DJ-A1QF TCGA-DJ-A1QI 
       65.72        24.92        11.90         7.99        18.05         4.96 
TCGA-DJ-A1QN TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PR TCGA-DJ-A2PS TCGA-DJ-A2PU 
        8.98         7.96        20.48        10.45         1.94        10.26 
TCGA-DJ-A2PV TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q7 TCGA-DJ-A2QC TCGA-DJ-A3UN 
        7.96         9.90         8.61         9.57         9.99        12.49 
TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V9 TCGA-DJ-A3VA TCGA-DJ-A3VE TCGA-DO-A1JZ 
        7.40        17.75         7.13        11.93         4.41        40.27 
TCGA-E3-A3DY TCGA-E3-A3E0 TCGA-E3-A3E2 TCGA-E3-A3E5 TCGA-E8-A432 TCGA-E8-A438 
       31.07        50.76        46.72        14.04         0.53         6.90 
TCGA-EM-A1CS TCGA-EM-A1CV TCGA-EM-A2CS TCGA-EM-A2OX TCGA-EM-A3AK TCGA-EM-A3AN 
       19.07        66.08         9.34         2.89         9.27        11.21 
TCGA-EM-A3AO TCGA-EM-A3AQ TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A2MZ TCGA-ET-A2N4 
       11.05         8.61        19.36         4.44        12.26         1.41 
TCGA-ET-A39J TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BW TCGA-ET-A3DP 
       11.90         4.18         2.43         5.52         2.37        50.50 
TCGA-FE-A3PA TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SG TCGA-FK-A3SH 
       65.82        61.41        62.89        46.06         0.92        48.10 
TCGA-FY-A3NN TCGA-FY-A40K TCGA-H2-A3RI TCGA-J8-A3YH TCGA-J8-A42S 
       66.12         4.14         2.96         5.72         2.47 

$subtype4
TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A0ZH TCGA-BJ-A28R TCGA-CE-A3ME TCGA-DE-A0Y2 
        8.25         4.01         0.72         4.87         0.23         7.59 
TCGA-DE-A0Y3 TCGA-DJ-A13U TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QH TCGA-DJ-A1QO 
       31.30        12.92        10.98        65.85         7.99         1.02 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PT TCGA-DJ-A2PW TCGA-DJ-A2PY TCGA-DJ-A2PZ 
        5.95         9.99         9.60         7.69         8.78         8.42 
TCGA-DJ-A2Q4 TCGA-DJ-A3UY TCGA-DJ-A3V6 TCGA-DJ-A3V7 TCGA-DJ-A3V8 TCGA-DJ-A3VF 
        9.44        13.32        14.93         9.83         8.52         7.73 
TCGA-DJ-A3VJ TCGA-DO-A1K0 TCGA-E3-A3E1 TCGA-E3-A3E3 TCGA-E8-A242 TCGA-E8-A3X7 
       17.36         3.06        40.18        20.88         1.12         1.48 
TCGA-E8-A418 TCGA-E8-A419 TCGA-E8-A433 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A44K 
        1.48        66.15         0.16         1.15         7.69         0.39 
TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A22I TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P3 
        5.03         7.04         2.66         9.34         6.28         0.33 
TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A25L TCGA-ET-A25M TCGA-ET-A25N TCGA-ET-A25R 
       35.77        29.69        14.79        12.33         2.47        20.42 
TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2N0 TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39T 
       54.02        19.04        34.49        43.04        13.35         7.79 
TCGA-ET-A3BN TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DW 
        1.68        24.72         1.28         4.50        65.92        24.69 
TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A236 
       51.45        47.41        12.30        24.69        43.82        65.88 
TCGA-FE-A237 TCGA-FE-A238 TCGA-FE-A23A TCGA-FK-A3SE TCGA-FY-A3BL TCGA-FY-A3I4 
       65.92        39.95        62.70        21.99         1.15         1.12 
TCGA-FY-A3ON TCGA-FY-A3R8 TCGA-FY-A3RA TCGA-FY-A3YR TCGA-FY-A40L TCGA-H2-A421 
        1.51         4.64         9.14         6.84         6.54         2.20 
TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-J8-A3NZ 
        2.89        35.18        30.87         2.63         3.25         2.24 
TCGA-J8-A3O1 TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG 
       13.64        27.81        24.69        22.29 

subtype1 subtype2 subtype3 subtype4 
    0.03     0.10     0.20     0.16 
subtype1 subtype2 subtype3 subtype4 
   65.92    66.15    66.12    66.15 
subtype1 subtype2 subtype3 subtype4 
    6.87     5.77     9.90     9.24 
[1] "0.0 - 65.9 (6.9)" "0.1 - 66.2 (5.8)" "0.2 - 66.1 (9.9)" "0.2 - 66.2 (9.2)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype4"
  [7] "subtype1" "subtype4" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype4" "subtype2" "subtype1" "subtype1" "subtype1" "subtype4"
 [19] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype2" "subtype3" "subtype4" "subtype3" "subtype4"
 [31] "subtype4" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [37] "subtype1" "subtype3" "subtype4" "subtype3" "subtype1" "subtype3"
 [43] "subtype4" "subtype4" "subtype3" "subtype1" "subtype4" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
 [55] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype4"
 [61] "subtype3" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
 [67] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
 [73] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype4" "subtype3" "subtype3" "subtype1"
 [85] "subtype4" "subtype4" "subtype4" "subtype3" "subtype3" "subtype2"
 [91] "subtype3" "subtype4" "subtype1" "subtype4" "subtype1" "subtype3"
 [97] "subtype4" "subtype2" "subtype3" "subtype1" "subtype3" "subtype4"
[103] "subtype3" "subtype4" "subtype3" "subtype4" "subtype2" "subtype2"
[109] "subtype4" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[115] "subtype4" "subtype4" "subtype3" "subtype4" "subtype1" "subtype4"
[121] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
[127] "subtype4" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[133] "subtype1" "subtype1" "subtype4" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
[157] "subtype1" "subtype4" "subtype1" "subtype3" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype4"
[169] "subtype1" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
[175] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype3"
[181] "subtype4" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[187] "subtype1" "subtype1" "subtype4" "subtype4" "subtype2" "subtype1"
[193] "subtype4" "subtype4" "subtype2" "subtype3" "subtype3" "subtype3"
[199] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[211] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
[217] "subtype4" "subtype4" "subtype4" "subtype1" "subtype4" "subtype3"
[223] "subtype2" "subtype3" "subtype3" "subtype3" "subtype4" "subtype3"
[229] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype1"
[235] "subtype3" "subtype1" "subtype4" "subtype2" "subtype1" "subtype4"
[241] "subtype1" "subtype4" "subtype2" "subtype1" "subtype1" "subtype4"
[247] "subtype3" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
[259] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
[265] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype3"
[271] "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype4"
  [7] "subtype1" "subtype4" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype4" "subtype2" "subtype1" "subtype1" "subtype1" "subtype4"
 [19] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype2" "subtype3" "subtype4" "subtype3" "subtype4"
 [31] "subtype4" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [37] "subtype1" "subtype3" "subtype4" "subtype3" "subtype1" "subtype3"
 [43] "subtype4" "subtype4" "subtype3" "subtype1" "subtype4" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
 [55] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype4"
 [61] "subtype3" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
 [67] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
 [73] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype4" "subtype3" "subtype3" "subtype1"
 [85] "subtype4" "subtype4" "subtype4" "subtype3" "subtype3" "subtype2"
 [91] "subtype3" "subtype4" "subtype1" "subtype4" "subtype1" "subtype3"
 [97] "subtype4" "subtype2" "subtype3" "subtype1" "subtype3" "subtype4"
[103] "subtype3" "subtype4" "subtype3" "subtype4" "subtype2" "subtype2"
[109] "subtype4" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[115] "subtype4" "subtype4" "subtype3" "subtype4" "subtype1" "subtype4"
[121] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
[127] "subtype4" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[133] "subtype1" "subtype1" "subtype4" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
[157] "subtype1" "subtype4" "subtype1" "subtype3" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype4"
[169] "subtype1" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
[175] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype3"
[181] "subtype4" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[187] "subtype1" "subtype1" "subtype4" "subtype4" "subtype2" "subtype1"
[193] "subtype4" "subtype4" "subtype2" "subtype3" "subtype3" "subtype3"
[199] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[211] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
[217] "subtype4" "subtype4" "subtype4" "subtype1" "subtype4" "subtype3"
[223] "subtype2" "subtype3" "subtype3" "subtype3" "subtype4" "subtype3"
[229] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype1"
[235] "subtype3" "subtype1" "subtype4" "subtype2" "subtype1" "subtype4"
[241] "subtype1" "subtype4" "subtype2" "subtype1" "subtype1" "subtype4"
[247] "subtype3" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
[259] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
[265] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype3"
[271] "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype4"
  [7] "subtype1" "subtype4" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype4" "subtype2" "subtype1" "subtype1" "subtype1" "subtype4"
 [19] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype2" "subtype3" "subtype4" "subtype3" "subtype4"
 [31] "subtype4" "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
 [37] "subtype1" "subtype3" "subtype4" "subtype3" "subtype1" "subtype3"
 [43] "subtype4" "subtype4" "subtype3" "subtype1" "subtype4" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
 [55] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype4"
 [61] "subtype3" "subtype3" "subtype4" "subtype2" "subtype4" "subtype4"
 [67] "subtype1" "subtype2" "subtype1" "subtype2" "subtype4" "subtype3"
 [73] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype4" "subtype3" "subtype3" "subtype1"
 [85] "subtype4" "subtype4" "subtype4" "subtype3" "subtype3" "subtype2"
 [91] "subtype3" "subtype4" "subtype1" "subtype4" "subtype1" "subtype3"
 [97] "subtype4" "subtype2" "subtype3" "subtype1" "subtype3" "subtype4"
[103] "subtype3" "subtype4" "subtype3" "subtype4" "subtype2" "subtype2"
[109] "subtype4" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[115] "subtype4" "subtype4" "subtype3" "subtype4" "subtype1" "subtype4"
[121] "subtype4" "subtype3" "subtype4" "subtype2" "subtype3" "subtype4"
[127] "subtype4" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[133] "subtype1" "subtype1" "subtype4" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype3" "subtype1" "subtype4" "subtype4" "subtype2"
[157] "subtype1" "subtype4" "subtype1" "subtype3" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype4"
[169] "subtype1" "subtype4" "subtype3" "subtype4" "subtype4" "subtype4"
[175] "subtype3" "subtype1" "subtype4" "subtype4" "subtype4" "subtype3"
[181] "subtype4" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[187] "subtype1" "subtype1" "subtype4" "subtype4" "subtype2" "subtype1"
[193] "subtype4" "subtype4" "subtype2" "subtype3" "subtype3" "subtype3"
[199] "subtype4" "subtype4" "subtype3" "subtype4" "subtype4" "subtype3"
[205] "subtype1" "subtype1" "subtype1" "subtype1" "subtype4" "subtype1"
[211] "subtype2" "subtype4" "subtype4" "subtype4" "subtype4" "subtype4"
[217] "subtype4" "subtype4" "subtype4" "subtype1" "subtype4" "subtype3"
[223] "subtype2" "subtype3" "subtype3" "subtype3" "subtype4" "subtype3"
[229] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype1"
[235] "subtype3" "subtype1" "subtype4" "subtype2" "subtype1" "subtype4"
[241] "subtype1" "subtype4" "subtype2" "subtype1" "subtype1" "subtype4"
[247] "subtype3" "subtype4" "subtype1" "subtype1" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype3" "subtype4" "subtype4" "subtype4"
[259] "subtype4" "subtype4" "subtype4" "subtype4" "subtype1" "subtype4"
[265] "subtype2" "subtype1" "subtype4" "subtype4" "subtype4" "subtype3"
[271] "subtype3"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 65 23
  subtype2 23  7
  subtype3 48 17
  subtype4 64 24
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   65   23
  subtype2   23    7
  subtype3   48   17
  subtype4   64   24
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       65       23       48       64
  MALE         23        7       17       24
          vv
clus       OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1    14                                            19
  subtype2     1                                            21
  subtype3     1                                            54
  subtype4     1                                            65
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                     53
  subtype2                                                                      3
  subtype3                                                                      8
  subtype4                                                                      3
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   2
  subtype2                                                                   5
  subtype3                                                                   2
  subtype4                                                                  19
D5V4, multiclass
D5V5, binary
          cls
clus        0  1
  subtype1  1 87
  subtype2  0 30
  subtype3  1 64
  subtype4 10 78
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   87
  subtype2    0   30
  subtype3    1   64
  subtype4   10   78
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         1        0        1       10
  YES       87       30       64       78
D5V6, binary
          cls
clus        0  1
  subtype1 75  3
  subtype2 23  1
  subtype3 53  3
  subtype4 74  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   75    3
  subtype2   23    1
  subtype3   53    3
  subtype4   74    3
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        75       23       53       74
  YES        3        1        3        3
          vv
clus       M0 M1 MX
  subtype1 31  2 54
  subtype2 19  0 11
  subtype3 33  1 31
  subtype4 40  1 47
D5V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1            9                       0   75
  subtype2            8                       0   20
  subtype3           14                       0   49
  subtype4           31                       4   47
D5V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 63  0   7   5 13
  subtype2 12  1  10   7  0
  subtype3 27  3  19  12  4
  subtype4 32 10  20  16 10
D5V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 71  4  0  7
  subtype2 20  2  0  4
  subtype3 53  3  1  3
  subtype4 68  8  0  6
D5V10, multiclass
D5V11, continuous
D5V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      46       18        19         2         2
  subtype2      20        2         5         3         0
  subtype3      40        8        10         7         0
  subtype4      46        5        24        12         1
D5V13, multiclass
D5V14, binary
          cls
clus        0  1
  subtype1 44 42
  subtype2 13 15
  subtype3 41 21
  subtype4 35 51
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   44   42
  subtype2   13   15
  subtype3   41   21
  subtype4   35   51
            clus
vv           subtype1 subtype2 subtype3 subtype4
  MULTIFOCAL       44       13       41       35
  UNIFOCAL         42       15       21       51
D5V15, continuous

Clustering(6) Variable = MRNASEQ_CHIERARCHICAL
D6V1, survival
          sevent
clus2        0   1
  subtype1  96   1
  subtype2 123   0
  subtype3  51   0
subtype1 subtype2 subtype3 
      97      123       51 
subtype1 subtype2 subtype3 
       1        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZA TCGA-BJ-A0ZC TCGA-BJ-A0ZE 
       15.75        11.70         7.63         8.68         6.02         7.79 
TCGA-BJ-A0ZF TCGA-BJ-A0ZG TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A192 
        6.90         7.56         5.00         2.79         0.43         8.09 
TCGA-BJ-A28T TCGA-BJ-A28V TCGA-BJ-A3PT TCGA-CE-A27D TCGA-DE-A2OL TCGA-DJ-A13M 
        2.76         5.10        12.07         0.10         5.29         9.01 
TCGA-DJ-A13O TCGA-DJ-A13R TCGA-DJ-A13W TCGA-DJ-A1QG TCGA-DJ-A1QL TCGA-DJ-A1QM 
        7.07         3.02        14.93         6.97         6.97         0.99 
TCGA-DJ-A2PP TCGA-DJ-A2PS TCGA-DJ-A2Q0 TCGA-DJ-A2Q2 TCGA-DJ-A2QB TCGA-DJ-A3US 
        5.00         1.94         8.12         6.77        10.85        20.71 
TCGA-DJ-A3UY TCGA-DJ-A3V4 TCGA-DJ-A3VG TCGA-DJ-A3VM TCGA-E3-A3DZ TCGA-E8-A413 
       13.32        14.56         8.32        15.81        12.00         0.33 
TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A434 TCGA-E8-A436 TCGA-EM-A1CW 
        0.23         0.16         0.72         0.23         1.15         8.05 
TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YD TCGA-EM-A1YE TCGA-EM-A22J 
        7.13         9.34        46.72        39.75        21.37         6.81 
TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22N TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CM 
        6.64         4.54         6.87         8.19         6.87        11.74 
TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CT TCGA-EM-A2OV 
       11.31         6.02         2.96         6.54        10.49        11.61 
TCGA-EM-A2OW TCGA-EM-A2OY TCGA-EM-A2P2 TCGA-EM-A3AJ TCGA-EM-A3AP TCGA-EM-A3AR 
        7.20        11.41         7.36        13.05         5.29         6.81 
TCGA-EM-A3O8 TCGA-EM-A3OB TCGA-ET-A25I TCGA-ET-A25P TCGA-ET-A2N3 TCGA-ET-A2N5 
        0.49         2.33         0.33         0.49         6.51        38.86 
TCGA-ET-A39I TCGA-ET-A39L TCGA-ET-A39N TCGA-ET-A39S TCGA-ET-A3DQ TCGA-ET-A3DS 
        0.30         1.94        65.88         0.66        44.91         0.30 
TCGA-ET-A3DV TCGA-ET-A40P TCGA-FE-A239 TCGA-FY-A2QD TCGA-FY-A3I5 TCGA-FY-A3NM 
       65.79         3.22        65.92         1.25         1.64         0.99 
TCGA-FY-A3NP TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3R9 TCGA-FY-A3TY TCGA-FY-A3W9 
        0.59         0.76         0.03         2.17        66.15         0.76 
TCGA-FY-A3WA TCGA-FY-A40N TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-J8-A3O0 TCGA-J8-A3O2 
        0.95         0.89         4.77         4.87        12.89         1.35 
TCGA-J8-A3YD 
       31.82 

$subtype2
TCGA-BJ-A0Z3 TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A0ZH TCGA-BJ-A28R 
        5.98         6.48         8.25         4.01         0.72         4.87 
TCGA-BJ-A28X TCGA-BJ-A3PR TCGA-CE-A3ME TCGA-DE-A0XZ TCGA-DE-A0Y2 TCGA-DE-A0Y3 
       17.49         8.02         0.23        13.22         7.59        31.30 
TCGA-DJ-A13U TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QH TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       12.92        10.98        65.85         7.99         1.02         5.95 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PR TCGA-DJ-A2PT TCGA-DJ-A2PW TCGA-DJ-A2PX 
        9.99         7.96        10.45         9.60         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-A2Q6 TCGA-DJ-A2Q9 TCGA-DJ-A3V2 TCGA-DJ-A3V3 TCGA-DJ-A3V6 TCGA-DJ-A3V7 
        8.61        10.36         7.40        17.75        14.93         9.83 
TCGA-DJ-A3V8 TCGA-DJ-A3VA TCGA-DJ-A3VD TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VJ 
        8.52        11.93        11.51         4.41         7.73        17.36 
TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
        3.06         2.30        31.07        40.18        46.72        20.88 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A417 TCGA-E8-A418 
        1.12         0.36        66.12         1.48         0.26         1.48 
TCGA-E8-A419 TCGA-E8-A433 TCGA-E8-A44K TCGA-E8-A44M TCGA-EM-A1CT TCGA-EM-A1CU 
       66.15         0.16         0.39         0.39         5.03         7.04 
TCGA-EM-A22I TCGA-EM-A22P TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P3 
        2.66         5.72         9.34         6.28         6.38         0.33 
TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A25L TCGA-ET-A25M TCGA-ET-A25N TCGA-ET-A25R 
       35.77        29.69        14.79        12.33         2.47        20.42 
TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39R TCGA-ET-A39T 
       54.02        19.04        43.04        13.35        46.45         7.79 
TCGA-ET-A3BN TCGA-ET-A3BO TCGA-ET-A3BS TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BX 
        1.68         5.82         5.52        24.72         1.28         4.50 
TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DR TCGA-ET-A3DW TCGA-ET-A40S TCGA-FE-A22Z 
       65.92        50.50         2.14        24.69         5.00        51.45 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A236 TCGA-FE-A237 
       47.41        12.30        24.69        43.82        65.88        65.92 
TCGA-FE-A238 TCGA-FE-A23A TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FK-A3SE TCGA-FY-A3BL 
       39.95        62.70        65.88        61.41        21.99         1.15 
TCGA-FY-A3I4 TCGA-FY-A3NN TCGA-FY-A3ON TCGA-FY-A3R8 TCGA-FY-A3RA TCGA-FY-A3YR 
        1.12        66.12         1.51         4.64         9.14         6.84 
TCGA-FY-A40L TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A3RI TCGA-H2-A421 TCGA-H2-A422 
        6.54         6.77         3.48         2.96         2.20         2.89 
TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-J8-A3NZ TCGA-J8-A3O1 
       35.18        30.87         2.63         3.25         2.24        13.64 
TCGA-J8-A3YE TCGA-J8-A3YF TCGA-J8-A3YG 
       27.81        24.69        22.29 

$subtype3
TCGA-BJ-A290 TCGA-CE-A13K TCGA-CE-A3MD TCGA-DE-A3KN TCGA-DJ-A13P TCGA-DJ-A13T 
       20.58         0.53         0.20         9.40        65.72        24.92 
TCGA-DJ-A13V TCGA-DJ-A13X TCGA-DJ-A1QF TCGA-DJ-A1QI TCGA-DJ-A1QN TCGA-DJ-A2PQ 
       11.90         7.99        18.05         4.96         8.98        20.48 
TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2Q7 TCGA-DJ-A2QA TCGA-DJ-A2QC TCGA-DJ-A3UN 
       10.26         7.96         9.57        12.43         9.99        12.49 
TCGA-DJ-A3V9 TCGA-DO-A1JZ TCGA-E3-A3E0 TCGA-E3-A3E5 TCGA-E8-A432 TCGA-E8-A437 
        7.13        40.27        50.76        14.04         0.53         7.69 
TCGA-E8-A438 TCGA-EM-A1CS TCGA-EM-A1CV TCGA-EM-A2CS TCGA-EM-A2OX TCGA-EM-A3AK 
        6.90        19.07        66.08         9.34         2.89         9.27 
TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AQ TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A2MZ 
       11.21        11.05         8.61        19.36         4.44        12.26 
TCGA-ET-A2N0 TCGA-ET-A2N4 TCGA-ET-A39J TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BW 
       34.49         1.41        11.90         4.18         2.43         2.37 
TCGA-FE-A3PA TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SG TCGA-FK-A3SH TCGA-FY-A40K 
       65.82        62.89        46.06         0.92        48.10         4.14 
TCGA-FY-A40M TCGA-J8-A3YH TCGA-J8-A42S 
        4.54         5.72         2.47 

subtype1 subtype2 subtype3 
    0.03     0.16     0.20 
subtype1 subtype2 subtype3 
   66.15    66.15    66.08 
subtype1 subtype2 subtype3 
    6.81     8.78     9.57 
[1] "0.0 - 66.2 (6.8)" "0.2 - 66.2 (8.8)" "0.2 - 66.1 (9.6)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [43] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [55] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[121] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[133] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[169] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[175] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[181] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[187] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[193] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[199] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[205] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[229] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[235] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[247] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[271] "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [43] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [55] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[121] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[133] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[169] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[175] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[181] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[187] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[193] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[199] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[205] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[229] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[235] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[247] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[271] "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
 [19] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
 [25] "subtype3" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [31] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [43] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [49] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype2"
 [55] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
 [67] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [73] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [79] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [85] "subtype2" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [97] "subtype2" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[109] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[115] "subtype2" "subtype2" "subtype3" "subtype2" "subtype1" "subtype1"
[121] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
[127] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
[133] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype1"
[151] "subtype1" "subtype3" "subtype1" "subtype2" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[163] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype2"
[169] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[175] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[181] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[187] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype1"
[193] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[199] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[205] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[211] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[217] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[223] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[229] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[235] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1" "subtype2"
[241] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
[247] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[253] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype2"
[259] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[265] "subtype1" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[271] "subtype3"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 71 26
  subtype2 88 35
  subtype3 41 10
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   71   26
  subtype2   88   35
  subtype3   41   10
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       71       88       41
  MALE         26       35       10
          vv
clus       OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1    14                                            26
  subtype2     3                                            90
  subtype3     0                                            43
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                     53
  subtype2                                                                      7
  subtype3                                                                      7
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   4
  subtype2                                                                  23
  subtype3                                                                   1
D6V4, multiclass
D6V5, binary
          cls
clus         0   1
  subtype1   1  96
  subtype2  10 113
  subtype3   1  50
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   96
  subtype2   10  113
  subtype3    1   50
     clus
vv    subtype1 subtype2 subtype3
  NO         1       10        1
  YES       96      113       50
D6V6, binary
          cls
clus         0   1
  subtype1  80   3
  subtype2 101   6
  subtype3  44   1
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   80    3
  subtype2  101    6
  subtype3   44    1
     clus
vv    subtype1 subtype2 subtype3
  NO        80      101       44
  YES        3        6        1
          vv
clus       M0 M1 MX
  subtype1 40  2 54
  subtype2 60  1 62
  subtype3 23  1 27
D6V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1           11                       0   80
  subtype2           41                       4   71
  subtype3           10                       0   40
D6V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 66  1   9   8 13
  subtype2 43 11  37  22 10
  subtype3 25  2  10  10  4
D6V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 78  4  0  7
  subtype2 94 10  0  9
  subtype3 40  3  1  4
D6V10, multiclass
D6V11, continuous
D6V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      52       18        20         4         2
  subtype2      71        8        29        14         1
  subtype3      29        7         9         6         0
D6V13, multiclass
D6V14, binary
          cls
clus        0  1
  subtype1 47 46
  subtype2 53 67
  subtype3 33 16
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   47   46
  subtype2   53   67
  subtype3   33   16
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       47       53       33
  UNIFOCAL         46       67       16
D6V15, continuous

Clustering(7) Variable = MIRSEQ_CNMF
D7V1, survival
          sevent
clus2        0   1
  subtype1  84   1
  subtype2 104   0
  subtype3  93   0
subtype1 subtype2 subtype3 
      85      104       93 
subtype1 subtype2 subtype3 
       1        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZA TCGA-BJ-A0ZC TCGA-BJ-A0ZE 
       15.75        11.70         7.63         8.68         6.02         7.79 
TCGA-BJ-A0ZF TCGA-BJ-A0ZG TCGA-BJ-A0ZJ TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A191 
        6.90         7.56         5.00         2.79         0.43         7.73 
TCGA-BJ-A192 TCGA-BJ-A28V TCGA-DE-A2OL TCGA-DJ-A13M TCGA-DJ-A13R TCGA-DJ-A13S 
        8.09         5.10         5.29         9.01         3.02         8.71 
TCGA-DJ-A13W TCGA-DJ-A1QG TCGA-DJ-A1QL TCGA-DJ-A2PP TCGA-DJ-A2Q0 TCGA-DJ-A2Q2 
       14.93         6.97         6.97         5.00         8.12         6.77 
TCGA-DJ-A2QB TCGA-DJ-A3US TCGA-DJ-A3VG TCGA-DJ-A3VM TCGA-DO-A1JZ TCGA-E3-A3DZ 
       10.85        20.71         8.32        15.81        40.27        12.00 
TCGA-E3-A3E5 TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB TCGA-EM-A1YC TCGA-EM-A1YE 
       14.04         8.05         7.13         9.34        46.72        21.37 
TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22N TCGA-EM-A22Q TCGA-EM-A2CJ 
        6.81         6.64         4.54         6.87         6.31        11.44 
TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CM TCGA-EM-A2CN TCGA-EM-A2CO TCGA-EM-A2CP 
        8.19         6.87        11.74        11.31         6.02         2.96 
TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CT TCGA-EM-A2OV TCGA-EM-A2OW TCGA-EM-A2OY 
        6.54         7.17        10.49        11.61         7.20        11.41 
TCGA-EM-A2P2 TCGA-EM-A3AJ TCGA-EM-A3AP TCGA-EM-A3O8 TCGA-EM-A3OB TCGA-ET-A25I 
        7.36        13.05         5.29         0.49         2.33         0.33 
TCGA-ET-A25P TCGA-ET-A2MX TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N5 TCGA-ET-A39I 
        0.49        54.02        14.76         6.51        38.86         0.30 
TCGA-ET-A39L TCGA-ET-A39N TCGA-ET-A3BW TCGA-ET-A3DS TCGA-ET-A3DV TCGA-ET-A40P 
        1.94        65.88         2.37         0.30        65.79         3.22 
TCGA-FE-A236 TCGA-FE-A239 TCGA-FY-A2QD TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP 
       65.88        65.92         1.25         1.64         0.99         0.59 
TCGA-FY-A3R9 TCGA-FY-A3W9 TCGA-FY-A3WA TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-J8-A3O0 
        2.17         0.76         0.95         4.77         4.87        12.89 
TCGA-J8-A3O1 
       13.64 

$subtype2
TCGA-BJ-A0Z3 TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 TCGA-BJ-A0ZH TCGA-BJ-A28R TCGA-BJ-A290 
        5.98         6.48         8.25         0.72         4.87        20.58 
TCGA-CE-A13K TCGA-CE-A3ME TCGA-DE-A0XZ TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A3KN 
        0.53         0.23        13.22         7.59        31.30         9.40 
TCGA-DJ-A13P TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13X TCGA-DJ-A1QI TCGA-DJ-A1QN 
       65.72        24.92        12.92         7.99         4.96         8.98 
TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PR TCGA-DJ-A2PU TCGA-DJ-A2PW 
        9.99         7.96        20.48        10.45        10.26         7.69 
TCGA-DJ-A2PX TCGA-DJ-A2Q4 TCGA-DJ-A2Q7 TCGA-DJ-A2QC TCGA-DJ-A3UN TCGA-DJ-A3V2 
        5.03         9.44         9.57         9.99        12.49         7.40 
TCGA-DJ-A3V3 TCGA-DJ-A3V7 TCGA-DJ-A3VA TCGA-DJ-A3VE TCGA-DO-A1K0 TCGA-E3-A3DY 
       17.75         9.83        11.93         4.41         3.06        31.07 
TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A417 TCGA-E8-A418 
       50.76        40.18        46.72        20.88         0.26         1.48 
TCGA-E8-A419 TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CV TCGA-EM-A22I TCGA-EM-A22M 
       66.15        19.07         5.03        66.08         2.66         3.48 
TCGA-EM-A22O TCGA-EM-A2CS TCGA-EM-A2OZ TCGA-EM-A3AK TCGA-EM-A3AN TCGA-EM-A3AO 
        6.21         9.34         9.34         9.27        11.21        11.05 
TCGA-EM-A3AQ TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25N TCGA-ET-A25O 
        8.61        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-A39M 
       20.42        19.04        12.26         1.41        65.95        65.88 
TCGA-ET-A39O TCGA-ET-A39R TCGA-ET-A39T TCGA-ET-A3BO TCGA-ET-A3BP TCGA-ET-A3BQ 
       43.04        46.45         7.79         5.82         4.18         2.43 
TCGA-ET-A3BS TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DT TCGA-ET-A3DW TCGA-ET-A40S 
        5.52         4.50        65.92         4.77        24.69         5.00 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 
       47.41        12.30        44.25        24.69        43.82        65.82 
TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PC TCGA-FE-A3PD TCGA-FK-A3SG TCGA-FY-A3BL 
       62.70        65.82        61.41        62.89         0.92         1.15 
TCGA-FY-A3NN TCGA-FY-A3ON TCGA-FY-A3R8 TCGA-FY-A3RA TCGA-FY-A40N TCGA-H2-A3RI 
       66.12         1.51         4.64         9.14         0.89         2.96 
TCGA-H2-A421 TCGA-H2-A422 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U3 TCGA-J8-A3NZ 
        2.20         2.89        35.18        30.87         3.25         2.24 
TCGA-J8-A3YE TCGA-J8-A3YH 
       27.81         5.72 

$subtype3
TCGA-BJ-A0ZB TCGA-BJ-A28T TCGA-BJ-A28X TCGA-BJ-A3PR TCGA-BJ-A3PT TCGA-CE-A27D 
        4.01         2.76        17.49         8.02        12.07         0.10 
TCGA-CE-A3MD TCGA-DJ-A13O TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QH 
        0.20         7.07        10.98        65.85        18.05         7.99 
TCGA-DJ-A1QM TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PV 
        0.99         1.02         5.95         1.94         9.60         7.96 
TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q1 TCGA-DJ-A2Q3 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
        8.78         8.42         9.34         9.21         9.90         8.61 
TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A3UY TCGA-DJ-A3V4 TCGA-DJ-A3V6 
        7.07        10.36        12.43        13.32        14.56        14.93 
TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VD TCGA-DJ-A3VF TCGA-DJ-A3VJ TCGA-DO-A2HM 
        8.52         7.13        11.51         7.73        17.36         2.30 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 TCGA-E8-A413 TCGA-E8-A414 
        1.12         0.36        66.12         1.48         0.33         0.23 
TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A432 TCGA-E8-A433 TCGA-E8-A434 TCGA-EM-A1CU 
        0.16         0.72         0.53         0.16         0.23         7.04 
TCGA-EM-A1YD TCGA-EM-A22P TCGA-EM-A2CU TCGA-EM-A2OX TCGA-EM-A2P0 TCGA-EM-A2P1 
       39.75         5.72         5.79         2.89         6.28         6.38 
TCGA-EM-A2P3 TCGA-EM-A3AR TCGA-ET-A25L TCGA-ET-A25M TCGA-ET-A2N0 TCGA-ET-A39J 
        0.33         6.81        14.79        12.33        34.49        11.90 
TCGA-ET-A39P TCGA-ET-A39S TCGA-ET-A3BN TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BV 
       13.35         0.66         1.68        24.72         1.28         1.84 
TCGA-ET-A3DP TCGA-ET-A3DQ TCGA-ET-A3DR TCGA-ET-A3DU TCGA-FE-A22Z TCGA-FE-A237 
       50.50        44.91         2.14         4.54        51.45        65.92 
TCGA-FE-A238 TCGA-FE-A3PB TCGA-FK-A3S3 TCGA-FK-A3SE TCGA-FK-A3SH TCGA-FY-A3I4 
       39.95        65.88        46.06        21.99        48.10         1.12 
TCGA-FY-A3R6 TCGA-FY-A3R7 TCGA-FY-A3TY TCGA-FY-A3YR TCGA-FY-A40K TCGA-FY-A40L 
        0.76         0.03        66.15         6.84         4.14         6.54 
TCGA-FY-A40M TCGA-GE-A2C6 TCGA-H2-A26U TCGA-IM-A3U2 TCGA-J8-A3O2 TCGA-J8-A3YD 
        4.54         6.77         3.48         2.63         1.35        31.82 
TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A42S 
       24.69        22.29         2.47 

subtype1 subtype2 subtype3 
    0.30     0.23     0.03 
subtype1 subtype2 subtype3 
   65.92    66.15    66.15 
subtype1 subtype2 subtype3 
   7.170    9.505    7.070 
[1] "0.3 - 65.9 (7.2)" "0.2 - 66.2 (9.5)" "0.0 - 66.2 (7.1)"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [37] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [43] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [61] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [73] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [79] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [85] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [97] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[139] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[151] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[157] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[163] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[175] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[193] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[199] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[217] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[223] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[229] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[241] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[247] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[253] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[259] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[265] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[277] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [37] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [43] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [61] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [73] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [79] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [85] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [97] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[139] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[151] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[157] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[163] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[175] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[193] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[199] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[217] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[223] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[229] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[241] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[247] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[253] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[259] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[265] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[277] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
  [1] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
  [7] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
 [25] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype2"
 [31] "subtype2" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [37] "subtype2" "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
 [43] "subtype2" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [49] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype3"
 [55] "subtype2" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
 [61] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype2"
 [73] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [79] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
 [85] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
 [91] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [97] "subtype1" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[109] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
[115] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[139] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[151] "subtype1" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
[157] "subtype2" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[163] "subtype2" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[175] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[181] "subtype1" "subtype2" "subtype2" "subtype3" "subtype1" "subtype1"
[187] "subtype2" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[193] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
[199] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[205] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[217] "subtype1" "subtype2" "subtype1" "subtype2" "subtype3" "subtype2"
[223] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype1"
[229] "subtype3" "subtype3" "subtype1" "subtype2" "subtype2" "subtype3"
[235] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[241] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype2"
[247] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[253] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[259] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype1"
[265] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[271] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
[277] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 59 26
  subtype2 77 27
  subtype3 71 22
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   59   26
  subtype2   77   27
  subtype3   71   22
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       59       77       71
  MALE         26       27       22
          vv
clus       OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1    14                                            16
  subtype2     2                                            81
  subtype3     2                                            65
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                     54
  subtype2                                                                     11
  subtype3                                                                      7
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   1
  subtype2                                                                  10
  subtype3                                                                  19
D7V4, multiclass
D7V5, binary
          cls
clus        0  1
  subtype1  3 82
  subtype2  8 96
  subtype3  3 90
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   82
  subtype2    8   96
  subtype3    3   90
     clus
vv    subtype1 subtype2 subtype3
  NO         3        8        3
  YES       82       96       90
D7V6, binary
          cls
clus        0  1
  subtype1 73  3
  subtype2 82  6
  subtype3 80  2
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   73    3
  subtype2   82    6
  subtype3   80    2
     clus
vv    subtype1 subtype2 subtype3
  NO        73       82       80
  YES        3        6        2
          vv
clus       M0 M1 MX
  subtype1 27  2 55
  subtype2 42  2 60
  subtype3 51  0 42
D7V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1            6                       0   76
  subtype2           25                       1   70
  subtype3           32                       4   54
D7V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 57  1   5   6 16
  subtype2 46  8  30  11  9
  subtype3 34  6  27  22  4
D7V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 68  5  0  8
  subtype2 78  8  1  7
  subtype3 75  7  0  4
D7V10, multiclass
D7V11, continuous
D7V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      46       18        15         3         2
  subtype2      65       11        20         7         1
  subtype3      47        5        27        14         0
D7V13, multiclass
D7V14, binary
          cls
clus        0  1
  subtype1 40 42
  subtype2 50 49
  subtype3 48 44
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   40   42
  subtype2   50   49
  subtype3   48   44
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       40       50       48
  UNIFOCAL         42       49       44
D7V15, continuous

Clustering(8) Variable = MIRSEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1  77   1
  subtype2 107   0
  subtype3  97   0
subtype1 subtype2 subtype3 
      78      107       97 
subtype1 subtype2 subtype3 
       1        0        0 
$subtype1
TCGA-BJ-A0YZ TCGA-BJ-A0Z0 TCGA-BJ-A0Z2 TCGA-BJ-A0ZA TCGA-BJ-A0ZC TCGA-BJ-A0ZE 
       15.75        11.70         7.63         8.68         6.02         7.79 
TCGA-BJ-A0ZF TCGA-BJ-A18Y TCGA-BJ-A190 TCGA-BJ-A191 TCGA-BJ-A192 TCGA-BJ-A28V 
        6.90         2.79         0.43         7.73         8.09         5.10 
TCGA-DE-A2OL TCGA-DJ-A13M TCGA-DJ-A13R TCGA-DJ-A13S TCGA-DJ-A13W TCGA-DJ-A1QG 
        5.29         9.01         3.02         8.71        14.93         6.97 
TCGA-DJ-A1QL TCGA-DJ-A2PP TCGA-DJ-A2Q0 TCGA-DJ-A2Q2 TCGA-DJ-A2QB TCGA-DJ-A3US 
        6.97         5.00         8.12         6.77        10.85        20.71 
TCGA-DJ-A3VG TCGA-DJ-A3VM TCGA-E3-A3DZ TCGA-EM-A1CW TCGA-EM-A1YA TCGA-EM-A1YB 
        8.32        15.81        12.00         8.05         7.13         9.34 
TCGA-EM-A1YC TCGA-EM-A1YE TCGA-EM-A22J TCGA-EM-A22K TCGA-EM-A22L TCGA-EM-A22N 
       46.72        21.37         6.81         6.64         4.54         6.87 
TCGA-EM-A22Q TCGA-EM-A2CJ TCGA-EM-A2CK TCGA-EM-A2CL TCGA-EM-A2CM TCGA-EM-A2CN 
        6.31        11.44         8.19         6.87        11.74        11.31 
TCGA-EM-A2CO TCGA-EM-A2CP TCGA-EM-A2CQ TCGA-EM-A2CR TCGA-EM-A2CT TCGA-EM-A2OV 
        6.02         2.96         6.54         7.17        10.49        11.61 
TCGA-EM-A2OW TCGA-EM-A2OY TCGA-EM-A2P2 TCGA-EM-A3AJ TCGA-EM-A3AP TCGA-EM-A3O8 
        7.20        11.41         7.36        13.05         5.29         0.49 
TCGA-EM-A3OB TCGA-ET-A25I TCGA-ET-A25P TCGA-ET-A2N1 TCGA-ET-A2N3 TCGA-ET-A2N5 
        2.33         0.33         0.49        14.76         6.51        38.86 
TCGA-ET-A39I TCGA-ET-A39N TCGA-ET-A3DS TCGA-ET-A3DV TCGA-ET-A40P TCGA-FE-A239 
        0.30        65.88         0.30        65.79         3.22        65.92 
TCGA-FY-A2QD TCGA-FY-A3I5 TCGA-FY-A3NM TCGA-FY-A3NP TCGA-FY-A3R9 TCGA-FY-A3W9 
        1.25         1.64         0.99         0.59         2.17         0.76 
TCGA-FY-A3WA TCGA-FY-A40M TCGA-H2-A2K9 TCGA-H2-A3RH TCGA-J8-A3O0 TCGA-J8-A3O1 
        0.95         4.54         4.77         4.87        12.89        13.64 

$subtype2
TCGA-BJ-A0ZB TCGA-BJ-A0ZG TCGA-BJ-A28T TCGA-BJ-A28X TCGA-BJ-A290 TCGA-BJ-A3PR 
        4.01         7.56         2.76        17.49        20.58         8.02 
TCGA-BJ-A3PT TCGA-CE-A27D TCGA-CE-A3MD TCGA-DJ-A13O TCGA-DJ-A1QD TCGA-DJ-A1QE 
       12.07         0.10         0.20         7.07        10.98        65.85 
TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QM TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN 
        7.99         4.96         0.99         1.02         5.95         9.99 
TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PV TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q1 
        1.94         9.60         7.96         8.78         8.42         9.34 
TCGA-DJ-A2Q3 TCGA-DJ-A2Q6 TCGA-DJ-A2Q8 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A3UY 
        9.21         8.61         7.07        10.36        12.43        13.32 
TCGA-DJ-A3V4 TCGA-DJ-A3V6 TCGA-DJ-A3V8 TCGA-DJ-A3V9 TCGA-DJ-A3VD TCGA-DJ-A3VF 
       14.56        14.93         8.52         7.13        11.51         7.73 
TCGA-DJ-A3VJ TCGA-DO-A2HM TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A2JQ TCGA-E8-A3X7 
       17.36         2.30         1.12         0.36        66.12         1.48 
TCGA-E8-A413 TCGA-E8-A414 TCGA-E8-A415 TCGA-E8-A416 TCGA-E8-A419 TCGA-E8-A432 
        0.33         0.23         0.16         0.72        66.15         0.53 
TCGA-E8-A433 TCGA-E8-A434 TCGA-EM-A1CU TCGA-EM-A1YD TCGA-EM-A22I TCGA-EM-A22P 
        0.16         0.23         7.04        39.75         2.66         5.72 
TCGA-EM-A2CS TCGA-EM-A2CU TCGA-EM-A2OX TCGA-EM-A2P0 TCGA-EM-A2P1 TCGA-EM-A2P3 
        9.34         5.79         2.89         6.28         6.38         0.33 
TCGA-EM-A3AR TCGA-ET-A25G TCGA-ET-A25K TCGA-ET-A25L TCGA-ET-A25M TCGA-ET-A25R 
        6.81        35.77        19.36        14.79        12.33        20.42 
TCGA-ET-A2N0 TCGA-ET-A39J TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39S TCGA-ET-A3BN 
       34.49        11.90        43.04        13.35         0.66         1.68 
TCGA-ET-A3BQ TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BV TCGA-ET-A3DO TCGA-ET-A3DQ 
        2.43        24.72         1.28         1.84        65.92        44.91 
TCGA-ET-A3DR TCGA-ET-A3DU TCGA-FE-A22Z TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A237 
        2.14         4.54        51.45        43.82        65.82        65.92 
TCGA-FE-A3PB TCGA-FK-A3SE TCGA-FK-A3SH TCGA-FY-A3I4 TCGA-FY-A3R6 TCGA-FY-A3R7 
       65.88        21.99        48.10         1.12         0.76         0.03 
TCGA-FY-A3R8 TCGA-FY-A3TY TCGA-FY-A3YR TCGA-FY-A40L TCGA-GE-A2C6 TCGA-H2-A26U 
        4.64        66.15         6.84         6.54         6.77         3.48 
TCGA-H2-A421 TCGA-IM-A3EB TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-J8-A3NZ TCGA-J8-A3O2 
        2.20        35.18         2.63         3.25         2.24         1.35 
TCGA-J8-A3YD TCGA-J8-A3YF TCGA-J8-A3YG TCGA-J8-A3YH TCGA-J8-A42S 
       31.82        24.69        22.29         5.72         2.47 

$subtype3
TCGA-BJ-A0Z3 TCGA-BJ-A0Z5 TCGA-BJ-A0Z9 TCGA-BJ-A0ZH TCGA-BJ-A0ZJ TCGA-BJ-A28R 
        5.98         6.48         8.25         0.72         5.00         4.87 
TCGA-CE-A13K TCGA-CE-A3ME TCGA-DE-A0XZ TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DE-A3KN 
        0.53         0.23        13.22         7.59        31.30         9.40 
TCGA-DJ-A13P TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13X TCGA-DJ-A1QF TCGA-DJ-A1QN 
       65.72        24.92        12.92         7.99        18.05         8.98 
TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PR TCGA-DJ-A2PU TCGA-DJ-A2PW TCGA-DJ-A2PX 
        7.96        20.48        10.45        10.26         7.69         5.03 
TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q7 TCGA-DJ-A2QC TCGA-DJ-A3UN TCGA-DJ-A3V2 
        9.44         9.90         9.57         9.99        12.49         7.40 
TCGA-DJ-A3V3 TCGA-DJ-A3V7 TCGA-DJ-A3VA TCGA-DJ-A3VE TCGA-DO-A1JZ TCGA-DO-A1K0 
       17.75         9.83        11.93         4.41        40.27         3.06 
TCGA-E3-A3DY TCGA-E3-A3E0 TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E3-A3E5 
       31.07        50.76        40.18        46.72        20.88        14.04 
TCGA-E8-A417 TCGA-E8-A418 TCGA-EM-A1CS TCGA-EM-A1CT TCGA-EM-A1CV TCGA-EM-A22M 
        0.26         1.48        19.07         5.03        66.08         3.48 
TCGA-EM-A22O TCGA-EM-A2OZ TCGA-EM-A3AK TCGA-EM-A3AN TCGA-EM-A3AO TCGA-EM-A3AQ 
        6.21         9.34         9.27        11.21        11.05         8.61 
TCGA-ET-A25J TCGA-ET-A25N TCGA-ET-A25O TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ 
       29.69         2.47         4.44        54.02        19.04        12.26 
TCGA-ET-A2N4 TCGA-ET-A39K TCGA-ET-A39L TCGA-ET-A39M TCGA-ET-A39R TCGA-ET-A39T 
        1.41        65.95         1.94        65.88        46.45         7.79 
TCGA-ET-A3BO TCGA-ET-A3BP TCGA-ET-A3BS TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DP 
        5.82         4.18         5.52         2.37         4.50        50.50 
TCGA-ET-A3DT TCGA-ET-A3DW TCGA-ET-A40S TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 
        4.77        24.69         5.00        47.41        12.30        44.25 
TCGA-FE-A233 TCGA-FE-A236 TCGA-FE-A238 TCGA-FE-A23A TCGA-FE-A3PA TCGA-FE-A3PC 
       24.69        65.88        39.95        62.70        65.82        61.41 
TCGA-FE-A3PD TCGA-FK-A3S3 TCGA-FK-A3SG TCGA-FY-A3BL TCGA-FY-A3NN TCGA-FY-A3ON 
       62.89        46.06         0.92         1.15        66.12         1.51 
TCGA-FY-A3RA TCGA-FY-A40K TCGA-FY-A40N TCGA-H2-A3RI TCGA-H2-A422 TCGA-IM-A3ED 
        9.14         4.14         0.89         2.96         2.89        30.87 
TCGA-J8-A3YE 
       27.81 

subtype1 subtype2 subtype3 
    0.30     0.03     0.23 
subtype1 subtype2 subtype3 
   65.92    66.15    66.12 
subtype1 subtype2 subtype3 
    7.05     7.13     9.83 
[1] "0.3 - 65.9 (7.0)" "0.0 - 66.2 (7.1)" "0.2 - 66.1 (9.8)"
  [1] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [37] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [43] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
 [85] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [97] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[151] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[157] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[163] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[175] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[187] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[193] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[199] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[205] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[211] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[217] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[223] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[229] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
[235] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[241] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[247] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[253] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[259] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[265] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[271] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[277] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
  [1] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [37] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [43] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
 [85] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [97] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[151] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[157] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[163] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[175] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[187] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[193] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[199] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[205] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[211] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[217] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[223] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[229] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
[235] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[241] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[247] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[253] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[259] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[265] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[271] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[277] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
  [1] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
  [7] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype2"
 [13] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [19] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype2"
 [25] "subtype2" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [31] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [37] "subtype3" "subtype1" "subtype1" "subtype3" "subtype3" "subtype1"
 [43] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype2"
 [49] "subtype2" "subtype1" "subtype2" "subtype3" "subtype2" "subtype2"
 [55] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
 [61] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [67] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [73] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
 [85] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype2"
 [91] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
 [97] "subtype1" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[103] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype2" "subtype2"
[115] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[121] "subtype2" "subtype3" "subtype3" "subtype2" "subtype3" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[139] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[145] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[151] "subtype1" "subtype2" "subtype1" "subtype1" "subtype2" "subtype1"
[157] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype1"
[163] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype2"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype2"
[175] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[181] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[187] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype3"
[193] "subtype3" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[199] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
[205] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
[211] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[217] "subtype1" "subtype3" "subtype1" "subtype3" "subtype2" "subtype3"
[223] "subtype3" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
[229] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype2"
[235] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype2"
[241] "subtype1" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[247] "subtype1" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[253] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[259] "subtype2" "subtype1" "subtype3" "subtype2" "subtype2" "subtype1"
[265] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[271] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
[277] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 57 21
  subtype2 82 25
  subtype3 68 29
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   57   21
  subtype2   82   25
  subtype3   68   29
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       57       82       68
  MALE         21       25       29
          vv
clus       OTHER THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1    14                                            12
  subtype2     2                                            74
  subtype3     2                                            76
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                     51
  subtype2                                                                      7
  subtype3                                                                     14
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   1
  subtype2                                                                  24
  subtype3                                                                   5
D8V4, multiclass
D8V5, binary
          cls
clus         0   1
  subtype1   1  77
  subtype2   4 103
  subtype3   9  88
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   77
  subtype2    4  103
  subtype3    9   88
     clus
vv    subtype1 subtype2 subtype3
  NO         1        4        9
  YES       77      103       88
D8V6, binary
          cls
clus        0  1
  subtype1 67  3
  subtype2 92  2
  subtype3 76  6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   67    3
  subtype2   92    2
  subtype3   76    6
     clus
vv    subtype1 subtype2 subtype3
  NO        67       92       76
  YES        3        2        6
          vv
clus       M0 M1 MX
  subtype1 25  2 50
  subtype2 57  0 50
  subtype3 38  2 57
D8V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1            6                       0   69
  subtype2           36                       4   63
  subtype3           21                       1   68
D8V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 56  0   3   5 14
  subtype2 38  9  32  22  6
  subtype3 43  6  27  12  9
D8V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 64  4  0  6
  subtype2 83  9  0  6
  subtype3 74  7  1  7
D8V10, multiclass
D8V11, continuous
D8V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      40       18        15         2         2
  subtype2      54        6        33        14         0
  subtype3      64       10        14         8         1
D8V13, multiclass
D8V14, binary
          cls
clus        0  1
  subtype1 38 39
  subtype2 52 53
  subtype3 48 43
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   38   39
  subtype2   52   53
  subtype3   48   43
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       38       52       48
  UNIFOCAL         39       53       43
D8V15, continuous
                                    V1.D 
                         "Time to Death" 
                                      V2 
                                   "AGE" 
                                      V3 
                                "GENDER" 
                                      V4 
                     "HISTOLOGICAL.TYPE" 
                                      V5 
"RADIATIONS.RADIATION.REGIMENINDICATION" 
                                      V6 
                     "RADIATIONEXPOSURE" 
                                      V7 
                    "DISTANT.METASTASIS" 
                                      V8 
              "EXTRATHYROIDAL.EXTENSION" 
                                      V9 
                 "LYMPH.NODE.METASTASIS" 
                                     V10 
             "COMPLETENESS.OF.RESECTION" 
                                     V11 
                 "NUMBER.OF.LYMPH.NODES" 
                                     V12 
                       "TUMOR.STAGECODE" 
                                     V13 
                 "NEOPLASM.DISEASESTAGE" 
                                     V14 
                         "MULTIFOCALITY" 
                                     V15 
                            "TUMOR.SIZE" 
> q(save="no")
