
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.85.4149/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.85.4149/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering_new/THCA-Mut_BRAF/3818740/THCA-Mut_BRAF.mergedcluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/THCA-Mut_BRAF/3811740/THCA-Mut_BRAF.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=229, in cluster file=242, common to both=229
[1]   8 229
[1] "CN_CNMF"
[1] 3
  1   2   3 
173  27  29 
  1   2   3 
173  27  29 
[1] "METHLYATION_CNMF"
[1] 3
 1  2  3 
44 88 97 
 1  2  3 
44 88 97 
[1] "MRNASEQ_CNMF"
[1] 3
 1  2  3 
57 77 89 
 1  2  3 
57 77 89 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
 1  2  3 
90 67 66 
 1  2  3 
90 67 66 
[1] "MIRSEQ_CNMF"
[1] 3
 1  2  3 
78 69 81 
 1  2  3 
78 69 81 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
 30 105  93 
  1   2   3 
 30 105  93 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
 1  2  3  4 
65 40 62 61 
 1  2  3  4 
65 40 62 61 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2   3 
108  21  99 
  1   2   3 
108  21  99 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [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 229 columns.

[1] "Batch" "22"   
[1] "Last Follow UP"
TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A0ZH TCGA-BJ-A28R TCGA-BJ-A28X 
         497          251          122          460          148          532 
TCGA-BJ-A290 TCGA-BJ-A2NA TCGA-BJ-A3PR TCGA-BJ-A3PU TCGA-BJ-A45J TCGA-BJ-A4O8 
         626           64          244          305          154          150 
TCGA-BJ-A4O9 TCGA-CE-A3ME TCGA-DE-A0XZ TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13O 
         181            7          615          469         1109          215 
TCGA-DJ-A13P TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13X TCGA-DJ-A1QD 
        4199          758          393          362          243          334 
TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QM TCGA-DJ-A1QN 
        3041          549          243          457           30          273 
TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PR 
          31          181          306          242          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-A2Q3 TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 
         267          256          280          287          301          262 
TCGA-DJ-A2Q7 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UM 
         291          315          378          304          251          524 
TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3UU TCGA-DJ-A3UW 
         380          480          277          721          538         1308 
TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3V7 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VE 
         345          405          299          363          341          134 
TCGA-DJ-A3VF TCGA-DJ-A3VJ TCGA-DJ-A4UL TCGA-DJ-A4UW TCGA-DJ-A4V2 TCGA-DJ-A4V4 
         235          528          363          287           94          102 
TCGA-DO-A1K0 TCGA-DO-A2HM TCGA-E3-A3DY TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
         655           70          945         1222         1921          921 
TCGA-E3-A3E5 TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A413 TCGA-E8-A415 TCGA-E8-A418 
         427           34          678           10            5           45 
TCGA-E8-A419 TCGA-E8-A433 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A44K TCGA-EL-A3CM 
          NA            5           35          234           12           NA 
TCGA-EL-A3CN TCGA-EL-A3CP TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CU TCGA-EL-A3CV 
        3955         4831           NA           NA         4780         1154 
TCGA-EL-A3D1 TCGA-EL-A3GP TCGA-EL-A3GQ TCGA-EL-A3GR TCGA-EL-A3GS TCGA-EL-A3GU 
        2259           43          918         3128         1989         3773 
TCGA-EL-A3GV TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3H4 TCGA-EL-A3H5 TCGA-EL-A3H7 
        1532         4494         3076         1176         1604         3862 
TCGA-EL-A3H8 TCGA-EL-A3MW TCGA-EL-A3MY TCGA-EL-A3MZ TCGA-EL-A3N2 TCGA-EL-A3N3 
        3989         3305           NA           NA          370         4484 
TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 
        3976         3941         3556         2987         1256         2901 
TCGA-EL-A3TA TCGA-EL-A3ZK TCGA-EL-A3ZQ TCGA-EL-A3ZT TCGA-EL-A4K4 TCGA-EL-A4KG 
        2035          957         1385         1357         1022          405 
TCGA-EL-A4KH TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A22I TCGA-EM-A22M 
         361          553          636          376          447          441 
TCGA-EM-A22O TCGA-EM-A22P TCGA-EM-A2OX TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P1 
         357          339          600          367          535          531 
TCGA-EM-A2P3 TCGA-EM-A3AK TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FM 
         444          477          510          850          723          639 
TCGA-EM-A3FO TCGA-EM-A3O3 TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A4FM TCGA-EM-A4FO 
         532          441          223          381          146          254 
TCGA-EM-A4FQ TCGA-EM-A4FV TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O 
         298          387         1444          903          984          824 
TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N4 
         621         1643          672          373          489           81 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39M TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A39S 
        2160         2205         2582         1856         1786         1676 
TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BO TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS 
        1799          859          177          127           74          168 
TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BV TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO 
         752         1165         1284           72          137         2458 
TCGA-ET-A3DP TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DW TCGA-FE-A22Z TCGA-FE-A230 
        1730          547          770          751         1799         1816 
TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A235 TCGA-FE-A236 
         577         1346          751         1697         3130         2031 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PB TCGA-FE-A3PC TCGA-FK-A3SB TCGA-FK-A3SH 
        2474         2111         2589         1868          124         1463 
TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3NN TCGA-FY-A3ON TCGA-FY-A3R7 TCGA-FY-A3R8 
          35           34           NA           46            1          141 
TCGA-FY-A3RA TCGA-FY-A40K TCGA-FY-A40N TCGA-FY-A4B3 TCGA-GE-A2C6 TCGA-H2-A26U 
         278          126           27           41          381          334 
TCGA-H2-A3RI TCGA-H2-A421 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 
          90           67         1070          939           80           99 
TCGA-J8-A3NZ TCGA-J8-A3O1 TCGA-J8-A3YE TCGA-KS-A41J TCGA-KS-A4I5 TCGA-KS-A4I9 
          68          415          846          477          204          530 
TCGA-KS-A4IB TCGA-KS-A4ID TCGA-L6-A4EP TCGA-L6-A4ET TCGA-L6-A4EU TCGA-MK-A4N6 
        1963          623           18           34           22          505 
TCGA-MK-A4N9 
         265 
Variable 1:'AGE':	nDistinctValues=61,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=5,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=203,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=1,	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=16,	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=57,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 22:'BATCH.NUMBER':	nDistinctValues=16,	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 
 16  10  40  66  85   4   6   2 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 229 columns, 1 survival variables, and 14 non-survival variables.
AGE, nv=61, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
HISTOLOGICAL.TYPE, nv=4, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
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=57, binary=FALSE, numeric=TRUE

Clustering(1) Variable = CN_CNMF
D1V1, survival
          sevent
clus2        0   1
  subtype1 167   4
  subtype2  26   1
  subtype3  29   0
subtype1 subtype2 subtype3 
     171       27       29 
subtype1 subtype2 subtype3 
       4        1        0 
$subtype1
TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 TCGA-BJ-A28R TCGA-BJ-A28X TCGA-BJ-A2NA TCGA-BJ-A3PR 
       16.34         8.25         4.87        17.49         2.10         8.02 
TCGA-BJ-A3PU TCGA-BJ-A45J TCGA-BJ-A4O8 TCGA-BJ-A4O9 TCGA-CE-A3ME TCGA-DE-A0Y2 
       10.03         5.06         4.93         5.95         0.23        15.42 
TCGA-DE-A0Y3 TCGA-DJ-A13O TCGA-DJ-A13U TCGA-DJ-A13V TCGA-DJ-A13X TCGA-DJ-A1QD 
       36.46         7.07        12.92        11.90         7.99        10.98 
TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QM TCGA-DJ-A1QO 
       99.98        18.05         7.99        15.02         0.99         1.02 
TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PR TCGA-DJ-A2PT 
        5.95        10.06         7.96        20.48        10.45         9.60 
TCGA-DJ-A2PU TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q3 
       10.26         7.69         5.03         8.78         8.42         9.21 
TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q9 TCGA-DJ-A2QC TCGA-DJ-A3UM 
        9.44         9.90         8.61        10.36         9.99        17.23 
TCGA-DJ-A3UQ TCGA-DJ-A3UR TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3UX TCGA-DJ-A3UY 
        9.11        23.70        17.69        43.00        11.34        13.32 
TCGA-DJ-A3VA TCGA-DJ-A3VE TCGA-DJ-A3VF TCGA-DJ-A3VJ TCGA-DJ-A4UL TCGA-DJ-A4UW 
       11.93         4.41         7.73        17.36        11.93         9.44 
TCGA-DJ-A4V2 TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 
        3.09        21.53        31.07        40.18        63.16        30.28 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A413 TCGA-E8-A415 TCGA-E8-A418 TCGA-E8-A433 
        1.12        22.29         0.33         0.16         1.48         0.16 
TCGA-E8-A437 TCGA-E8-A44K TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CP TCGA-EL-A3CR 
        7.69         0.39        26.73       130.03       158.83         7.66 
TCGA-EL-A3CS TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3GQ TCGA-EL-A3GR TCGA-EL-A3GS 
       45.53       157.15        37.94        30.18       102.84        65.39 
TCGA-EL-A3GV TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3H4 TCGA-EL-A3H7 TCGA-EL-A3H8 
       50.37       147.75       101.13        38.66       126.97       131.15 
TCGA-EL-A3MW TCGA-EL-A3MY TCGA-EL-A3N2 TCGA-EL-A3N3 TCGA-EL-A3T0 TCGA-EL-A3T1 
      108.66        17.49        12.16       147.42       130.72       129.57 
TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3TA TCGA-EL-A3ZK 
      116.91        98.20        41.29        95.38        66.90        31.46 
TCGA-EL-A3ZQ TCGA-EL-A3ZT TCGA-EL-A4K4 TCGA-EL-A4KG TCGA-EL-A4KH TCGA-EM-A1CT 
       45.53        44.61        33.60        13.32        11.87        18.18 
TCGA-EM-A1CU TCGA-EM-A1CV TCGA-EM-A22O TCGA-EM-A2OX TCGA-EM-A2OZ TCGA-EM-A2P0 
       20.91        12.36        11.74        19.73        12.07        17.59 
TCGA-EM-A2P1 TCGA-EM-A2P3 TCGA-EM-A3AK TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3FM 
       17.46        14.60        15.68        16.77        27.95        21.01 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A4FM TCGA-EM-A4FQ TCGA-EM-A4FV TCGA-ET-A25G 
        7.33        12.53         4.80         9.80        12.72        47.47 
TCGA-ET-A25J TCGA-ET-A2MX TCGA-ET-A2N0 TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39O 
       29.69        54.02        16.08        71.01        72.49        61.02 
TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BO TCGA-ET-A3BQ TCGA-ET-A3BS 
       55.10        59.15        28.24         5.82         2.43         5.52 
TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DP TCGA-ET-A3DT 
       38.30         2.37         4.50        80.81        56.88        17.98 
TCGA-ET-A3DU TCGA-ET-A3DW TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A232 TCGA-FE-A233 
       25.32        24.69        59.15        59.70        44.25        24.69 
TCGA-FE-A234 TCGA-FE-A236 TCGA-FE-A23A TCGA-FE-A3PC TCGA-FK-A3SB TCGA-FY-A3BL 
       55.79        66.77        69.40        61.41         4.08         1.15 
TCGA-FY-A3I4 TCGA-FY-A3ON TCGA-FY-A3R8 TCGA-FY-A3RA TCGA-FY-A40K TCGA-FY-A40N 
        1.12         1.51         4.64         9.14         4.14         0.89 
TCGA-FY-A4B3 TCGA-H2-A26U TCGA-H2-A3RI TCGA-H2-A421 TCGA-IM-A3ED TCGA-J8-A3NZ 
        1.35        10.98         2.96         2.20        30.87         2.24 
TCGA-J8-A3O1 TCGA-J8-A3YE TCGA-KS-A41J TCGA-KS-A4I5 TCGA-KS-A4I9 TCGA-KS-A4ID 
       13.64        27.81        15.68         6.71        17.42        20.48 
TCGA-L6-A4ET TCGA-MK-A4N6 TCGA-MK-A4N9 
        1.12        16.60         8.71 

$subtype2
TCGA-BJ-A0ZB TCGA-BJ-A290 TCGA-DJ-A13P TCGA-DJ-A2PV TCGA-DJ-A3V7 TCGA-DJ-A3VB 
        4.01        20.58       138.05         7.96         9.83        11.21 
TCGA-DO-A2HM TCGA-EL-A3GP TCGA-EL-A3GU TCGA-EL-A3H5 TCGA-EL-A3MZ TCGA-EM-A22I 
        2.30         1.41       124.04        52.73        52.47        14.70 
TCGA-EM-A3FK TCGA-EM-A3O3 TCGA-ET-A25R TCGA-ET-A2MZ TCGA-ET-A2N4 TCGA-ET-A39P 
       23.77        14.50        20.42        12.26         2.66        58.72 
TCGA-ET-A3BT TCGA-ET-A3BV TCGA-FE-A231 TCGA-FE-A235 TCGA-FK-A3SH TCGA-IM-A3EB 
       24.72        42.21        18.97       102.90        48.10        35.18 
TCGA-IM-A3U2 TCGA-L6-A4EP TCGA-L6-A4EU 
        2.63         0.59         0.72 

$subtype3
TCGA-BJ-A0ZH TCGA-DE-A0XZ TCGA-DJ-A13T TCGA-DJ-A1QN TCGA-DJ-A2PS TCGA-DJ-A2Q7 
       15.12        20.22        24.92         8.98         1.94         9.57 
TCGA-DJ-A2QA TCGA-DJ-A3UK TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A4V4 TCGA-E3-A3E5 
       12.43         8.25        12.49        15.78         3.35        14.04 
TCGA-E8-A436 TCGA-EL-A3D1 TCGA-EM-A22M TCGA-EM-A22P TCGA-EM-A3FO TCGA-EM-A4FO 
        1.15        74.27        14.50        11.15        17.49         8.35 
TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A2MY TCGA-ET-A39M TCGA-ET-A3BP TCGA-FE-A237 
       32.35        27.09        22.09        84.89         4.18        81.34 
TCGA-FE-A3PB TCGA-FY-A3R7 TCGA-GE-A2C6 TCGA-IM-A3U3 TCGA-KS-A4IB 
       85.12         0.03        12.53         3.25        64.54 

subtype1 subtype2 subtype3 
    0.16     0.59     0.03 
subtype1 subtype2 subtype3 
  158.83   138.05    85.12 
subtype1 subtype2 subtype3 
   15.42    18.97    14.04 
[1] "0.2 - 158.8 (15.4)" "0.6 - 138.1 (19.0)" "0.0 - 85.1 (14.0)" 
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [19] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [49] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [55] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [73] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[133] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[145] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[157] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[169] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[175] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[187] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[193] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[199] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[211] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[217] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [19] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [49] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [55] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [73] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[133] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[145] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[157] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[169] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[175] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[187] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[193] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[199] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[211] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[217] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
  [1] "subtype1" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [13] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [19] "subtype2" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [25] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [31] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [37] "subtype3" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [43] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [49] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [55] "subtype3" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype2" "subtype1" "subtype2" "subtype1"
 [67] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [73] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [85] "subtype1" "subtype3" "subtype1" "subtype1" "subtype1" "subtype1"
 [91] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [97] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype1"
[103] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
[109] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[115] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[121] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[127] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[133] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[139] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[145] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[151] "subtype1" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
[157] "subtype1" "subtype3" "subtype2" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype3" "subtype1" "subtype2" "subtype1" "subtype1"
[169] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype2"
[175] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
[181] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype2"
[187] "subtype1" "subtype1" "subtype1" "subtype2" "subtype1" "subtype3"
[193] "subtype1" "subtype3" "subtype1" "subtype1" "subtype2" "subtype1"
[199] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[205] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[211] "subtype2" "subtype1" "subtype2" "subtype3" "subtype1" "subtype1"
[217] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype1"
[223] "subtype2" "subtype1" "subtype2" "subtype1" "subtype1"
D1V2, continuous
D1V3, binary
          cls
clus         0   1
  subtype1 129  44
  subtype2  19   8
  subtype3  21   8
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  129   44
  subtype2   19    8
  subtype3   21    8
        clus
vv       subtype1 subtype2 subtype3
  FEMALE      129       19       21
  MALE         44        8        8
          vv
clus       OTHER  SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1              3                                           140
  subtype2              0                                            19
  subtype3              0                                            25
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                     14
  subtype2                                                                      1
  subtype3                                                                      1
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                  16
  subtype2                                                                   7
  subtype3                                                                   3
D1V4, multiclass
D1V5, binary
          cls
clus         0   1
  subtype1   8 165
  subtype2   2  25
  subtype3   1  28
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8  165
  subtype2    2   25
  subtype3    1   28
     clus
vv    subtype1 subtype2 subtype3
  NO         8        2        1
  YES      165       25       28
D1V6, binary
          cls
clus         0   1
  subtype1 147   5
  subtype2  23   2
  subtype3  27   1
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1  147    5
  subtype2   23    2
  subtype3   27    1
     clus
vv    subtype1 subtype2 subtype3
  NO       147       23       27
  YES        5        2        1
          vv
clus        M0  M1  MX
  subtype1 108   4  61
  subtype2  11   0  16
  subtype3  13   0  16
D1V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1           56                       6  106
  subtype2           13                       3   11
  subtype3            7                       0   22
D1V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 73 21  40  21 18
  subtype2  8  4   8   6  1
  subtype3 11  2   8   6  2
D1V9, multiclass
          vv
clus        R0  R1  R2  RX
  subtype1 142  16   1   5
  subtype2  17   5   0   4
  subtype3  23   1   0   4
D1V10, multiclass
D1V11, continuous
D1V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1     107       14        36        12         3
  subtype2       5        1        15         6         0
  subtype3      20        1         4         4         0
D1V13, multiclass
D1V14, binary
          cls
clus         0   1
  subtype1  71 100
  subtype2  12  15
  subtype3  22   6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   71  100
  subtype2   12   15
  subtype3   22    6
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       71       12       22
  UNIFOCAL        100       15        6
D1V15, continuous

Clustering(2) Variable = METHLYATION_CNMF
D2V1, survival
          sevent
clus2       0  1
  subtype1 43  0
  subtype2 83  5
  subtype3 96  0
subtype1 subtype2 subtype3 
      43       88       96 
subtype1 subtype2 subtype3 
       0        5        0 
$subtype1
TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 TCGA-BJ-A28X TCGA-BJ-A3PR TCGA-BJ-A4O8 TCGA-DJ-A13O 
       16.34         8.25        17.49         8.02         4.93         7.07 
TCGA-DJ-A2PT TCGA-DJ-A2PX TCGA-DJ-A2Q3 TCGA-DJ-A2Q5 TCGA-DJ-A2Q9 TCGA-DJ-A3UQ 
        9.60         5.03         9.21         9.90        10.36         9.11 
TCGA-DJ-A3UW TCGA-DJ-A3VF TCGA-DO-A2HM TCGA-E8-A242 TCGA-E8-A2EA TCGA-EL-A3CN 
       43.00         7.73         2.30         1.12        22.29       130.03 
TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3H7 TCGA-EL-A3N3 TCGA-EL-A3T1 TCGA-EL-A3T6 
      157.15        37.94       126.97       147.42       129.57        98.20 
TCGA-EL-A3ZK TCGA-EM-A22M TCGA-EM-A22P TCGA-EM-A2P1 TCGA-EM-A4FO TCGA-ET-A39M 
       31.46        14.50        11.15        17.46         8.35        84.89 
TCGA-ET-A39O TCGA-ET-A3BS TCGA-ET-A3BV TCGA-ET-A3DO TCGA-ET-A3DT TCGA-ET-A3DU 
       61.02         5.52        42.21        80.81        17.98        25.32 
TCGA-FE-A23A TCGA-FE-A3PB TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A421 TCGA-IM-A3EB 
       69.40        85.12        12.53        10.98         2.20        35.18 
TCGA-KS-A4ID 
       20.48 

$subtype2
TCGA-BJ-A0ZB TCGA-BJ-A0ZH TCGA-BJ-A290 TCGA-BJ-A45J TCGA-DE-A0XZ TCGA-DE-A0Y3 
        4.01        15.12        20.58         5.06        20.22        36.46 
TCGA-DJ-A13T TCGA-DJ-A13V TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QO TCGA-DJ-A1QQ 
       24.92        11.90         7.99        15.02         1.02         5.95 
TCGA-DJ-A2PN TCGA-DJ-A2PR TCGA-DJ-A2PW TCGA-DJ-A2Q4 TCGA-DJ-A2Q6 TCGA-DJ-A3UO 
       10.06        10.45         7.69         9.44         8.61        15.78 
TCGA-DJ-A3V7 TCGA-DJ-A3VA TCGA-DJ-A3VB TCGA-DJ-A3VJ TCGA-E3-A3E5 TCGA-E8-A418 
        9.83        11.93        11.21        17.36        14.04         1.48 
TCGA-E8-A433 TCGA-EL-A3CM TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3D1 TCGA-EL-A3GP 
        0.16        26.73         7.66        45.53        74.27         1.41 
TCGA-EL-A3GR TCGA-EL-A3GU TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3H4 TCGA-EL-A3H5 
      102.84       124.04       147.75       101.13        38.66        52.73 
TCGA-EL-A3H8 TCGA-EL-A3MY TCGA-EL-A3MZ TCGA-EL-A3T3 TCGA-EL-A3T7 TCGA-EL-A3T8 
      131.15        17.49        52.47       116.91        41.29        95.38 
TCGA-EL-A3ZQ TCGA-EL-A3ZT TCGA-EL-A4K4 TCGA-EL-A4KG TCGA-EM-A1CU TCGA-EM-A22I 
       45.53        44.61        33.60        13.32        20.91        14.70 
TCGA-EM-A22O TCGA-EM-A2OX TCGA-EM-A3AK TCGA-EM-A3FK TCGA-EM-A3FM TCGA-EM-A3FO 
       11.74        19.73        15.68        23.77        21.01        17.49 
TCGA-EM-A3O3 TCGA-EM-A4FM TCGA-EM-A4FQ TCGA-EM-A4FV TCGA-ET-A25G TCGA-ET-A25K 
       14.50         4.80         9.80        12.72        47.47        32.35 
TCGA-ET-A25O TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A3BN 
       27.09        20.42        54.02        71.01        72.49        28.24 
TCGA-ET-A3BO TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BX TCGA-ET-A3DW TCGA-FE-A22Z 
        5.82        24.72        38.30         4.50        24.69        59.15 
TCGA-FE-A231 TCGA-FE-A235 TCGA-FK-A3SB TCGA-FK-A3SH TCGA-FY-A3ON TCGA-FY-A4B3 
       18.97       102.90         4.08        48.10         1.51         1.35 
TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-J8-A3O1 TCGA-KS-A4I5 TCGA-KS-A4I9 
       30.87         2.63         3.25        13.64         6.71        17.42 
TCGA-KS-A4IB TCGA-L6-A4EP TCGA-L6-A4EU TCGA-MK-A4N9 
       64.54         0.59         0.72         8.71 

$subtype3
TCGA-BJ-A28R TCGA-BJ-A2NA TCGA-BJ-A3PU TCGA-BJ-A4O9 TCGA-CE-A3ME TCGA-DE-A0Y2 
        4.87         2.10        10.03         5.95         0.23        15.42 
TCGA-DJ-A13P TCGA-DJ-A13U TCGA-DJ-A13X TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF 
      138.05        12.92         7.99        10.98        99.98        18.05 
TCGA-DJ-A1QM TCGA-DJ-A1QN TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PU 
        0.99         8.98         7.96        20.48         1.94        10.26 
TCGA-DJ-A2PV TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q7 TCGA-DJ-A2QA TCGA-DJ-A2QC 
        7.96         8.78         8.42         9.57        12.43         9.99 
TCGA-DJ-A3UK TCGA-DJ-A3UM TCGA-DJ-A3UN TCGA-DJ-A3UR TCGA-DJ-A3UU TCGA-DJ-A3UX 
        8.25        17.23        12.49        23.70        17.69        11.34 
TCGA-DJ-A3UY TCGA-DJ-A3VE TCGA-DJ-A4UL TCGA-DJ-A4UW TCGA-DJ-A4V2 TCGA-DJ-A4V4 
       13.32         4.41        11.93         9.44         3.09         3.35 
TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E8-A413 
       21.53        31.07        40.18        63.16        30.28         0.33 
TCGA-E8-A415 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A44K TCGA-EL-A3CP TCGA-EL-A3GQ 
        0.16         1.15         7.69         0.39       158.83        30.18 
TCGA-EL-A3GS TCGA-EL-A3GV TCGA-EL-A3MW TCGA-EL-A3N2 TCGA-EL-A3T0 TCGA-EL-A3TA 
       65.39        50.37       108.66        12.16       130.72        66.90 
TCGA-EL-A4KH TCGA-EM-A1CT TCGA-EM-A1CV TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A2P3 
       11.87        18.18        12.36        12.07        17.59        14.60 
TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-ET-A25J TCGA-ET-A2MY 
       16.77        27.95         7.33        12.53        29.69        22.09 
TCGA-ET-A2MZ TCGA-ET-A2N0 TCGA-ET-A2N4 TCGA-ET-A39P TCGA-ET-A39S TCGA-ET-A39T 
       12.26        16.08         2.66        58.72        55.10        59.15 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BW TCGA-ET-A3DP TCGA-FE-A230 TCGA-FE-A232 
        4.18         2.43         2.37        56.88        59.70        44.25 
TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A236 TCGA-FE-A237 TCGA-FE-A3PC TCGA-FY-A3BL 
       24.69        55.79        66.77        81.34        61.41         1.15 
TCGA-FY-A3I4 TCGA-FY-A3R7 TCGA-FY-A3R8 TCGA-FY-A3RA TCGA-FY-A40K TCGA-FY-A40N 
        1.12         0.03         4.64         9.14         4.14         0.89 
TCGA-H2-A3RI TCGA-J8-A3NZ TCGA-J8-A3YE TCGA-KS-A41J TCGA-L6-A4ET TCGA-MK-A4N6 
        2.96         2.24        27.81        15.68         1.12        16.60 

subtype1 subtype2 subtype3 
    1.12     0.16     0.03 
subtype1 subtype2 subtype3 
  157.15   147.75   158.83 
subtype1 subtype2 subtype3 
  17.460   17.455   12.310 
[1] "1.1 - 157.2 (17.5)" "0.2 - 147.8 (17.5)" "0.0 - 158.8 (12.3)"
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [19] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [37] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [43] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [67] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [85] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [97] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[139] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[163] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[181] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[193] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[199] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[217] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[223] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [19] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [37] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [43] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [67] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [85] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [97] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[139] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[163] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[181] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[193] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[199] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[217] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[223] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
  [1] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype1"
  [7] "subtype2" "subtype3" "subtype1" "subtype3" "subtype2" "subtype1"
 [13] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
 [19] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype2"
 [37] "subtype3" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
 [43] "subtype3" "subtype3" "subtype1" "subtype2" "subtype1" "subtype2"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [55] "subtype3" "subtype2" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [67] "subtype1" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
 [73] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
 [79] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype2"
 [85] "subtype2" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype2" "subtype2" "subtype1" "subtype1" "subtype2"
 [97] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[103] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[109] "subtype3" "subtype2" "subtype2" "subtype3" "subtype1" "subtype3"
[115] "subtype1" "subtype2" "subtype1" "subtype2" "subtype2" "subtype3"
[121] "subtype1" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
[127] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype2"
[133] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype3"
[139] "subtype2" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[145] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[151] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype2" "subtype3" "subtype3" "subtype3" "subtype3" "subtype2"
[163] "subtype2" "subtype1" "subtype1" "subtype3" "subtype3" "subtype3"
[169] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[175] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype3"
[181] "subtype1" "subtype1" "subtype2" "subtype2" "subtype3" "subtype2"
[187] "subtype3" "subtype3" "subtype3" "subtype2" "subtype3" "subtype3"
[193] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[199] "subtype3" "subtype2" "subtype3" "subtype3" "subtype3" "subtype3"
[205] "subtype3" "subtype2" "subtype1" "subtype1" "subtype3" "subtype1"
[211] "subtype1" "subtype2" "subtype2" "subtype2" "subtype3" "subtype2"
[217] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype1"
[223] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
D2V2, continuous
D2V3, binary
          cls
clus        0  1
  subtype1 32 12
  subtype2 58 30
  subtype3 79 18
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   32   12
  subtype2   58   30
  subtype3   79   18
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       32       58       79
  MALE         12       30       18
          vv
clus       OTHER  SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1              0                                            34
  subtype2              1                                            70
  subtype3              2                                            80
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                      2
  subtype2                                                                      2
  subtype3                                                                     12
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   8
  subtype2                                                                  15
  subtype3                                                                   3
D2V4, multiclass
D2V5, binary
          cls
clus        0  1
  subtype1  1 43
  subtype2  3 85
  subtype3  7 90
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   43
  subtype2    3   85
  subtype3    7   90
     clus
vv    subtype1 subtype2 subtype3
  NO         1        3        7
  YES       43       85       90
D2V6, binary
          cls
clus        0  1
  subtype1 39  2
  subtype2 77  4
  subtype3 81  2
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   39    2
  subtype2   77    4
  subtype3   81    2
     clus
vv    subtype1 subtype2 subtype3
  NO        39       77       81
  YES        2        4        2
          vv
clus       M0 M1 MX
  subtype1 25  0 19
  subtype2 48  3 37
  subtype3 59  1 37
D2V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1           16                       0   28
  subtype2           32                       9   44
  subtype3           28                       0   67
D2V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 18  3  13   7  3
  subtype2 25 15  26  17  5
  subtype3 49  9  17   9 13
D2V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 33  5  1  3
  subtype2 66 13  0  6
  subtype3 83  4  0  4
D2V10, multiclass
D2V11, continuous
D2V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      28        2        10         4         0
  subtype2      42        6        22        16         2
  subtype3      62        8        23         2         1
D2V13, multiclass
D2V14, binary
          cls
clus        0  1
  subtype1 18 26
  subtype2 43 43
  subtype3 44 52
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   18   26
  subtype2   43   43
  subtype3   44   52
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       18       43       44
  UNIFOCAL         26       43       52
D2V15, continuous

Clustering(3) Variable = MRNASEQ_CNMF
D3V1, survival
          sevent
clus2       0  1
  subtype1 54  3
  subtype2 75  1
  subtype3 87  1
subtype1 subtype2 subtype3 
      57       76       88 
subtype1 subtype2 subtype3 
       3        1        1 
$subtype1
TCGA-BJ-A0Z3 TCGA-BJ-A28X TCGA-BJ-A3PR TCGA-BJ-A4O8 TCGA-DJ-A13O TCGA-DJ-A1QM 
       16.34        17.49         8.02         4.93         7.07         0.99 
TCGA-DJ-A2PX TCGA-DJ-A2PZ TCGA-DJ-A2Q3 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q9 
        5.03         8.42         9.21         9.90         8.61        10.36 
TCGA-DJ-A3UQ TCGA-DJ-A3UW TCGA-DJ-A3UY TCGA-DJ-A3VF TCGA-DO-A2HM TCGA-E3-A3E2 
        9.11        43.00        13.32         7.73         2.30        63.16 
TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A413 TCGA-E8-A433 TCGA-E8-A436 TCGA-E8-A44K 
        1.12        22.29         0.33         0.16         1.15         0.39 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CR TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3GP 
       26.73       130.03         7.66       157.15        37.94         1.41 
TCGA-EL-A3GU TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MY TCGA-EL-A3N3 TCGA-EL-A3T1 
      124.04        52.73       126.97        17.49       147.42       129.57 
TCGA-EM-A22P TCGA-EM-A2P1 TCGA-EM-A2P3 TCGA-EM-A3O3 TCGA-EM-A4FM TCGA-EM-A4FO 
       11.15        17.46        14.60        14.50         4.80         8.35 
TCGA-ET-A25J TCGA-ET-A2N0 TCGA-ET-A3BO TCGA-ET-A3BT TCGA-ET-A3DO TCGA-ET-A3DT 
       29.69        16.08         5.82        24.72        80.81        17.98 
TCGA-FE-A237 TCGA-FE-A3PB TCGA-FY-A3R8 TCGA-GE-A2C6 TCGA-H2-A26U TCGA-H2-A421 
       81.34        85.12         4.64        12.53        10.98         2.20 
TCGA-IM-A3U3 TCGA-KS-A4ID TCGA-L6-A4EU 
        3.25        20.48         0.72 

$subtype2
TCGA-BJ-A0Z9 TCGA-BJ-A0ZH TCGA-BJ-A28R TCGA-BJ-A2NA TCGA-BJ-A3PU TCGA-BJ-A45J 
        8.25        15.12         4.87         2.10        10.03         5.06 
TCGA-CE-A3ME TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13U TCGA-DJ-A1QD TCGA-DJ-A1QE 
        0.23        15.42        36.46        12.92        10.98        99.98 
TCGA-DJ-A1QH TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PT TCGA-DJ-A2PW 
        7.99         1.02         5.95        10.06         9.60         7.69 
TCGA-DJ-A2PY TCGA-DJ-A2Q4 TCGA-DJ-A3UM TCGA-DJ-A3V7 TCGA-DJ-A3VB TCGA-DJ-A3VJ 
        8.78         9.44        17.23         9.83        11.21        17.36 
TCGA-DJ-A4V2 TCGA-E3-A3E1 TCGA-E3-A3E3 TCGA-E8-A418 TCGA-EL-A3GR TCGA-EL-A3GS 
        3.09        40.18        30.28         1.48       102.84        65.39 
TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3H4 TCGA-EL-A3H8 TCGA-EL-A3MZ TCGA-EL-A3N2 
      147.75       101.13        38.66       131.15        52.47        12.16 
TCGA-EL-A3T3 TCGA-EL-A3T6 TCGA-EL-A3ZK TCGA-EL-A3ZT TCGA-EL-A4K4 TCGA-EL-A4KG 
      116.91        98.20        31.46        44.61        33.60        13.32 
TCGA-EM-A1CU TCGA-EM-A22I TCGA-EM-A2OZ TCGA-EM-A3FK TCGA-EM-A3FM TCGA-EM-A3FO 
       20.91        14.70        12.07        23.77        21.01        17.49 
TCGA-EM-A4FQ TCGA-ET-A25G TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A39O 
        9.80        47.47        20.42        54.02        22.09        61.02 
TCGA-ET-A39P TCGA-ET-A3BN TCGA-ET-A3BU TCGA-ET-A3BX TCGA-ET-A3DW TCGA-FE-A22Z 
       58.72        28.24        38.30         4.50        24.69        59.15 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A233 TCGA-FE-A234 TCGA-FE-A23A TCGA-FY-A3BL 
       59.70        18.97        24.69        55.79        69.40         1.15 
TCGA-FY-A3ON TCGA-FY-A4B3 TCGA-IM-A3EB TCGA-IM-A3ED TCGA-IM-A3U2 TCGA-J8-A3NZ 
        1.51         1.35        35.18        30.87         2.63         2.24 
TCGA-J8-A3O1 TCGA-KS-A41J TCGA-KS-A4I9 TCGA-MK-A4N6 
       13.64        15.68        17.42        16.60 

$subtype3
TCGA-BJ-A0ZB TCGA-BJ-A290 TCGA-BJ-A4O9 TCGA-DE-A0XZ TCGA-DJ-A13P TCGA-DJ-A13T 
        4.01        20.58         5.95        20.22       138.05        24.92 
TCGA-DJ-A13V TCGA-DJ-A13X TCGA-DJ-A1QF TCGA-DJ-A1QI TCGA-DJ-A1QN TCGA-DJ-A2PO 
       11.90         7.99        18.05        15.02         8.98         7.96 
TCGA-DJ-A2PQ TCGA-DJ-A2PR TCGA-DJ-A2PS TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2Q7 
       20.48        10.45         1.94        10.26         7.96         9.57 
TCGA-DJ-A2QA TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UR 
       12.43         9.99         8.25        12.49        15.78        23.70 
TCGA-DJ-A3UU TCGA-DJ-A3UX TCGA-DJ-A3VA TCGA-DJ-A3VE TCGA-DJ-A4UL TCGA-DJ-A4UW 
       17.69        11.34        11.93         4.41        11.93         9.44 
TCGA-DJ-A4V4 TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E5 TCGA-E8-A415 TCGA-E8-A437 
        3.35        21.53        31.07        14.04         0.16         7.69 
TCGA-EL-A3CP TCGA-EL-A3CS TCGA-EL-A3GQ TCGA-EL-A3GV TCGA-EL-A3MW TCGA-EL-A3T0 
      158.83        45.53        30.18        50.37       108.66       130.72 
TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3TA TCGA-EL-A3ZQ TCGA-EL-A4KH TCGA-EM-A1CT 
       41.29        95.38        66.90        45.53        11.87        18.18 
TCGA-EM-A1CV TCGA-EM-A22O TCGA-EM-A2OX TCGA-EM-A2P0 TCGA-EM-A3AK TCGA-EM-A3AR 
       12.36        11.74        19.73        17.59        15.68        16.77 
TCGA-EM-A3FJ TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A4FV TCGA-ET-A25K TCGA-ET-A25O 
       27.95         7.33        12.53        12.72        32.35        27.09 
TCGA-ET-A2MZ TCGA-ET-A2N4 TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39M TCGA-ET-A39S 
       12.26         2.66        71.01        72.49        84.89        55.10 
TCGA-ET-A39T TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BW TCGA-ET-A3DP 
       59.15         4.18         2.43         5.52         2.37        56.88 
TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A3PC TCGA-FK-A3SB TCGA-FK-A3SH TCGA-FY-A3I4 
      102.90        66.77        61.41         4.08        48.10         1.12 
TCGA-FY-A3R7 TCGA-FY-A3RA TCGA-FY-A40K TCGA-FY-A40N TCGA-H2-A3RI TCGA-J8-A3YE 
        0.03         9.14         4.14         0.89         2.96        27.81 
TCGA-KS-A4I5 TCGA-KS-A4IB TCGA-L6-A4ET TCGA-MK-A4N9 
        6.71        64.54         1.12         8.71 

subtype1 subtype2 subtype3 
    0.16     0.23     0.03 
subtype1 subtype2 subtype3 
  157.15   147.75   158.83 
subtype1 subtype2 subtype3 
  11.150   17.390   12.625 
[1] "0.2 - 157.2 (11.2)" "0.2 - 147.8 (17.4)" "0.0 - 158.8 (12.6)"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [13] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [19] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [25] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [67] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [79] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [85] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [91] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[115] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[151] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[163] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[169] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[175] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[187] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[193] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[199] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[211] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[217] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [13] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [19] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [25] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [67] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [79] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [85] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [91] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[115] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[151] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[163] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[169] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[175] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[187] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[193] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[199] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[211] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[217] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
  [7] "subtype3" "subtype2" "subtype1" "subtype2" "subtype2" "subtype1"
 [13] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
 [19] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [25] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype2" "subtype2" "subtype2" "subtype3" "subtype3" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
 [43] "subtype2" "subtype1" "subtype1" "subtype2" "subtype1" "subtype1"
 [49] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype2"
 [55] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [61] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype3"
 [67] "subtype1" "subtype2" "subtype3" "subtype3" "subtype2" "subtype3"
 [73] "subtype3" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
 [79] "subtype3" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
 [85] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [91] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
 [97] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[103] "subtype2" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[109] "subtype1" "subtype2" "subtype2" "subtype1" "subtype3" "subtype1"
[115] "subtype2" "subtype2" "subtype3" "subtype3" "subtype3" "subtype2"
[121] "subtype3" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[127] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[133] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype2" "subtype1" "subtype3"
[145] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[151] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype3" "subtype1" "subtype3" "subtype3" "subtype3" "subtype3"
[163] "subtype2" "subtype2" "subtype3" "subtype3" "subtype2" "subtype1"
[169] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[175] "subtype2" "subtype1" "subtype3" "subtype1" "subtype2" "subtype2"
[181] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[187] "subtype1" "subtype2" "subtype1" "subtype3" "subtype3" "subtype3"
[193] "subtype2" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
[199] "subtype3" "subtype3" "subtype2" "subtype1" "subtype1" "subtype3"
[205] "subtype1" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[211] "subtype2" "subtype3" "subtype2" "subtype3" "subtype2" "subtype3"
[217] "subtype1" "subtype3" "subtype1" "subtype2" "subtype3"
D3V2, continuous
D3V3, binary
          cls
clus        0  1
  subtype1 45 12
  subtype2 51 26
  subtype3 69 20
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   45   12
  subtype2   51   26
  subtype3   69   20
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       45       51       69
  MALE         12       26       20
          vv
clus       OTHER  SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1              0                                            44
  subtype2              1                                            60
  subtype3              2                                            74
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                      4
  subtype2                                                                      2
  subtype3                                                                     10
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   9
  subtype2                                                                  14
  subtype3                                                                   3
D3V4, multiclass
D3V5, binary
          cls
clus        0  1
  subtype1  1 56
  subtype2  6 71
  subtype3  3 86
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   56
  subtype2    6   71
  subtype3    3   86
     clus
vv    subtype1 subtype2 subtype3
  NO         1        6        3
  YES       56       71       86
D3V6, binary
          cls
clus        0  1
  subtype1 49  1
  subtype2 66  2
  subtype3 76  5
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   49    1
  subtype2   66    2
  subtype3   76    5
     clus
vv    subtype1 subtype2 subtype3
  NO        49       66       76
  YES        1        2        5
          vv
clus       M0 M1 MX
  subtype1 35  1 21
  subtype2 45  2 30
  subtype3 50  1 38
D3V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1           23                       2   32
  subtype2           29                       4   40
  subtype3           23                       3   62
D3V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 19  4  16  13  5
  subtype2 29 16  17   9  6
  subtype3 41  7  21  11  9
D3V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 40  9  1  5
  subtype2 64  7  0  3
  subtype3 73  5  0  5
D3V10, multiclass
D3V11, continuous
D3V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      30        2        16         8         1
  subtype2      44        5        21         6         1
  subtype3      53        9        17         8         1
D3V13, multiclass
D3V14, binary
          cls
clus        0  1
  subtype1 25 32
  subtype2 27 47
  subtype3 51 38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   25   32
  subtype2   27   47
  subtype3   51   38
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       25       27       51
  UNIFOCAL         32       47       38
D3V15, continuous

Clustering(4) Variable = MRNASEQ_CHIERARCHICAL
D4V1, survival
          sevent
clus2       0  1
  subtype1 89  0
  subtype2 62  4
  subtype3 65  1
subtype1 subtype2 subtype3 
      89       66       66 
subtype1 subtype2 subtype3 
       0        4        1 
$subtype1
TCGA-BJ-A0Z3 TCGA-BJ-A290 TCGA-DE-A0XZ TCGA-DJ-A13O TCGA-DJ-A13P TCGA-DJ-A13T 
       16.34        20.58        20.22         7.07       138.05        24.92 
TCGA-DJ-A13V TCGA-DJ-A13X TCGA-DJ-A1QF TCGA-DJ-A1QI TCGA-DJ-A1QM TCGA-DJ-A1QN 
       11.90         7.99        18.05        15.02         0.99         8.98 
TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PS TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW 
        7.96        20.48         1.94        10.26         7.96         7.69 
TCGA-DJ-A2PX TCGA-DJ-A2Q3 TCGA-DJ-A2Q5 TCGA-DJ-A2Q7 TCGA-DJ-A2QA TCGA-DJ-A2QC 
        5.03         9.21         9.90         9.57        12.43         9.99 
TCGA-DJ-A3UK TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UR TCGA-DJ-A3UU TCGA-DJ-A3UW 
        8.25        12.49        15.78        23.70        17.69        43.00 
TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A4UL TCGA-DJ-A4UW TCGA-DJ-A4V4 TCGA-E3-A3DY 
       11.34        13.32        11.93         9.44         3.35        31.07 
TCGA-E3-A3E2 TCGA-E3-A3E5 TCGA-E8-A413 TCGA-E8-A415 TCGA-E8-A433 TCGA-E8-A436 
       63.16        14.04         0.33         0.16         0.16         1.15 
TCGA-E8-A437 TCGA-EL-A3CP TCGA-EL-A3GQ TCGA-EL-A3GV TCGA-EL-A3MW TCGA-EL-A3T0 
        7.69       158.83        30.18        50.37       108.66       130.72 
TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3TA TCGA-EL-A3ZQ TCGA-EL-A4KH TCGA-EM-A1CV 
       41.29        95.38        66.90        45.53        11.87        12.36 
TCGA-EM-A2OX TCGA-EM-A3AK TCGA-EM-A3AR TCGA-EM-A3FJ TCGA-EM-A3O7 TCGA-EM-A3O8 
       19.73        15.68        16.77        27.95         7.33        12.53 
TCGA-EM-A4FO TCGA-EM-A4FV TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A2MZ TCGA-ET-A2N0 
        8.35        12.72        32.35        27.09        12.26        16.08 
TCGA-ET-A2N4 TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39M TCGA-ET-A39S TCGA-ET-A3BP 
        2.66        71.01        72.49        84.89        55.10         4.18 
TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BW TCGA-ET-A3DP TCGA-ET-A3DT TCGA-FE-A235 
        2.43         5.52         2.37        56.88        17.98       102.90 
TCGA-FE-A3PC TCGA-FK-A3SB TCGA-FK-A3SH TCGA-FY-A3R7 TCGA-FY-A40K TCGA-FY-A40N 
       61.41         4.08        48.10         0.03         4.14         0.89 
TCGA-KS-A4I5 TCGA-KS-A4IB TCGA-KS-A4ID TCGA-L6-A4ET TCGA-MK-A4N9 
        6.71        64.54        20.48         1.12         8.71 

$subtype2
TCGA-BJ-A28R TCGA-BJ-A28X TCGA-BJ-A3PR TCGA-BJ-A3PU TCGA-BJ-A4O8 TCGA-DJ-A1QH 
        4.87        17.49         8.02        10.03         4.93         7.99 
TCGA-DJ-A2PT TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q6 TCGA-DJ-A2Q9 TCGA-DJ-A3UQ 
        9.60         8.78         8.42         8.61        10.36         9.11 
TCGA-DJ-A3VB TCGA-DJ-A3VF TCGA-DO-A2HM TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A44K 
       11.21         7.73         2.30         1.12        22.29         0.39 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CR TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3GP 
       26.73       130.03         7.66       157.15        37.94         1.41 
TCGA-EL-A3GU TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MY TCGA-EL-A3MZ TCGA-EL-A3N2 
      124.04        52.73       126.97        17.49        52.47        12.16 
TCGA-EL-A3N3 TCGA-EL-A3T1 TCGA-EL-A3T6 TCGA-EL-A4K4 TCGA-EL-A4KG TCGA-EM-A22I 
      147.42       129.57        98.20        33.60        13.32        14.70 
TCGA-EM-A22P TCGA-EM-A2P1 TCGA-EM-A2P3 TCGA-EM-A3FM TCGA-EM-A3O3 TCGA-EM-A4FM 
       11.15        17.46        14.60        21.01        14.50         4.80 
TCGA-EM-A4FQ TCGA-ET-A25R TCGA-ET-A2MY TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A3BO 
        9.80        20.42        22.09        61.02        58.72         5.82 
TCGA-ET-A3BT TCGA-ET-A3DO TCGA-ET-A3DW TCGA-FE-A22Z TCGA-FE-A230 TCGA-FE-A234 
       24.72        80.81        24.69        59.15        59.70        55.79 
TCGA-FE-A237 TCGA-FE-A23A TCGA-FE-A3PB TCGA-FY-A3R8 TCGA-GE-A2C6 TCGA-H2-A26U 
       81.34        69.40        85.12         4.64        12.53        10.98 
TCGA-H2-A421 TCGA-IM-A3EB TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-L6-A4EU TCGA-MK-A4N6 
        2.20        35.18         2.63         3.25         0.72        16.60 

$subtype3
TCGA-BJ-A0Z9 TCGA-BJ-A0ZB TCGA-BJ-A0ZH TCGA-BJ-A2NA TCGA-BJ-A45J TCGA-BJ-A4O9 
        8.25         4.01        15.12         2.10         5.06         5.95 
TCGA-CE-A3ME TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13U TCGA-DJ-A1QD TCGA-DJ-A1QE 
        0.23        15.42        36.46        12.92        10.98        99.98 
TCGA-DJ-A1QO TCGA-DJ-A1QQ TCGA-DJ-A2PN TCGA-DJ-A2PR TCGA-DJ-A2Q4 TCGA-DJ-A3UM 
        1.02         5.95        10.06        10.45         9.44        17.23 
TCGA-DJ-A3V7 TCGA-DJ-A3VA TCGA-DJ-A3VE TCGA-DJ-A3VJ TCGA-DJ-A4V2 TCGA-DO-A1K0 
        9.83        11.93         4.41        17.36         3.09        21.53 
TCGA-E3-A3E1 TCGA-E3-A3E3 TCGA-E8-A418 TCGA-EL-A3CS TCGA-EL-A3GR TCGA-EL-A3GS 
       40.18        30.28         1.48        45.53       102.84        65.39 
TCGA-EL-A3GX TCGA-EL-A3GY TCGA-EL-A3H4 TCGA-EL-A3H8 TCGA-EL-A3T3 TCGA-EL-A3ZK 
      147.75       101.13        38.66       131.15       116.91        31.46 
TCGA-EL-A3ZT TCGA-EM-A1CT TCGA-EM-A1CU TCGA-EM-A22O TCGA-EM-A2OZ TCGA-EM-A2P0 
       44.61        18.18        20.91        11.74        12.07        17.59 
TCGA-EM-A3FK TCGA-EM-A3FO TCGA-ET-A25G TCGA-ET-A25J TCGA-ET-A2MX TCGA-ET-A39T 
       23.77        17.49        47.47        29.69        54.02        59.15 
TCGA-ET-A3BN TCGA-ET-A3BU TCGA-ET-A3BX TCGA-FE-A231 TCGA-FE-A233 TCGA-FE-A236 
       28.24        38.30         4.50        18.97        24.69        66.77 
TCGA-FY-A3BL TCGA-FY-A3I4 TCGA-FY-A3ON TCGA-FY-A3RA TCGA-FY-A4B3 TCGA-H2-A3RI 
        1.15         1.12         1.51         9.14         1.35         2.96 
TCGA-IM-A3ED TCGA-J8-A3NZ TCGA-J8-A3O1 TCGA-J8-A3YE TCGA-KS-A41J TCGA-KS-A4I9 
       30.87         2.24        13.64        27.81        15.68        17.42 

subtype1 subtype2 subtype3 
    0.03     0.39     0.23 
subtype1 subtype2 subtype3 
  158.83   157.15   147.75 
subtype1 subtype2 subtype3 
  12.530   14.650   17.295 
[1] "0.0 - 158.8 (12.5)" "0.4 - 157.2 (14.6)" "0.2 - 147.8 (17.3)"
  [1] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
  [7] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [13] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [19] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [25] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [31] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [67] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [79] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [91] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[127] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[133] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[139] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[151] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[157] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[169] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[193] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[199] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[211] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[217] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
  [1] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
  [7] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [13] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [19] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [25] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [31] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [67] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [79] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [91] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[127] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[133] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[139] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[151] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[157] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[169] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[193] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[199] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[211] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[217] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
  [1] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype2"
  [7] "subtype1" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [13] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype1"
 [19] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
 [25] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [31] "subtype3" "subtype3" "subtype3" "subtype1" "subtype1" "subtype3"
 [37] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype1"
 [43] "subtype2" "subtype2" "subtype1" "subtype3" "subtype1" "subtype2"
 [49] "subtype1" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [55] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
 [61] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
 [67] "subtype2" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype2" "subtype1" "subtype3" "subtype1" "subtype3"
 [79] "subtype1" "subtype2" "subtype2" "subtype1" "subtype1" "subtype3"
 [85] "subtype1" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
 [91] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [97] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[103] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype1"
[109] "subtype2" "subtype2" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype3"
[127] "subtype3" "subtype1" "subtype2" "subtype3" "subtype2" "subtype1"
[133] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype1"
[139] "subtype1" "subtype3" "subtype2" "subtype3" "subtype2" "subtype1"
[145] "subtype1" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
[151] "subtype3" "subtype1" "subtype1" "subtype2" "subtype3" "subtype2"
[157] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[163] "subtype2" "subtype2" "subtype1" "subtype3" "subtype3" "subtype2"
[169] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype2"
[181] "subtype2" "subtype3" "subtype3" "subtype2" "subtype1" "subtype3"
[187] "subtype2" "subtype2" "subtype2" "subtype1" "subtype1" "subtype1"
[193] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype3"
[199] "subtype1" "subtype1" "subtype3" "subtype2" "subtype2" "subtype3"
[205] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
[211] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype1"
[217] "subtype1" "subtype1" "subtype2" "subtype2" "subtype1"
D4V2, continuous
D4V3, binary
          cls
clus        0  1
  subtype1 72 18
  subtype2 52 15
  subtype3 41 25
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   72   18
  subtype2   52   15
  subtype3   41   25
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       72       52       41
  MALE         18       15       25
          vv
clus       OTHER  SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1              1                                            72
  subtype2              0                                            49
  subtype3              2                                            57
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                     13
  subtype2                                                                      2
  subtype3                                                                      1
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   4
  subtype2                                                                  16
  subtype3                                                                   6
D4V4, multiclass
D4V5, binary
          cls
clus        0  1
  subtype1  1 89
  subtype2  5 62
  subtype3  4 62
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   89
  subtype2    5   62
  subtype3    4   62
     clus
vv    subtype1 subtype2 subtype3
  NO         1        5        4
  YES       89       62       62
D4V6, binary
          cls
clus        0  1
  subtype1 80  3
  subtype2 60  2
  subtype3 51  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   80    3
  subtype2   60    2
  subtype3   51    3
     clus
vv    subtype1 subtype2 subtype3
  NO        80       60       51
  YES        3        2        3
          vv
clus       M0 M1 MX
  subtype1 55  1 34
  subtype2 35  1 31
  subtype3 40  2 24
D4V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1           19                       0   70
  subtype2           35                       4   26
  subtype3           21                       5   38
D4V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 45  5  23   9  8
  subtype2 17 12  17  14  7
  subtype3 27 10  14  10  5
D4V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 78  3  0  6
  subtype2 46 12  1  5
  subtype3 53  6  0  2
D4V10, multiclass
D4V11, continuous
D4V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      55        8        19         6         1
  subtype2      31        2        24         9         1
  subtype3      41        6        11         7         1
D4V13, multiclass
D4V14, binary
          cls
clus        0  1
  subtype1 52 38
  subtype2 26 41
  subtype3 25 38
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   52   38
  subtype2   26   41
  subtype3   25   38
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       52       26       25
  UNIFOCAL         38       41       38
D4V15, continuous

Clustering(5) Variable = MIRSEQ_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 78  0
  subtype2 67  0
  subtype3 76  5
subtype1 subtype2 subtype3 
      78       67       81 
subtype1 subtype2 subtype3 
       0        0        5 
$subtype1
TCGA-BJ-A0Z3 TCGA-BJ-A290 TCGA-CE-A3ME TCGA-DE-A0XZ TCGA-DJ-A13P TCGA-DJ-A13T 
       16.34        20.58         0.23        20.22       138.05        24.92 
TCGA-DJ-A13X TCGA-DJ-A2PN TCGA-DJ-A2PQ TCGA-DJ-A2PX TCGA-DJ-A2QA TCGA-DJ-A3UK 
        7.99        10.06        20.48         5.03        12.43         8.25 
TCGA-DJ-A3UN TCGA-DJ-A3UR TCGA-DJ-A3VA TCGA-DJ-A3VE TCGA-DO-A1K0 TCGA-E3-A3DY 
       12.49        23.70        11.93         4.41        21.53        31.07 
TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E3-A3E5 TCGA-EL-A3CP TCGA-EL-A3D1 
       40.18        63.16        30.28        14.04       158.83        74.27 
TCGA-EL-A3GS TCGA-EL-A3GY TCGA-EL-A3H4 TCGA-EL-A3MW TCGA-EL-A3T0 TCGA-EL-A3T7 
       65.39       101.13        38.66       108.66       130.72        41.29 
TCGA-EL-A3T8 TCGA-EL-A3TA TCGA-EL-A3ZT TCGA-EL-A4KH TCGA-EM-A1CV TCGA-EM-A2OX 
       95.38        66.90        44.61        11.87        12.36        19.73 
TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A3AK TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3O7 
       12.07        17.59        15.68        27.95        23.77         7.33 
TCGA-EM-A3O8 TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O TCGA-ET-A2MZ TCGA-ET-A2N4 
       12.53        29.69        32.35        27.09        12.26         2.66 
TCGA-ET-A39J TCGA-ET-A39K TCGA-ET-A39M TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN 
       71.01        72.49        84.89        55.10        59.15        28.24 
TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3DP TCGA-ET-A3DT 
        4.18         2.43        38.30         2.37        56.88        17.98 
TCGA-FE-A230 TCGA-FE-A233 TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A3PC TCGA-FK-A3SB 
       59.70        24.69       102.90        66.77        61.41         4.08 
TCGA-FY-A3BL TCGA-FY-A3ON TCGA-FY-A3R7 TCGA-FY-A3RA TCGA-FY-A40K TCGA-FY-A40N 
        1.15         1.51         0.03         9.14         4.14         0.89 
TCGA-H2-A3RI TCGA-IM-A3ED TCGA-J8-A3O1 TCGA-KS-A4I5 TCGA-KS-A4IB TCGA-MK-A4N9 
        2.96        30.87        13.64         6.71        64.54         8.71 

$subtype2
TCGA-BJ-A0Z9 TCGA-BJ-A0ZH TCGA-BJ-A28R TCGA-BJ-A3PU TCGA-BJ-A45J TCGA-DE-A0Y2 
        8.25        15.12         4.87        10.03         5.06        15.42 
TCGA-DE-A0Y3 TCGA-DJ-A13U TCGA-DJ-A1QN TCGA-DJ-A2PO TCGA-DJ-A2PR TCGA-DJ-A2PU 
       36.46        12.92         8.98         7.96        10.45        10.26 
TCGA-DJ-A2PW TCGA-DJ-A2Q4 TCGA-DJ-A2Q7 TCGA-DJ-A2QC TCGA-DJ-A3UO TCGA-DJ-A3V7 
        7.69         9.44         9.57         9.99        15.78         9.83 
TCGA-DJ-A3VB TCGA-DJ-A4UL TCGA-DJ-A4V2 TCGA-DO-A2HM TCGA-E8-A418 TCGA-EL-A3GV 
       11.21        11.93         3.09         2.30         1.48        50.37 
TCGA-EL-A3GX TCGA-EL-A3H8 TCGA-EL-A3N2 TCGA-EL-A3N3 TCGA-EL-A3T1 TCGA-EL-A3T3 
      147.75       131.15        12.16       147.42       129.57       116.91 
TCGA-EL-A3T6 TCGA-EL-A3ZQ TCGA-EL-A4KG TCGA-EM-A1CT TCGA-EM-A22I TCGA-EM-A22M 
       98.20        45.53        13.32        18.18        14.70        14.50 
TCGA-EM-A22O TCGA-EM-A2P1 TCGA-EM-A3FM TCGA-EM-A3FO TCGA-EM-A3O3 TCGA-EM-A4FQ 
       11.74        17.46        21.01        17.49        14.50         9.80 
TCGA-EM-A4FV TCGA-ET-A25G TCGA-ET-A2MX TCGA-ET-A2MY TCGA-ET-A39O TCGA-ET-A3BO 
       12.72        47.47        54.02        22.09        61.02         5.82 
TCGA-ET-A3BS TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DW TCGA-FE-A231 TCGA-FE-A232 
        5.52         4.50        80.81        24.69        18.97        44.25 
TCGA-FE-A234 TCGA-FE-A23A TCGA-FY-A3R8 TCGA-H2-A421 TCGA-IM-A3EB TCGA-IM-A3U3 
       55.79        69.40         4.64         2.20        35.18         3.25 
TCGA-J8-A3NZ TCGA-J8-A3YE TCGA-KS-A41J TCGA-KS-A4I9 TCGA-KS-A4ID TCGA-L6-A4EP 
        2.24        27.81        15.68        17.42        20.48         0.59 
TCGA-L6-A4ET 
        1.12 

$subtype3
TCGA-BJ-A0ZB TCGA-BJ-A28X TCGA-BJ-A2NA TCGA-BJ-A3PR TCGA-BJ-A4O8 TCGA-BJ-A4O9 
        4.01        17.49         2.10         8.02         4.93         5.95 
TCGA-DJ-A13O TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QH TCGA-DJ-A1QI 
        7.07        10.98        99.98        18.05         7.99        15.02 
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-A2Q3 TCGA-DJ-A2Q5 TCGA-DJ-A2Q6 TCGA-DJ-A2Q9 
        8.78         8.42         9.21         9.90         8.61        10.36 
TCGA-DJ-A3UM TCGA-DJ-A3UQ TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3UX TCGA-DJ-A3UY 
       17.23         9.11        17.69        43.00        11.34        13.32 
TCGA-DJ-A3VF TCGA-DJ-A3VJ TCGA-DJ-A4UW TCGA-DJ-A4V4 TCGA-E8-A242 TCGA-E8-A2EA 
        7.73        17.36         9.44         3.35         1.12        22.29 
TCGA-E8-A413 TCGA-E8-A415 TCGA-E8-A433 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A44K 
        0.33         0.16         0.16         1.15         7.69         0.39 
TCGA-EL-A3CM TCGA-EL-A3CN TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CU TCGA-EL-A3CV 
       26.73       130.03         7.66        45.53       157.15        37.94 
TCGA-EL-A3GP TCGA-EL-A3GQ TCGA-EL-A3GR TCGA-EL-A3GU TCGA-EL-A3H5 TCGA-EL-A3H7 
        1.41        30.18       102.84       124.04        52.73       126.97 
TCGA-EL-A3MY TCGA-EL-A3MZ TCGA-EL-A3ZK TCGA-EL-A4K4 TCGA-EM-A1CU TCGA-EM-A22P 
       17.49        52.47        31.46        33.60        20.91        11.15 
TCGA-EM-A2P3 TCGA-EM-A3AR TCGA-EM-A4FM TCGA-EM-A4FO TCGA-ET-A25R TCGA-ET-A2N0 
       14.60        16.77         4.80         8.35        20.42        16.08 
TCGA-ET-A39P TCGA-ET-A3BT TCGA-ET-A3BV TCGA-ET-A3DU TCGA-FE-A22Z TCGA-FE-A237 
       58.72        24.72        42.21        25.32        59.15        81.34 
TCGA-FE-A3PB TCGA-FK-A3SH TCGA-FY-A3I4 TCGA-FY-A4B3 TCGA-GE-A2C6 TCGA-H2-A26U 
       85.12        48.10         1.12         1.35        12.53        10.98 
TCGA-IM-A3U2 TCGA-L6-A4EU TCGA-MK-A4N6 
        2.63         0.72        16.60 

subtype1 subtype2 subtype3 
    0.03     0.59     0.16 
subtype1 subtype2 subtype3 
  158.83   147.75   157.15 
subtype1 subtype2 subtype3 
  21.055   14.500   11.150 
[1] "0.0 - 158.8 (21.1)" "0.6 - 147.8 (14.5)" "0.2 - 157.2 (11.2)"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
  [7] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [55] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [67] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
 [73] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [97] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[103] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[109] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[127] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[151] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[157] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[181] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[187] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[193] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[205] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[217] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[223] "subtype2" "subtype3" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
  [7] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [55] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [67] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
 [73] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [97] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[103] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[109] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[127] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[151] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[157] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[181] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[187] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[193] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[205] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[217] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[223] "subtype2" "subtype3" "subtype3" "subtype1"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
  [7] "subtype1" "subtype3" "subtype3" "subtype2" "subtype2" "subtype3"
 [13] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype3"
 [19] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [31] "subtype3" "subtype1" "subtype2" "subtype1" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype3" "subtype3" "subtype2"
 [49] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
 [55] "subtype2" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [67] "subtype3" "subtype2" "subtype3" "subtype2" "subtype3" "subtype1"
 [73] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [97] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[103] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype1"
[109] "subtype3" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[115] "subtype2" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
[121] "subtype2" "subtype1" "subtype3" "subtype2" "subtype1" "subtype2"
[127] "subtype3" "subtype1" "subtype2" "subtype2" "subtype2" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[139] "subtype3" "subtype1" "subtype1" "subtype2" "subtype2" "subtype2"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype2" "subtype2"
[151] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype2"
[157] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[163] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype2" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[175] "subtype3" "subtype1" "subtype2" "subtype2" "subtype1" "subtype1"
[181] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[187] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[193] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype1" "subtype2" "subtype1" "subtype1" "subtype1"
[205] "subtype3" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype1" "subtype3" "subtype2" "subtype2" "subtype1" "subtype2"
[217] "subtype2" "subtype1" "subtype2" "subtype1" "subtype2" "subtype2"
[223] "subtype2" "subtype3" "subtype3" "subtype1"
D5V2, continuous
D5V3, binary
          cls
clus        0  1
  subtype1 60 18
  subtype2 47 22
  subtype3 61 20
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   60   18
  subtype2   47   22
  subtype3   61   20
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       60       47       61
  MALE         18       22       20
          vv
clus       OTHER  SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1              1                                            66
  subtype2              0                                            56
  subtype3              2                                            61
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                     10
  subtype2                                                                      3
  subtype3                                                                      3
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   1
  subtype2                                                                  10
  subtype3                                                                  15
D5V4, multiclass
D5V5, binary
          cls
clus        0  1
  subtype1  5 73
  subtype2  4 65
  subtype3  2 79
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5   73
  subtype2    4   65
  subtype3    2   79
     clus
vv    subtype1 subtype2 subtype3
  NO         5        4        2
  YES       73       65       79
D5V6, binary
          cls
clus        0  1
  subtype1 67  3
  subtype2 59  2
  subtype3 70  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   67    3
  subtype2   59    2
  subtype3   70    3
     clus
vv    subtype1 subtype2 subtype3
  NO        67       59       70
  YES        3        2        3
          vv
clus       M0 M1 MX
  subtype1 35  1 42
  subtype2 37  2 30
  subtype3 59  1 21
D5V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1           15                       1   61
  subtype2           24                       2   40
  subtype3           36                       6   38
D5V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 33 10  17   8 10
  subtype2 28  9  18   8  6
  subtype3 31  8  20  17  5
D5V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 68  1  0  5
  subtype2 56  5  0  4
  subtype3 57 16  1  4
D5V10, multiclass
D5V11, continuous
D5V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      56        5        12         4         0
  subtype2      38        6        16         7         2
  subtype3      37        5        27        11         1
D5V13, multiclass
D5V14, binary
          cls
clus        0  1
  subtype1 41 36
  subtype2 27 40
  subtype3 36 45
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   41   36
  subtype2   27   40
  subtype3   36   45
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       41       27       36
  UNIFOCAL         36       40       45
D5V15, continuous

Clustering(6) Variable = MIRSEQ_CHIERARCHICAL
D6V1, survival
          sevent
clus2        0   1
  subtype1  29   0
  subtype2 104   0
  subtype3  88   5
subtype1 subtype2 subtype3 
      29      104       93 
subtype1 subtype2 subtype3 
       0        0        5 
$subtype1
TCGA-BJ-A2NA TCGA-BJ-A3PR TCGA-BJ-A3PU TCGA-DJ-A1QO TCGA-DJ-A2PW TCGA-DJ-A3VB 
        2.10         8.02        10.03         1.02         7.69        11.21 
TCGA-DJ-A4V2 TCGA-E8-A242 TCGA-EL-A3CN TCGA-EL-A3H7 TCGA-EL-A3N3 TCGA-EL-A3T1 
        3.09         1.12       130.03       126.97       147.42       129.57 
TCGA-EL-A4KG TCGA-EM-A22I TCGA-EM-A22M TCGA-EM-A2P1 TCGA-EM-A3FM TCGA-EM-A4FQ 
       13.32        14.70        14.50        17.46        21.01         9.80 
TCGA-ET-A25G TCGA-ET-A2MY TCGA-ET-A39O TCGA-ET-A3DO TCGA-FE-A234 TCGA-FY-A3R8 
       47.47        22.09        61.02        80.81        55.79         4.64 
TCGA-H2-A421 TCGA-IM-A3EB TCGA-IM-A3U3 TCGA-J8-A3NZ TCGA-MK-A4N6 
        2.20        35.18         3.25         2.24        16.60 

$subtype2
TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 TCGA-BJ-A0ZH TCGA-BJ-A28R TCGA-BJ-A290 TCGA-BJ-A45J 
       16.34         8.25        15.12         4.87        20.58         5.06 
TCGA-CE-A3ME TCGA-DE-A0XZ TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13P TCGA-DJ-A13T 
        0.23        20.22        15.42        36.46       138.05        24.92 
TCGA-DJ-A13U TCGA-DJ-A13X TCGA-DJ-A1QN TCGA-DJ-A2PO TCGA-DJ-A2PQ TCGA-DJ-A2PR 
       12.92         7.99         8.98         7.96        20.48        10.45 
TCGA-DJ-A2PU TCGA-DJ-A2PX TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q7 TCGA-DJ-A2QC 
       10.26         5.03         9.44         9.90         9.57         9.99 
TCGA-DJ-A3UK TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UR TCGA-DJ-A3V7 TCGA-DJ-A3VA 
        8.25        12.49        15.78        23.70         9.83        11.93 
TCGA-DJ-A3VE TCGA-DJ-A4UL TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E2 TCGA-E3-A3E3 
        4.41        11.93        21.53        31.07        63.16        30.28 
TCGA-E3-A3E5 TCGA-E8-A418 TCGA-EL-A3GS TCGA-EL-A3GV TCGA-EL-A3GX TCGA-EL-A3GY 
       14.04         1.48        65.39        50.37       147.75       101.13 
TCGA-EL-A3H4 TCGA-EL-A3H8 TCGA-EL-A3MW TCGA-EL-A3N2 TCGA-EL-A3T3 TCGA-EL-A3T6 
       38.66       131.15       108.66        12.16       116.91        98.20 
TCGA-EL-A3T7 TCGA-EL-A3T8 TCGA-EL-A3ZQ TCGA-EL-A3ZT TCGA-EL-A4KH TCGA-EM-A1CT 
       41.29        95.38        45.53        44.61        11.87        18.18 
TCGA-EM-A1CV TCGA-EM-A22O TCGA-EM-A2OZ TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FO 
       12.36        11.74        12.07        27.95        23.77        17.49 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A4FV TCGA-ET-A25J TCGA-ET-A25O TCGA-ET-A25R 
        7.33        12.53        12.72        29.69        27.09        20.42 
TCGA-ET-A2MX TCGA-ET-A2MZ TCGA-ET-A2N4 TCGA-ET-A39K TCGA-ET-A39M TCGA-ET-A39T 
       54.02        12.26         2.66        72.49        84.89        59.15 
TCGA-ET-A3BO TCGA-ET-A3BP TCGA-ET-A3BQ TCGA-ET-A3BS TCGA-ET-A3BW TCGA-ET-A3BX 
        5.82         4.18         2.43         5.52         2.37         4.50 
TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DW TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 
       17.98        25.32        24.69        59.70        18.97        44.25 
TCGA-FE-A233 TCGA-FE-A236 TCGA-FE-A23A TCGA-FE-A3PC TCGA-FK-A3SB TCGA-FY-A3BL 
       24.69        66.77        69.40        61.41         4.08         1.15 
TCGA-FY-A3ON TCGA-FY-A3RA TCGA-FY-A40N TCGA-H2-A3RI TCGA-IM-A3ED TCGA-J8-A3O1 
        1.51         9.14         0.89         2.96        30.87        13.64 
TCGA-J8-A3YE TCGA-KS-A41J TCGA-KS-A4I9 TCGA-KS-A4IB TCGA-KS-A4ID TCGA-L6-A4EP 
       27.81        15.68        17.42        64.54        20.48         0.59 
TCGA-L6-A4ET TCGA-MK-A4N9 
        1.12         8.71 

$subtype3
TCGA-BJ-A0ZB TCGA-BJ-A28X TCGA-BJ-A4O8 TCGA-BJ-A4O9 TCGA-DJ-A13O TCGA-DJ-A1QD 
        4.01        17.49         4.93         5.95         7.07        10.98 
TCGA-DJ-A1QE TCGA-DJ-A1QF TCGA-DJ-A1QH TCGA-DJ-A1QI TCGA-DJ-A1QM TCGA-DJ-A1QQ 
       99.98        18.05         7.99        15.02         0.99         5.95 
TCGA-DJ-A2PN TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PV TCGA-DJ-A2PY TCGA-DJ-A2PZ 
       10.06         1.94         9.60         7.96         8.78         8.42 
TCGA-DJ-A2Q3 TCGA-DJ-A2Q6 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A3UM TCGA-DJ-A3UQ 
        9.21         8.61        10.36        12.43        17.23         9.11 
TCGA-DJ-A3UU TCGA-DJ-A3UW TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3VF TCGA-DJ-A3VJ 
       17.69        43.00        11.34        13.32         7.73        17.36 
TCGA-DJ-A4UW TCGA-DJ-A4V4 TCGA-DO-A2HM TCGA-E3-A3E1 TCGA-E8-A2EA TCGA-E8-A413 
        9.44         3.35         2.30        40.18        22.29         0.33 
TCGA-E8-A415 TCGA-E8-A433 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A44K TCGA-EL-A3CM 
        0.16         0.16         1.15         7.69         0.39        26.73 
TCGA-EL-A3CP TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3D1 
      158.83         7.66        45.53       157.15        37.94        74.27 
TCGA-EL-A3GP TCGA-EL-A3GQ TCGA-EL-A3GR TCGA-EL-A3GU TCGA-EL-A3H5 TCGA-EL-A3MY 
        1.41        30.18       102.84       124.04        52.73        17.49 
TCGA-EL-A3MZ TCGA-EL-A3T0 TCGA-EL-A3TA TCGA-EL-A3ZK TCGA-EL-A4K4 TCGA-EM-A1CU 
       52.47       130.72        66.90        31.46        33.60        20.91 
TCGA-EM-A22P TCGA-EM-A2OX TCGA-EM-A2P0 TCGA-EM-A2P3 TCGA-EM-A3AK TCGA-EM-A3AR 
       11.15        19.73        17.59        14.60        15.68        16.77 
TCGA-EM-A3O3 TCGA-EM-A4FM TCGA-EM-A4FO TCGA-ET-A25K TCGA-ET-A2N0 TCGA-ET-A39J 
       14.50         4.80         8.35        32.35        16.08        71.01 
TCGA-ET-A39P TCGA-ET-A39S TCGA-ET-A3BN TCGA-ET-A3BT TCGA-ET-A3BU TCGA-ET-A3BV 
       58.72        55.10        28.24        24.72        38.30        42.21 
TCGA-ET-A3DP TCGA-FE-A22Z TCGA-FE-A235 TCGA-FE-A237 TCGA-FE-A3PB TCGA-FK-A3SH 
       56.88        59.15       102.90        81.34        85.12        48.10 
TCGA-FY-A3I4 TCGA-FY-A3R7 TCGA-FY-A40K TCGA-FY-A4B3 TCGA-GE-A2C6 TCGA-H2-A26U 
        1.12         0.03         4.14         1.35        12.53        10.98 
TCGA-IM-A3U2 TCGA-KS-A4I5 TCGA-L6-A4EU 
        2.63         6.71         0.72 

subtype1 subtype2 subtype3 
    1.02     0.23     0.03 
subtype1 subtype2 subtype3 
  147.42   147.75   158.83 
subtype1 subtype2 subtype3 
   14.50    15.73    14.60 
[1] "1.0 - 147.4 (14.5)" "0.2 - 147.8 (15.7)" "0.0 - 158.8 (14.6)"
  [1] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
 [31] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [55] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [73] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[109] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[133] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[151] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[163] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[169] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[175] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[193] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[199] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[205] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[211] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype3" "subtype1" "subtype2"
  [1] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
 [31] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [55] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [73] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[109] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[133] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[151] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[163] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[169] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[175] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[193] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[199] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[205] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[211] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype3" "subtype1" "subtype2"
  [1] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype3"
  [7] "subtype2" "subtype1" "subtype1" "subtype1" "subtype2" "subtype3"
 [13] "subtype3" "subtype2" "subtype2" "subtype2" "subtype2" "subtype3"
 [19] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
 [25] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype1"
 [31] "subtype3" "subtype3" "subtype2" "subtype2" "subtype2" "subtype3"
 [37] "subtype3" "subtype2" "subtype3" "subtype1" "subtype2" "subtype3"
 [43] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [49] "subtype3" "subtype3" "subtype2" "subtype2" "subtype3" "subtype2"
 [55] "subtype2" "subtype3" "subtype2" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
 [67] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype2"
 [73] "subtype3" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
 [79] "subtype1" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype3"
 [97] "subtype3" "subtype3" "subtype2" "subtype3" "subtype2" "subtype2"
[103] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[109] "subtype3" "subtype3" "subtype2" "subtype1" "subtype3" "subtype1"
[115] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[121] "subtype2" "subtype2" "subtype3" "subtype1" "subtype2" "subtype2"
[127] "subtype3" "subtype2" "subtype1" "subtype1" "subtype2" "subtype3"
[133] "subtype3" "subtype2" "subtype3" "subtype1" "subtype3" "subtype3"
[139] "subtype3" "subtype2" "subtype2" "subtype1" "subtype2" "subtype3"
[145] "subtype2" "subtype2" "subtype3" "subtype3" "subtype1" "subtype2"
[151] "subtype1" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[157] "subtype1" "subtype2" "subtype3" "subtype2" "subtype3" "subtype2"
[163] "subtype2" "subtype1" "subtype3" "subtype3" "subtype2" "subtype3"
[169] "subtype2" "subtype2" "subtype2" "subtype2" "subtype3" "subtype3"
[175] "subtype3" "subtype2" "subtype2" "subtype1" "subtype3" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype2"
[187] "subtype2" "subtype1" "subtype3" "subtype2" "subtype3" "subtype2"
[193] "subtype3" "subtype2" "subtype2" "subtype3" "subtype2" "subtype3"
[199] "subtype2" "subtype3" "subtype1" "subtype2" "subtype3" "subtype2"
[205] "subtype3" "subtype3" "subtype3" "subtype2" "subtype1" "subtype1"
[211] "subtype2" "subtype3" "subtype1" "subtype1" "subtype2" "subtype2"
[217] "subtype2" "subtype3" "subtype2" "subtype2" "subtype2" "subtype2"
[223] "subtype2" "subtype3" "subtype1" "subtype2"
D6V2, continuous
D6V3, binary
          cls
clus        0  1
  subtype1 20 10
  subtype2 77 28
  subtype3 71 22
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   20   10
  subtype2   77   28
  subtype3   71   22
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       20       77       71
  MALE         10       28       22
          vv
clus       OTHER  SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1              0                                            24
  subtype2              1                                            86
  subtype3              2                                            73
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                      1
  subtype2                                                                     10
  subtype3                                                                      5
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   5
  subtype2                                                                   8
  subtype3                                                                  13
D6V4, multiclass
D6V5, binary
          cls
clus        0  1
  subtype1  1 29
  subtype2  7 98
  subtype3  3 90
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   29
  subtype2    7   98
  subtype3    3   90
     clus
vv    subtype1 subtype2 subtype3
  NO         1        7        3
  YES       29       98       90
D6V6, binary
          cls
clus        0  1
  subtype1 29  0
  subtype2 87  5
  subtype3 80  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   29    0
  subtype2   87    5
  subtype3   80    3
     clus
vv    subtype1 subtype2 subtype3
  NO        29       87       80
  YES        0        5        3
          vv
clus       M0 M1 MX
  subtype1 16  0 14
  subtype2 55  3 47
  subtype3 60  1 32
D6V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1           15                       0   14
  subtype2           27                       3   71
  subtype3           33                       6   54
D6V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 13  4   6   3  4
  subtype2 45 14  26  11  9
  subtype3 34  9  23  19  8
D6V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 24  3  1  1
  subtype2 87  6  0  6
  subtype3 70 13  0  6
D6V10, multiclass
D6V11, continuous
D6V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      17        2        10         1         0
  subtype2      67       10        18         8         2
  subtype3      47        4        27        13         1
D6V13, multiclass
D6V14, binary
          cls
clus        0  1
  subtype1 12 18
  subtype2 46 56
  subtype3 46 47
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   12   18
  subtype2   46   56
  subtype3   46   47
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       12       46       46
  UNIFOCAL         18       56       47
D6V15, continuous

Clustering(7) Variable = MIRSEQ_MATURE_CNMF
D7V1, survival
          sevent
clus2       0  1
  subtype1 65  0
  subtype2 39  0
  subtype3 57  5
  subtype4 60  0
subtype1 subtype2 subtype3 subtype4 
      65       39       62       60 
subtype1 subtype2 subtype3 subtype4 
       0        0        5        0 
$subtype1
TCGA-BJ-A0Z3 TCGA-BJ-A28R TCGA-CE-A3ME TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13P 
       16.34         4.87         0.23        15.42        36.46       138.05 
TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13X TCGA-DJ-A1QF TCGA-DJ-A1QI TCGA-DJ-A1QN 
       24.92        12.92         7.99        18.05        15.02         8.98 
TCGA-DJ-A2PN TCGA-DJ-A3VA TCGA-DJ-A3VE TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E1 
       10.06        11.93         4.41        21.53        31.07        40.18 
TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E3-A3E5 TCGA-EL-A3CP TCGA-EL-A3D1 TCGA-EL-A3GS 
       63.16        30.28        14.04       158.83        74.27        65.39 
TCGA-EL-A3GY TCGA-EL-A3H4 TCGA-EL-A3MW TCGA-EL-A3N2 TCGA-EL-A3ZT TCGA-EM-A1CU 
      101.13        38.66       108.66        12.16        44.61        20.91 
TCGA-EM-A1CV TCGA-EM-A2OX TCGA-EM-A2OZ TCGA-EM-A2P0 TCGA-EM-A3AK TCGA-EM-A3AR 
       12.36        19.73        12.07        17.59        15.68        16.77 
TCGA-EM-A3FK TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-ET-A25J TCGA-ET-A25K TCGA-ET-A25O 
       23.77         7.33        12.53        29.69        32.35        27.09 
TCGA-ET-A25R TCGA-ET-A2MX TCGA-ET-A2MZ TCGA-ET-A2N4 TCGA-ET-A39K TCGA-ET-A39M 
       20.42        54.02        12.26         2.66        72.49        84.89 
TCGA-ET-A39S TCGA-ET-A39T TCGA-ET-A3BN TCGA-ET-A3BQ TCGA-ET-A3BW TCGA-FE-A232 
       55.10        59.15        28.24         2.43         2.37        44.25 
TCGA-FE-A233 TCGA-FE-A235 TCGA-FE-A236 TCGA-FE-A3PC TCGA-FY-A3BL TCGA-FY-A3ON 
       24.69       102.90        66.77        61.41         1.15         1.51 
TCGA-FY-A3R7 TCGA-FY-A3RA TCGA-H2-A3RI TCGA-IM-A3ED TCGA-J8-A3O1 
        0.03         9.14         2.96        30.87        13.64 

$subtype2
TCGA-BJ-A0Z9 TCGA-BJ-A0ZH TCGA-BJ-A3PU TCGA-DJ-A1QO TCGA-DJ-A2PR TCGA-DJ-A3UW 
        8.25        15.12        10.03         1.02        10.45        43.00 
TCGA-DJ-A3V7 TCGA-DJ-A3VB TCGA-DO-A2HM TCGA-E8-A418 TCGA-EL-A3CN TCGA-EL-A3GV 
        9.83        11.21         2.30         1.48       130.03        50.37 
TCGA-EL-A3GX TCGA-EL-A3N3 TCGA-EL-A3T1 TCGA-EL-A3T6 TCGA-EL-A4KG TCGA-EM-A1CT 
      147.75       147.42       129.57        98.20        13.32        18.18 
TCGA-EM-A22M TCGA-EM-A2P1 TCGA-EM-A3FM TCGA-EM-A3O3 TCGA-ET-A25G TCGA-ET-A39O 
       14.50        17.46        21.01        14.50        47.47        61.02 
TCGA-ET-A3BS TCGA-ET-A3BX TCGA-ET-A3DO TCGA-ET-A3DT TCGA-ET-A3DU TCGA-ET-A3DW 
        5.52         4.50        80.81        17.98        25.32        24.69 
TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A234 TCGA-FE-A23A TCGA-H2-A421 TCGA-IM-A3EB 
       59.70        18.97        55.79        69.40         2.20        35.18 
TCGA-KS-A41J TCGA-KS-A4I9 TCGA-KS-A4ID 
       15.68        17.42        20.48 

$subtype3
TCGA-BJ-A0ZB TCGA-BJ-A28X TCGA-BJ-A2NA TCGA-BJ-A3PR TCGA-BJ-A4O8 TCGA-DJ-A13O 
        4.01        17.49         2.10         8.02         4.93         7.07 
TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QH TCGA-DJ-A1QM TCGA-DJ-A1QQ TCGA-DJ-A2PT 
       10.98        99.98         7.99         0.99         5.95         9.60 
TCGA-DJ-A2PY TCGA-DJ-A2Q3 TCGA-DJ-A2Q6 TCGA-DJ-A2Q9 TCGA-DJ-A3UM TCGA-DJ-A3UQ 
        8.78         9.21         8.61        10.36        17.23         9.11 
TCGA-DJ-A3UU TCGA-DJ-A3UY TCGA-DJ-A3VF TCGA-DJ-A3VJ TCGA-DJ-A4V4 TCGA-E8-A242 
       17.69        13.32         7.73        17.36         3.35         1.12 
TCGA-E8-A2EA TCGA-E8-A413 TCGA-E8-A415 TCGA-E8-A433 TCGA-E8-A436 TCGA-E8-A44K 
       22.29         0.33         0.16         0.16         1.15         0.39 
TCGA-EL-A3CM TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3GP 
       26.73         7.66        45.53       157.15        37.94         1.41 
TCGA-EL-A3GQ TCGA-EL-A3GR TCGA-EL-A3GU TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MY 
       30.18       102.84       124.04        52.73       126.97        17.49 
TCGA-EL-A3MZ TCGA-EL-A3ZK TCGA-EL-A4K4 TCGA-EM-A22P TCGA-EM-A2P3 TCGA-EM-A4FM 
       52.47        31.46        33.60        11.15        14.60         4.80 
TCGA-EM-A4FO TCGA-ET-A39P TCGA-ET-A3BT TCGA-ET-A3BV TCGA-FE-A22Z TCGA-FE-A237 
        8.35        58.72        24.72        42.21        59.15        81.34 
TCGA-FE-A3PB TCGA-FY-A3I4 TCGA-FY-A3R8 TCGA-FY-A40K TCGA-GE-A2C6 TCGA-H2-A26U 
       85.12         1.12         4.64         4.14        12.53        10.98 
TCGA-IM-A3U2 TCGA-L6-A4EU 
        2.63         0.72 

$subtype4
TCGA-BJ-A290 TCGA-BJ-A45J TCGA-BJ-A4O9 TCGA-DE-A0XZ TCGA-DJ-A2PO TCGA-DJ-A2PQ 
       20.58         5.06         5.95        20.22         7.96        20.48 
TCGA-DJ-A2PS TCGA-DJ-A2PU TCGA-DJ-A2PV TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2PZ 
        1.94        10.26         7.96         7.69         5.03         8.42 
TCGA-DJ-A2Q4 TCGA-DJ-A2Q5 TCGA-DJ-A2Q7 TCGA-DJ-A2QA TCGA-DJ-A2QC TCGA-DJ-A3UK 
        9.44         9.90         9.57        12.43         9.99         8.25 
TCGA-DJ-A3UN TCGA-DJ-A3UO TCGA-DJ-A3UR TCGA-DJ-A3UX TCGA-DJ-A4UL TCGA-DJ-A4UW 
       12.49        15.78        23.70        11.34        11.93         9.44 
TCGA-DJ-A4V2 TCGA-E8-A437 TCGA-EL-A3H8 TCGA-EL-A3T0 TCGA-EL-A3T3 TCGA-EL-A3T7 
        3.09         7.69       131.15       130.72       116.91        41.29 
TCGA-EL-A3T8 TCGA-EL-A3TA TCGA-EL-A3ZQ TCGA-EL-A4KH TCGA-EM-A22I TCGA-EM-A22O 
       95.38        66.90        45.53        11.87        14.70        11.74 
TCGA-EM-A3FJ TCGA-EM-A3FO TCGA-EM-A4FQ TCGA-EM-A4FV TCGA-ET-A2MY TCGA-ET-A2N0 
       27.95        17.49         9.80        12.72        22.09        16.08 
TCGA-ET-A39J TCGA-ET-A3BO TCGA-ET-A3BP TCGA-ET-A3BU TCGA-ET-A3DP TCGA-FK-A3SB 
       71.01         5.82         4.18        38.30        56.88         4.08 
TCGA-FK-A3SH TCGA-FY-A40N TCGA-FY-A4B3 TCGA-IM-A3U3 TCGA-J8-A3NZ TCGA-J8-A3YE 
       48.10         0.89         1.35         3.25         2.24        27.81 
TCGA-KS-A4I5 TCGA-KS-A4IB TCGA-L6-A4EP TCGA-L6-A4ET TCGA-MK-A4N6 TCGA-MK-A4N9 
        6.71        64.54         0.59         1.12        16.60         8.71 

subtype1 subtype2 subtype3 subtype4 
    0.03     1.02     0.16     0.59 
subtype1 subtype2 subtype3 subtype4 
  158.83   147.75   157.15   131.15 
subtype1 subtype2 subtype3 subtype4 
   20.42    18.18    10.67    11.54 
[1] "0.0 - 158.8 (20.4)" "1.0 - 147.8 (18.2)" "0.2 - 157.2 (10.7)"
[4] "0.6 - 131.2 (11.5)"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
  [7] "subtype4" "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
 [13] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [31] "subtype3" "subtype1" "subtype4" "subtype4" "subtype2" "subtype4"
 [37] "subtype3" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
 [43] "subtype4" "subtype3" "subtype4" "subtype4" "subtype3" "subtype4"
 [49] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype4"
 [55] "subtype4" "subtype3" "subtype4" "subtype3" "subtype2" "subtype4"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [67] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype1"
 [73] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [85] "subtype3" "subtype4" "subtype3" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [97] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[103] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
[109] "subtype3" "subtype3" "subtype1" "subtype2" "subtype4" "subtype2"
[115] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype3"
[121] "subtype4" "subtype1" "subtype3" "subtype2" "subtype4" "subtype2"
[127] "subtype1" "subtype1" "subtype4" "subtype2" "subtype4" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[139] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype4"
[151] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype1"
[163] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype4" "subtype4" "subtype1" "subtype2" "subtype3" "subtype4"
[175] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[187] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[193] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype3"
[199] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype4"
[205] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype1" "subtype3" "subtype4" "subtype4" "subtype1" "subtype4"
[217] "subtype2" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
[223] "subtype4" "subtype3" "subtype4" "subtype4"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
  [7] "subtype4" "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
 [13] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [31] "subtype3" "subtype1" "subtype4" "subtype4" "subtype2" "subtype4"
 [37] "subtype3" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
 [43] "subtype4" "subtype3" "subtype4" "subtype4" "subtype3" "subtype4"
 [49] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype4"
 [55] "subtype4" "subtype3" "subtype4" "subtype3" "subtype2" "subtype4"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [67] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype1"
 [73] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [85] "subtype3" "subtype4" "subtype3" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [97] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[103] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
[109] "subtype3" "subtype3" "subtype1" "subtype2" "subtype4" "subtype2"
[115] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype3"
[121] "subtype4" "subtype1" "subtype3" "subtype2" "subtype4" "subtype2"
[127] "subtype1" "subtype1" "subtype4" "subtype2" "subtype4" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[139] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype4"
[151] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype1"
[163] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype4" "subtype4" "subtype1" "subtype2" "subtype3" "subtype4"
[175] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[187] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[193] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype3"
[199] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype4"
[205] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype1" "subtype3" "subtype4" "subtype4" "subtype1" "subtype4"
[217] "subtype2" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
[223] "subtype4" "subtype3" "subtype4" "subtype4"
  [1] "subtype1" "subtype2" "subtype3" "subtype2" "subtype1" "subtype3"
  [7] "subtype4" "subtype3" "subtype3" "subtype2" "subtype4" "subtype3"
 [13] "subtype4" "subtype1" "subtype4" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [25] "subtype1" "subtype3" "subtype1" "subtype3" "subtype1" "subtype2"
 [31] "subtype3" "subtype1" "subtype4" "subtype4" "subtype2" "subtype4"
 [37] "subtype3" "subtype4" "subtype4" "subtype4" "subtype4" "subtype3"
 [43] "subtype4" "subtype3" "subtype4" "subtype4" "subtype3" "subtype4"
 [49] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype4"
 [55] "subtype4" "subtype3" "subtype4" "subtype3" "subtype2" "subtype4"
 [61] "subtype3" "subtype2" "subtype1" "subtype2" "subtype1" "subtype3"
 [67] "subtype3" "subtype4" "subtype4" "subtype4" "subtype3" "subtype1"
 [73] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [85] "subtype3" "subtype4" "subtype3" "subtype3" "subtype2" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [97] "subtype3" "subtype3" "subtype1" "subtype3" "subtype2" "subtype2"
[103] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype1"
[109] "subtype3" "subtype3" "subtype1" "subtype2" "subtype4" "subtype2"
[115] "subtype4" "subtype2" "subtype4" "subtype4" "subtype4" "subtype3"
[121] "subtype4" "subtype1" "subtype3" "subtype2" "subtype4" "subtype2"
[127] "subtype1" "subtype1" "subtype4" "subtype2" "subtype4" "subtype3"
[133] "subtype1" "subtype1" "subtype1" "subtype2" "subtype3" "subtype1"
[139] "subtype1" "subtype4" "subtype1" "subtype2" "subtype4" "subtype2"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype4" "subtype4"
[151] "subtype2" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
[157] "subtype4" "subtype1" "subtype4" "subtype1" "subtype4" "subtype1"
[163] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[169] "subtype4" "subtype4" "subtype1" "subtype2" "subtype3" "subtype4"
[175] "subtype3" "subtype1" "subtype2" "subtype2" "subtype4" "subtype2"
[181] "subtype2" "subtype2" "subtype3" "subtype2" "subtype2" "subtype1"
[187] "subtype1" "subtype2" "subtype1" "subtype1" "subtype3" "subtype2"
[193] "subtype3" "subtype1" "subtype4" "subtype4" "subtype1" "subtype3"
[199] "subtype1" "subtype1" "subtype3" "subtype1" "subtype3" "subtype4"
[205] "subtype4" "subtype3" "subtype3" "subtype1" "subtype2" "subtype2"
[211] "subtype1" "subtype3" "subtype4" "subtype4" "subtype1" "subtype4"
[217] "subtype2" "subtype4" "subtype2" "subtype4" "subtype2" "subtype4"
[223] "subtype4" "subtype3" "subtype4" "subtype4"
D7V2, continuous
D7V3, binary
          cls
clus        0  1
  subtype1 48 17
  subtype2 26 14
  subtype3 49 13
  subtype4 45 16
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   48   17
  subtype2   26   14
  subtype3   49   13
  subtype4   45   16
        clus
vv       subtype1 subtype2 subtype3 subtype4
  FEMALE       48       26       49       45
  MALE         17       14       13       16
          vv
clus       OTHER  SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1              1                                            57
  subtype2              0                                            31
  subtype3              1                                            46
  subtype4              1                                            49
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                      6
  subtype2                                                                      1
  subtype3                                                                      3
  subtype4                                                                      6
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   1
  subtype2                                                                   8
  subtype3                                                                  12
  subtype4                                                                   5
D7V4, multiclass
D7V5, binary
          cls
clus        0  1
  subtype1  5 60
  subtype2  4 36
  subtype3  2 60
  subtype4  0 61
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    5   60
  subtype2    4   36
  subtype3    2   60
  subtype4    0   61
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         5        4        2        0
  YES       60       36       60       61
D7V6, binary
          cls
clus        0  1
  subtype1 52  3
  subtype2 35  2
  subtype3 53  3
  subtype4 56  0
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   52    3
  subtype2   35    2
  subtype3   53    3
  subtype4   56    0
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        52       35       53       56
  YES        3        2        3        0
          vv
clus       M0 M1 MX
  subtype1 27  2 36
  subtype2 19  0 21
  subtype3 44  1 17
  subtype4 41  1 19
D7V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1           14                       1   48
  subtype2           15                       1   24
  subtype3           30                       6   26
  subtype4           16                       1   41
D7V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 28  8  12   7 10
  subtype2 16  5  11   6  2
  subtype3 23  8  13  14  4
  subtype4 25  6  19   6  5
D7V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 53  2  0  5
  subtype2 32  2  1  3
  subtype3 45 13  0  3
  subtype4 51  5  0  2
D7V10, multiclass
D7V11, continuous
D7V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      45        6         9         3         1
  subtype2      23        3         9         5         0
  subtype3      29        0        22        10         1
  subtype4      34        7        15         4         1
D7V13, multiclass
D7V14, binary
          cls
clus        0  1
  subtype1 35 29
  subtype2 12 27
  subtype3 26 36
  subtype4 31 29
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   35   29
  subtype2   12   27
  subtype3   26   36
  subtype4   31   29
            clus
vv           subtype1 subtype2 subtype3 subtype4
  MULTIFOCAL       35       12       26       31
  UNIFOCAL         29       27       36       29
D7V15, continuous

Clustering(8) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1 107   0
  subtype2  21   0
  subtype3  93   5
subtype1 subtype2 subtype3 
     107       21       98 
subtype1 subtype2 subtype3 
       0        0        5 
$subtype1
TCGA-BJ-A0Z3 TCGA-BJ-A0Z9 TCGA-BJ-A0ZH TCGA-BJ-A28R TCGA-BJ-A290 TCGA-BJ-A45J 
       16.34         8.25        15.12         4.87        20.58         5.06 
TCGA-BJ-A4O9 TCGA-CE-A3ME TCGA-DE-A0XZ TCGA-DE-A0Y2 TCGA-DE-A0Y3 TCGA-DJ-A13P 
        5.95         0.23        20.22        15.42        36.46       138.05 
TCGA-DJ-A13T TCGA-DJ-A13U TCGA-DJ-A13X TCGA-DJ-A1QF TCGA-DJ-A1QN TCGA-DJ-A2PO 
       24.92        12.92         7.99        18.05         8.98         7.96 
TCGA-DJ-A2PQ TCGA-DJ-A2PR TCGA-DJ-A2PU TCGA-DJ-A2PW TCGA-DJ-A2PX TCGA-DJ-A2Q4 
       20.48        10.45        10.26         7.69         5.03         9.44 
TCGA-DJ-A2Q5 TCGA-DJ-A2Q7 TCGA-DJ-A2QC TCGA-DJ-A3UK TCGA-DJ-A3UN TCGA-DJ-A3UO 
        9.90         9.57         9.99         8.25        12.49        15.78 
TCGA-DJ-A3UR TCGA-DJ-A3V7 TCGA-DJ-A3VA TCGA-DJ-A3VE TCGA-DJ-A4UL TCGA-DJ-A4V2 
       23.70         9.83        11.93         4.41        11.93         3.09 
TCGA-DO-A1K0 TCGA-E3-A3DY TCGA-E3-A3E1 TCGA-E3-A3E2 TCGA-E3-A3E3 TCGA-E3-A3E5 
       21.53        31.07        40.18        63.16        30.28        14.04 
TCGA-E8-A418 TCGA-EL-A3CP TCGA-EL-A3GS TCGA-EL-A3GV TCGA-EL-A3GX TCGA-EL-A3GY 
        1.48       158.83        65.39        50.37       147.75       101.13 
TCGA-EL-A3H4 TCGA-EL-A3H8 TCGA-EL-A3MW TCGA-EL-A3N2 TCGA-EL-A3T6 TCGA-EL-A3T7 
       38.66       131.15       108.66        12.16        98.20        41.29 
TCGA-EL-A3T8 TCGA-EL-A3ZQ TCGA-EL-A4KH TCGA-EM-A1CT TCGA-EM-A1CV TCGA-EM-A22M 
       95.38        45.53        11.87        18.18        12.36        14.50 
TCGA-EM-A22O TCGA-EM-A2OZ TCGA-EM-A3AK TCGA-EM-A3FJ TCGA-EM-A3FK TCGA-EM-A3FO 
       11.74        12.07        15.68        27.95        23.77        17.49 
TCGA-EM-A3O7 TCGA-EM-A3O8 TCGA-EM-A4FV TCGA-ET-A25J TCGA-ET-A25O TCGA-ET-A2MX 
        7.33        12.53        12.72        29.69        27.09        54.02 
TCGA-ET-A2MZ TCGA-ET-A2N4 TCGA-ET-A39K TCGA-ET-A39M TCGA-ET-A39T TCGA-ET-A3BO 
       12.26         2.66        72.49        84.89        59.15         5.82 
TCGA-ET-A3BP TCGA-ET-A3BS TCGA-ET-A3BU TCGA-ET-A3BW TCGA-ET-A3BX TCGA-ET-A3DT 
        4.18         5.52        38.30         2.37         4.50        17.98 
TCGA-ET-A3DW TCGA-FE-A230 TCGA-FE-A231 TCGA-FE-A232 TCGA-FE-A233 TCGA-FE-A234 
       24.69        59.70        18.97        44.25        24.69        55.79 
TCGA-FE-A236 TCGA-FE-A23A TCGA-FE-A3PC TCGA-FY-A3BL TCGA-FY-A3ON TCGA-FY-A3RA 
       66.77        69.40        61.41         1.15         1.51         9.14 
TCGA-FY-A40N TCGA-H2-A3RI TCGA-J8-A3NZ TCGA-J8-A3O1 TCGA-J8-A3YE TCGA-KS-A41J 
        0.89         2.96         2.24        13.64        27.81        15.68 
TCGA-KS-A4IB TCGA-KS-A4ID TCGA-L6-A4EP TCGA-L6-A4ET TCGA-MK-A4N9 
       64.54        20.48         0.59         1.12         8.71 

$subtype2
TCGA-DJ-A1QI TCGA-DJ-A2PN TCGA-DJ-A2PV TCGA-EL-A3D1 TCGA-EL-A3T3 TCGA-EL-A3ZT 
       15.02        10.06         7.96        74.27       116.91        44.61 
TCGA-EM-A1CU TCGA-EM-A2OX TCGA-EM-A2P0 TCGA-EM-A3AR TCGA-ET-A25K TCGA-ET-A39J 
       20.91        19.73        17.59        16.77        32.35        71.01 
TCGA-ET-A39S TCGA-ET-A3BN TCGA-ET-A3BQ TCGA-ET-A3DP TCGA-FE-A235 TCGA-FK-A3SB 
       55.10        28.24         2.43        56.88       102.90         4.08 
TCGA-FY-A3R7 TCGA-IM-A3ED TCGA-KS-A4I5 
        0.03        30.87         6.71 

$subtype3
TCGA-BJ-A0ZB TCGA-BJ-A28X TCGA-BJ-A2NA TCGA-BJ-A3PR TCGA-BJ-A3PU TCGA-BJ-A4O8 
        4.01        17.49         2.10         8.02        10.03         4.93 
TCGA-DJ-A13O TCGA-DJ-A1QD TCGA-DJ-A1QE TCGA-DJ-A1QH TCGA-DJ-A1QM TCGA-DJ-A1QO 
        7.07        10.98        99.98         7.99         0.99         1.02 
TCGA-DJ-A1QQ TCGA-DJ-A2PS TCGA-DJ-A2PT TCGA-DJ-A2PY TCGA-DJ-A2PZ TCGA-DJ-A2Q3 
        5.95         1.94         9.60         8.78         8.42         9.21 
TCGA-DJ-A2Q6 TCGA-DJ-A2Q9 TCGA-DJ-A2QA TCGA-DJ-A3UM TCGA-DJ-A3UQ TCGA-DJ-A3UU 
        8.61        10.36        12.43        17.23         9.11        17.69 
TCGA-DJ-A3UW TCGA-DJ-A3UX TCGA-DJ-A3UY TCGA-DJ-A3VB TCGA-DJ-A3VF TCGA-DJ-A3VJ 
       43.00        11.34        13.32        11.21         7.73        17.36 
TCGA-DJ-A4UW TCGA-DJ-A4V4 TCGA-DO-A2HM TCGA-E8-A242 TCGA-E8-A2EA TCGA-E8-A413 
        9.44         3.35         2.30         1.12        22.29         0.33 
TCGA-E8-A415 TCGA-E8-A433 TCGA-E8-A436 TCGA-E8-A437 TCGA-E8-A44K TCGA-EL-A3CM 
        0.16         0.16         1.15         7.69         0.39        26.73 
TCGA-EL-A3CN TCGA-EL-A3CR TCGA-EL-A3CS TCGA-EL-A3CU TCGA-EL-A3CV TCGA-EL-A3GP 
      130.03         7.66        45.53       157.15        37.94         1.41 
TCGA-EL-A3GQ TCGA-EL-A3GR TCGA-EL-A3GU TCGA-EL-A3H5 TCGA-EL-A3H7 TCGA-EL-A3MY 
       30.18       102.84       124.04        52.73       126.97        17.49 
TCGA-EL-A3MZ TCGA-EL-A3N3 TCGA-EL-A3T0 TCGA-EL-A3T1 TCGA-EL-A3TA TCGA-EL-A3ZK 
       52.47       147.42       130.72       129.57        66.90        31.46 
TCGA-EL-A4K4 TCGA-EL-A4KG TCGA-EM-A22I TCGA-EM-A22P TCGA-EM-A2P1 TCGA-EM-A2P3 
       33.60        13.32        14.70        11.15        17.46        14.60 
TCGA-EM-A3FM TCGA-EM-A3O3 TCGA-EM-A4FM TCGA-EM-A4FO TCGA-EM-A4FQ TCGA-ET-A25G 
       21.01        14.50         4.80         8.35         9.80        47.47 
TCGA-ET-A25R TCGA-ET-A2MY TCGA-ET-A2N0 TCGA-ET-A39O TCGA-ET-A39P TCGA-ET-A3BT 
       20.42        22.09        16.08        61.02        58.72        24.72 
TCGA-ET-A3BV TCGA-ET-A3DO TCGA-ET-A3DU TCGA-FE-A22Z TCGA-FE-A237 TCGA-FE-A3PB 
       42.21        80.81        25.32        59.15        81.34        85.12 
TCGA-FK-A3SH TCGA-FY-A3I4 TCGA-FY-A3R8 TCGA-FY-A40K TCGA-FY-A4B3 TCGA-GE-A2C6 
       48.10         1.12         4.64         4.14         1.35        12.53 
TCGA-H2-A26U TCGA-H2-A421 TCGA-IM-A3EB TCGA-IM-A3U2 TCGA-IM-A3U3 TCGA-KS-A4I9 
       10.98         2.20        35.18         2.63         3.25        17.42 
TCGA-L6-A4EU TCGA-MK-A4N6 
        0.72        16.60 

subtype1 subtype2 subtype3 
    0.23     0.03     0.16 
subtype1 subtype2 subtype3 
  158.83   116.91   157.15 
subtype1 subtype2 subtype3 
  15.420   20.910   12.925 
[1] "0.2 - 158.8 (15.4)" "0.0 - 116.9 (20.9)" "0.2 - 157.2 (12.9)"
  [1] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
  [7] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [25] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [43] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [55] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [97] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[109] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[115] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[121] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[133] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[139] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[151] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[157] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[181] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[193] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[205] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[211] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype3" "subtype3" "subtype1"
  [1] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
  [7] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [25] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [43] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [55] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [97] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[109] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[115] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[121] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[133] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[139] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[151] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[157] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[181] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[193] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[205] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[211] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype3" "subtype3" "subtype1"
  [1] "subtype1" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
  [7] "subtype1" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [13] "subtype1" "subtype1" "subtype1" "subtype1" "subtype1" "subtype3"
 [19] "subtype1" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
 [25] "subtype1" "subtype3" "subtype2" "subtype3" "subtype1" "subtype3"
 [31] "subtype3" "subtype2" "subtype1" "subtype1" "subtype1" "subtype3"
 [37] "subtype3" "subtype1" "subtype2" "subtype1" "subtype1" "subtype3"
 [43] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [49] "subtype3" "subtype3" "subtype1" "subtype1" "subtype3" "subtype1"
 [55] "subtype1" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
 [61] "subtype3" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
 [67] "subtype3" "subtype1" "subtype3" "subtype1" "subtype3" "subtype1"
 [73] "subtype3" "subtype1" "subtype1" "subtype1" "subtype1" "subtype1"
 [79] "subtype3" "subtype3" "subtype3" "subtype3" "subtype1" "subtype3"
 [85] "subtype3" "subtype3" "subtype3" "subtype3" "subtype3" "subtype1"
 [91] "subtype3" "subtype3" "subtype3" "subtype3" "subtype2" "subtype3"
 [97] "subtype3" "subtype3" "subtype1" "subtype3" "subtype1" "subtype1"
[103] "subtype1" "subtype1" "subtype3" "subtype3" "subtype1" "subtype1"
[109] "subtype3" "subtype3" "subtype1" "subtype3" "subtype3" "subtype3"
[115] "subtype2" "subtype1" "subtype1" "subtype1" "subtype3" "subtype3"
[121] "subtype1" "subtype2" "subtype3" "subtype3" "subtype1" "subtype1"
[127] "subtype2" "subtype1" "subtype3" "subtype1" "subtype1" "subtype3"
[133] "subtype2" "subtype1" "subtype2" "subtype3" "subtype3" "subtype1"
[139] "subtype2" "subtype1" "subtype1" "subtype3" "subtype1" "subtype3"
[145] "subtype1" "subtype1" "subtype3" "subtype3" "subtype3" "subtype1"
[151] "subtype3" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[157] "subtype3" "subtype1" "subtype3" "subtype1" "subtype2" "subtype1"
[163] "subtype1" "subtype3" "subtype3" "subtype2" "subtype1" "subtype2"
[169] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[175] "subtype3" "subtype1" "subtype1" "subtype3" "subtype2" "subtype1"
[181] "subtype3" "subtype1" "subtype3" "subtype1" "subtype1" "subtype1"
[187] "subtype1" "subtype1" "subtype2" "subtype1" "subtype3" "subtype1"
[193] "subtype3" "subtype1" "subtype2" "subtype3" "subtype1" "subtype3"
[199] "subtype1" "subtype2" "subtype3" "subtype1" "subtype3" "subtype1"
[205] "subtype3" "subtype3" "subtype3" "subtype1" "subtype3" "subtype3"
[211] "subtype2" "subtype3" "subtype3" "subtype1" "subtype1" "subtype1"
[217] "subtype1" "subtype2" "subtype3" "subtype1" "subtype1" "subtype1"
[223] "subtype1" "subtype3" "subtype3" "subtype1"
D8V2, continuous
D8V3, binary
          cls
clus        0  1
  subtype1 79 29
  subtype2 14  7
  subtype3 75 24
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   79   29
  subtype2   14    7
  subtype3   75   24
        clus
vv       subtype1 subtype2 subtype3
  FEMALE       79       14       75
  MALE         29        7       24
          vv
clus       OTHER  SPECIFY THYROID PAPILLARY CARCINOMA - CLASSICAL/USUAL
  subtype1              2                                            88
  subtype2              0                                            21
  subtype3              1                                            74
          vv
clus       THYROID PAPILLARY CARCINOMA - FOLLICULAR (>= 99% FOLLICULAR PATTERNED)
  subtype1                                                                     11
  subtype2                                                                      0
  subtype3                                                                      5
          vv
clus       THYROID PAPILLARY CARCINOMA - TALL CELL (>= 50% TALL CELL FEATURES)
  subtype1                                                                   7
  subtype2                                                                   0
  subtype3                                                                  19
D8V4, multiclass
D8V5, binary
          cls
clus         0   1
  subtype1   8 100
  subtype2   1  20
  subtype3   2  97
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8  100
  subtype2    1   20
  subtype3    2   97
     clus
vv    subtype1 subtype2 subtype3
  NO         8        1        2
  YES      100       20       97
D8V6, binary
          cls
clus        0  1
  subtype1 89  5
  subtype2 20  0
  subtype3 87  3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   89    5
  subtype2   20    0
  subtype3   87    3
     clus
vv    subtype1 subtype2 subtype3
  NO        89       20       87
  YES        5        0        3
          vv
clus       M0 M1 MX
  subtype1 59  3 46
  subtype2  8  0 13
  subtype3 64  1 34
D8V7, multiclass
          vv
clus       MINIMAL (T3) MODERATE/ADVANCED (T4A) NONE
  subtype1           26                       3   75
  subtype2            3                       0   18
  subtype3           46                       6   46
D8V8, multiclass
          vv
clus       N0 N1 N1A N1B NX
  subtype1 46 15  27  11  9
  subtype2  9  1   5   3  3
  subtype3 37 11  23  19  9
D8V9, multiclass
          vv
clus       R0 R1 R2 RX
  subtype1 89  5  0  7
  subtype2 19  0  0  0
  subtype3 73 17  1  6
D8V10, multiclass
D8V11, continuous
D8V12, continuous
          vv
clus       STAGE I STAGE II STAGE III STAGE IVA STAGE IVC
  subtype1      67       11        19         8         2
  subtype2      15        3         1         2         0
  subtype3      49        2        35        12         1
D8V13, multiclass
D8V14, binary
          cls
clus        0  1
  subtype1 52 53
  subtype2 11 10
  subtype3 41 58
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   52   53
  subtype2   11   10
  subtype3   41   58
            clus
vv           subtype1 subtype2 subtype3
  MULTIFOCAL       52       11       41
  UNIFOCAL         53       10       58
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")
