[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"         "-nVNozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"        "-oTUCEC-TP"
[1] "opt"                    "-OPAGGREGRATED_CLUSTER"
[1] "tl" ""  
[1] "dx" ""  
[1] "opt"                 "AGGREGRATED_CLUSTER"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/UCEC-TP/10006384/UCEC-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/UCEC-TP/10667975/UCEC-TP.mergedcluster.txt"

nPatients in clinical file=497, in cluster file=550, common to both=496
[1]  12 496
[1] "MRNA_CNMF"
[1] 3
 1  2  3  4 
14 18 12 10 
 1  2  3  4 
14 18 12 10 
[1] "MRNA_CHIERARCHICAL"
[1] 3
 1  2  3  4  5 
14 10  7  7 16 
 1  2  3  4  5 
14 10  7  7 16 
[1] "CN_CNMF"
[1] 3
  1   2   3   4   5 
286  45 138  11   5 
  1   2   3   4   5 
286  45 138  11   5 
[1] "METHLYATION_CNMF"
[1] 3
  1   2   3 
143  77 160 
  1   2   3 
143  77 160 
[1] "RPPA_CNMF"
[1] 3
 1  2  3  4  5  6 
42 39 40 12 41 26 
 1  2  3  4  5  6 
42 39 40 12 41 26 
[1] "RPPA_CHIERARCHICAL"
[1] 3
 1  2  3  4 
70 67 44 19 
 1  2  3  4 
70 67 44 19 
[1] "MRNASEQ_CNMF"
[1] 3
  1   2   3 
205 144 139 
  1   2   3 
205 144 139 
[1] "MRNASEQ_CHIERARCHICAL"
[1] 3
  1   2   3 
149 200 139 
  1   2   3 
149 200 139 
[1] "MIRSEQ_CNMF"
[1] 3
  1   2   3 
138 194 154 
  1   2   3 
138 194 154 
[1] "MIRSEQ_CHIERARCHICAL"
[1] 3
  1   2   3   4 
 54 147 115 170 
  1   2   3   4 
 54 147 115 170 
[1] "MIRSEQ_MATURE_CNMF"
[1] 3
  1   2   3 
118 156  85 
  1   2   3 
118 156  85 
[1] "MIRSEQ_MATURE_CHIERARCHICAL"
[1] 3
  1   2   3 
151 104 104 
  1   2   3 
151 104 104 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "PRIMARYSITEOFDESEASE"                  
 [6] "NEOPLASM.DISEASESTAGE"                 
 [7] "PATHOLOGY.T.STAGE"                     
 [8] "PATHOLOGY.N.STAGE"                     
 [9] "PATHOLOGY.M.STAGE"                     
[10] "DCCUPLOADDATE"                         
[11] "GENDER"                                
[12] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[13] "DAYSTOLASTKNOWNALIVE"                  
[14] "RADIATIONTHERAPY"                      
[15] "HISTOLOGICALTYPE"                      
[16] "RADIATIONS.RADIATION.REGIMENINDICATION"
[17] "COMPLETENESS.OF.RESECTION"             
[18] "RACE"                                  
[19] "ETHNICITY"                             
[20] "BATCHNUMBER"                           

Input Data has 20 rows and 496 columns.

[1] "Batch" "20"   
[1] "Last Follow UP"
TCGA-5S-A9Q8 TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0G9 
          33           NA         4549         1428         1126         2540 
TCGA-A5-A0GA TCGA-A5-A0GB TCGA-A5-A0GD TCGA-A5-A0GE TCGA-A5-A0GG TCGA-A5-A0GH 
          NA          997           98         3205         2656         2254 
TCGA-A5-A0GI TCGA-A5-A0GJ TCGA-A5-A0GM TCGA-A5-A0GN TCGA-A5-A0GP TCGA-A5-A0GQ 
        1750         2000         1841         1841         1416         1167 
TCGA-A5-A0GR TCGA-A5-A0GU TCGA-A5-A0GV TCGA-A5-A0GW TCGA-A5-A0GX TCGA-A5-A0R6 
        1120          860          633          706         2088          607 
TCGA-A5-A0R7 TCGA-A5-A0R8 TCGA-A5-A0R9 TCGA-A5-A0RA TCGA-A5-A0VO TCGA-A5-A0VP 
         535          596          749          884          364         1288 
TCGA-A5-A0VQ TCGA-A5-A1OF TCGA-A5-A1OG TCGA-A5-A1OH TCGA-A5-A1OJ TCGA-A5-A1OK 
         485          241          348         1105          292          244 
TCGA-A5-A2K2 TCGA-A5-A2K3 TCGA-A5-A2K4 TCGA-A5-A2K5 TCGA-A5-A2K7 TCGA-A5-A3LO 
        2769         1409           NA          162          157          223 
TCGA-A5-A3LP TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A23O TCGA-AJ-A2QK TCGA-AJ-A2QL 
         455           36           33           60           12          602 
TCGA-AJ-A2QM TCGA-AJ-A2QN TCGA-AJ-A2QO TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3BG 
          26           73           92           15           34           23 
TCGA-AJ-A3BH TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3EJ TCGA-AJ-A3EK TCGA-AJ-A3EL 
          NA           68           51           NA          446          684 
TCGA-AJ-A3EM TCGA-AJ-A3I9 TCGA-AJ-A3IA TCGA-AJ-A3NC TCGA-AJ-A3NE TCGA-AJ-A3NF 
         677           39           28         1125          628           41 
TCGA-AJ-A3NG TCGA-AJ-A3NH TCGA-AJ-A3OJ TCGA-AJ-A3OK TCGA-AJ-A3OL TCGA-AJ-A3QS 
         475           23           59          485           57          513 
TCGA-AJ-A3TW TCGA-AJ-A5DW TCGA-AJ-A8CT TCGA-AJ-A8CW TCGA-AP-A051 TCGA-AP-A052 
          52           71           82            4         2545           NA 
TCGA-AP-A053 TCGA-AP-A054 TCGA-AP-A056 TCGA-AP-A059 TCGA-AP-A05A TCGA-AP-A05D 
         181           NA         2618          250         1199         1758 
TCGA-AP-A05H TCGA-AP-A05J TCGA-AP-A05N TCGA-AP-A05O TCGA-AP-A05P TCGA-AP-A0L8 
        1385         1122          239          371          636           NA 
TCGA-AP-A0L9 TCGA-AP-A0LD TCGA-AP-A0LE TCGA-AP-A0LF TCGA-AP-A0LG TCGA-AP-A0LH 
        3815         3589         3357          103         1921           NA 
TCGA-AP-A0LI TCGA-AP-A0LJ TCGA-AP-A0LL TCGA-AP-A0LM TCGA-AP-A0LN TCGA-AP-A0LO 
        2972          965         2554          825         2510           NA 
TCGA-AP-A0LP TCGA-AP-A0LQ TCGA-AP-A0LS TCGA-AP-A0LT TCGA-AP-A0LV TCGA-AP-A1DH 
        1875         2457         1918         1497          763         2180 
TCGA-AP-A1DK TCGA-AP-A1DM TCGA-AP-A1DO TCGA-AP-A1DP TCGA-AP-A1DQ TCGA-AP-A1DR 
        1836         1700          952           NA         1276         1495 
TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AP-A1E3 TCGA-AP-A1E4 TCGA-AP-A3K1 
         204          940          317          847          494          555 
TCGA-AP-A5FX TCGA-AW-A1PO TCGA-AX-A05S TCGA-AX-A05T TCGA-AX-A05U TCGA-AX-A05W 
        1026           17           NA          603          903         2079 
TCGA-AX-A05Y TCGA-AX-A05Z TCGA-AX-A060 TCGA-AX-A062 TCGA-AX-A063 TCGA-AX-A064 
        2191         1413         1075         1399         2025         1064 
TCGA-AX-A06B TCGA-AX-A06D TCGA-AX-A06F TCGA-AX-A06H TCGA-AX-A06J TCGA-AX-A06L 
        1640           NA         1554          833          913         1845 
TCGA-AX-A0IS TCGA-AX-A0IU TCGA-AX-A0IW TCGA-AX-A0IZ TCGA-AX-A0J0 TCGA-AX-A0J1 
        1065          868         1149         1333         1220         2004 
TCGA-AX-A1C4 TCGA-AX-A1C5 TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1C9 TCGA-AX-A1CA 
         404          584          516          412          464          617 
TCGA-AX-A1CC TCGA-AX-A1CE TCGA-AX-A1CF TCGA-AX-A1CI TCGA-AX-A1CJ TCGA-AX-A1CK 
         378          610         2337         2207         1646         2053 
TCGA-AX-A1CN TCGA-AX-A1CP TCGA-AX-A1CR TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 
         764         1107          337           NA           NA         2167 
TCGA-AX-A2H7 TCGA-AX-A2H8 TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HD TCGA-AX-A2HF 
        1020         1861         2090         1016         1232          589 
TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A2HJ TCGA-AX-A2HK TCGA-AX-A2IN TCGA-AX-A2IO 
         801          540          831           NA           NA         1177 
TCGA-AX-A3FS TCGA-AX-A3FT TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3FZ TCGA-AX-A3G1 
           7            3           10            4            6           NA 
TCGA-AX-A3G3 TCGA-AX-A3G4 TCGA-AX-A3G6 TCGA-AX-A3G7 TCGA-AX-A3G8 TCGA-AX-A3G9 
           1            4           NA            7           36          254 
TCGA-AX-A3GB TCGA-AX-A3GI TCGA-B5-A0JN TCGA-B5-A0JR TCGA-B5-A0JS TCGA-B5-A0JT 
         440            4         2445         1731         1422         1312 
TCGA-B5-A0JU TCGA-B5-A0JV TCGA-B5-A0JX TCGA-B5-A0JY TCGA-B5-A0JZ TCGA-B5-A0K0 
        1483         1237         1360          990          871          862 
TCGA-B5-A0K1 TCGA-B5-A0K2 TCGA-B5-A0K3 TCGA-B5-A0K4 TCGA-B5-A0K6 TCGA-B5-A0K7 
         928          788          700          544          418          520 
TCGA-B5-A0K8 TCGA-B5-A0K9 TCGA-B5-A0KB TCGA-B5-A11E TCGA-B5-A11F TCGA-B5-A11G 
         543          335          125          265         5651         3448 
TCGA-B5-A11H TCGA-B5-A11I TCGA-B5-A11J TCGA-B5-A11L TCGA-B5-A11M TCGA-B5-A11N 
        2687         2303         1656         1396         1362         1337 
TCGA-B5-A11O TCGA-B5-A11P TCGA-B5-A11Q TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11U 
        1232         1120          976         1019          832          509 
TCGA-B5-A11V TCGA-B5-A11W TCGA-B5-A11X TCGA-B5-A11Y TCGA-B5-A11Z TCGA-B5-A121 
         595          593          596          560          528          504 
TCGA-B5-A1MR TCGA-B5-A1MS TCGA-B5-A1MU TCGA-B5-A1MV TCGA-B5-A1MW TCGA-B5-A1MX 
        5835           NA           NA          438          447          356 
TCGA-B5-A1MY TCGA-B5-A1MZ TCGA-B5-A1N2 TCGA-B5-A3FC TCGA-B5-A3S1 TCGA-B5-A5OC 
          NA          465          389         1890          153         1249 
TCGA-B5-A5OD TCGA-B5-A5OE TCGA-BG-A0LW TCGA-BG-A0LX TCGA-BG-A0M0 TCGA-BG-A0M2 
        1038         1063          566          614          588          637 
TCGA-BG-A0M3 TCGA-BG-A0M4 TCGA-BG-A0M6 TCGA-BG-A0M7 TCGA-BG-A0M8 TCGA-BG-A0M9 
        1071         1064          241         1167         1110          860 
TCGA-BG-A0MA TCGA-BG-A0MC TCGA-BG-A0MG TCGA-BG-A0MH TCGA-BG-A0MI TCGA-BG-A0MK 
          NA         1263         1477         1341           NA           NA 
TCGA-BG-A0MO TCGA-BG-A0MQ TCGA-BG-A0MS TCGA-BG-A0MT TCGA-BG-A0MU TCGA-BG-A0RY 
        1309         1196          937          644          617          469 
TCGA-BG-A0VT TCGA-BG-A0VV TCGA-BG-A0VW TCGA-BG-A0VX TCGA-BG-A0VZ TCGA-BG-A0W1 
         742          811          497         1043          868         1607 
TCGA-BG-A0W2 TCGA-BG-A0YU TCGA-BG-A0YV TCGA-BG-A186 TCGA-BG-A187 TCGA-BG-A18A 
        1721          451          382          419          448          426 
TCGA-BG-A18B TCGA-BG-A18C TCGA-BG-A220 TCGA-BG-A221 TCGA-BG-A222 TCGA-BG-A2AD 
         470          470          434           55          291         1085 
TCGA-BG-A2AE TCGA-BG-A2L7 TCGA-BG-A3EW TCGA-BG-A3PP TCGA-BK-A0C9 TCGA-BK-A0CA 
         721          612          344          207         1092         1064 
TCGA-BK-A0CB TCGA-BK-A0CC TCGA-BK-A139 TCGA-BK-A13B TCGA-BK-A13C TCGA-BK-A26L 
         189          311          309          966          760          734 
TCGA-BK-A4ZD TCGA-BK-A56F TCGA-BK-A6W3 TCGA-BK-A6W4 TCGA-BS-A0T9 TCGA-BS-A0TA 
         506          401          305          300           NA          714 
TCGA-BS-A0TC TCGA-BS-A0TD TCGA-BS-A0TE TCGA-BS-A0TG TCGA-BS-A0TI TCGA-BS-A0TJ 
        2602         2379           NA         2371         1882         2068 
TCGA-BS-A0U5 TCGA-BS-A0U7 TCGA-BS-A0U8 TCGA-BS-A0U9 TCGA-BS-A0UA TCGA-BS-A0UF 
        2935           NA         2963         2044         2687         2611 
TCGA-BS-A0UJ TCGA-BS-A0UL TCGA-BS-A0UM TCGA-BS-A0UT TCGA-BS-A0UV TCGA-BS-A0V4 
        2506         2481         2644         2212         2228         1810 
TCGA-BS-A0V6 TCGA-BS-A0V7 TCGA-BS-A0V8 TCGA-BS-A0VI TCGA-BS-A0WQ TCGA-D1-A0ZN 
        1910         1934         1507         1921         2022          512 
TCGA-D1-A0ZO TCGA-D1-A0ZP TCGA-D1-A0ZQ TCGA-D1-A0ZR TCGA-D1-A0ZS TCGA-D1-A0ZU 
         602          911          260           17          148          872 
TCGA-D1-A0ZV TCGA-D1-A0ZZ TCGA-D1-A101 TCGA-D1-A102 TCGA-D1-A103 TCGA-D1-A15V 
         728          686           53          135          669         1201 
TCGA-D1-A15W TCGA-D1-A15X TCGA-D1-A15Z TCGA-D1-A160 TCGA-D1-A161 TCGA-D1-A162 
         915          909           NA          112          892         1145 
TCGA-D1-A163 TCGA-D1-A165 TCGA-D1-A167 TCGA-D1-A168 TCGA-D1-A169 TCGA-D1-A16B 
         991           20          478         1098         1135         1106 
TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F TCGA-D1-A16G TCGA-D1-A16I TCGA-D1-A16J 
        1141         1119           80           NA           NA          910 
TCGA-D1-A16N TCGA-D1-A16O TCGA-D1-A16Q TCGA-D1-A16R TCGA-D1-A16S TCGA-D1-A16V 
         945         1023          324           21          568           43 
TCGA-D1-A16X TCGA-D1-A16Y TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A176 TCGA-D1-A177 
         111          532          594          202          917          548 
TCGA-D1-A179 TCGA-D1-A17A TCGA-D1-A17B TCGA-D1-A17C TCGA-D1-A17D TCGA-D1-A17F 
         206           48          213           30          926           39 
TCGA-D1-A17H TCGA-D1-A17K TCGA-D1-A17L TCGA-D1-A17M TCGA-D1-A17N TCGA-D1-A17Q 
         852          854          802          311           46           54 
TCGA-D1-A17R TCGA-D1-A17S TCGA-D1-A17T TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NU 
          NA          739           71          697           43          402 
TCGA-D1-A1NW TCGA-D1-A1NX TCGA-D1-A1NY TCGA-D1-A1NZ TCGA-D1-A1O0 TCGA-D1-A1O5 
          22          555          513          548           63          458 
TCGA-D1-A1O7 TCGA-D1-A1O8 TCGA-D1-A2G0 TCGA-D1-A2G5 TCGA-D1-A2G6 TCGA-D1-A2G7 
          32           NA          107         1260           NA         1365 
TCGA-D1-A3DA TCGA-D1-A3DG TCGA-D1-A3DH TCGA-DI-A0WH TCGA-DI-A1BU TCGA-DI-A1BY 
           8          130          125          496         1195         1114 
TCGA-DI-A1C3 TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QU TCGA-DI-A2QY 
         739         1076           NA           NA           NA         2797 
TCGA-E6-A1LX TCGA-E6-A1LZ TCGA-E6-A1M0 TCGA-E6-A2P8 TCGA-E6-A2P9 TCGA-EC-A1NJ 
         711         1471          519           NA          203          487 
TCGA-EC-A1QX TCGA-EC-A24G TCGA-EO-A1Y5 TCGA-EO-A1Y7 TCGA-EO-A1Y8 TCGA-EO-A22R 
         224          511          332          243          328          972 
TCGA-EO-A22S TCGA-EO-A22T TCGA-EO-A22U TCGA-EO-A22X TCGA-EO-A22Y TCGA-EO-A2CG 
        1066         1004          825          982          754          985 
TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EO-A3AU TCGA-EO-A3AV TCGA-EO-A3AY TCGA-EO-A3AZ 
          NA         1046          589         1069          392          826 
TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1G7 TCGA-EY-A1G8 TCGA-EY-A1GC 
         820          677          497           NA           NA          138 
TCGA-EY-A1GD TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GH TCGA-EY-A1GI TCGA-EY-A1GJ 
         248          741          826          710          710          727 
TCGA-EY-A1GK TCGA-EY-A1GL TCGA-EY-A1GM TCGA-EY-A1GO TCGA-EY-A1GP TCGA-EY-A1GQ 
         693          425          210          586          573          544 
TCGA-EY-A1GR TCGA-EY-A1GS TCGA-EY-A1GT TCGA-EY-A1GU TCGA-EY-A1GV TCGA-EY-A1GW 
         536          459          490          378          481          260 
TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A210 TCGA-EY-A212 TCGA-EY-A214 TCGA-EY-A215 
         197          588          383          110          438          574 
TCGA-EY-A2OM TCGA-EY-A2ON TCGA-EY-A2OO TCGA-EY-A2OP TCGA-EY-A2OQ TCGA-EY-A3L3 
         694          409         1392          944          885          832 
TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A547 TCGA-EY-A548 TCGA-EY-A549 TCGA-EY-A54A 
         421          196          545           65          212          113 
TCGA-EY-A5W2 TCGA-FI-A2CX TCGA-FI-A2CY TCGA-FI-A2D0 TCGA-FI-A2D2 TCGA-FI-A2D4 
         161         1217         1064         1034         1095           NA 
TCGA-FI-A2D5 TCGA-FI-A2D6 TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY 
          NA          273         2941         1795          276           NA 
TCGA-FI-A2F4 TCGA-FI-A2F8 TCGA-FI-A2F9 TCGA-FI-A3PV TCGA-H5-A2HR TCGA-K6-A3WQ 
         881          761          791           NA           53          400 
TCGA-KJ-A3U4 TCGA-PG-A5BC TCGA-QS-A5YQ TCGA-QS-A5YR 
          74          329          128          168 
Variable 1:'AGE':	nDistinctValues=59,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=59,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=405,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'NEOPLASM.DISEASESTAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'PATHOLOGY.T.STAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 8:'PATHOLOGY.N.STAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 9:'PATHOLOGY.M.STAGE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'GENDER':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=18,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 13:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=17,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 14:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 15:'HISTOLOGICAL.TYPE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 17:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 18:'RACE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 19:'ETHNICITY':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 20:'BATCH.NUMBER':	nDistinctValues=29,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                                   
[2] "HISTOLOGICAL.TYPE"                     
[3] "RADIATIONS.RADIATION.REGIMENINDICATION"
[4] "COMPLETENESS.OF.RESECTION"             
[5] "RACE"                                  
[6] "ETHNICITY"                             
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 496 columns, 1 survival variables, and 6 non-survival variables.
AGE, nv=59, binary=FALSE, numeric=TRUE
HISTOLOGICAL.TYPE, nv=3, binary=FALSE, numeric=FALSE
RADIATIONS.RADIATION.REGIMENINDICATION, nv=2, binary=FALSE, numeric=FALSE
COMPLETENESS.OF.RESECTION, nv=4, binary=FALSE, numeric=FALSE
RACE, nv=5, binary=FALSE, numeric=FALSE
ETHNICITY, nv=2, binary=FALSE, numeric=FALSE

Clustering(1) Variable = MRNA_CNMF
D1V1, survival
          sevent
clus2       0  1
  subtype1 12  2
  subtype2 14  4
  subtype3 11  1
  subtype4  8  2
subtype1 subtype2 subtype3 subtype4 
      14       18       12       10 
subtype1 subtype2 subtype3 subtype4 
       2        4        1        2 
$subtype1
TCGA-A5-A0G2 TCGA-A5-A0G5 TCGA-A5-A0GA TCGA-A5-A0GB TCGA-AP-A051 TCGA-AP-A0LT 
      149.56        37.02        17.85        32.78        83.67        49.22 
TCGA-AX-A05S TCGA-AX-A05Z TCGA-AX-A060 TCGA-AX-A063 TCGA-AX-A064 TCGA-AX-A06F 
       13.58        46.45        35.34        66.58        34.98        51.09 
TCGA-B5-A0JR TCGA-B5-A0JZ 
       56.91        28.64 

$subtype2
TCGA-A5-A0G3 TCGA-A5-A0GH TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A054 TCGA-AP-A056 
       46.95        74.10        21.99         5.95        23.31        86.07 
TCGA-AP-A05A TCGA-AP-A05D TCGA-AP-A05H TCGA-AP-A05J TCGA-AP-A0L8 TCGA-AP-A0L9 
       39.42        57.80        45.53        36.89        48.79       125.42 
TCGA-AP-A0LD TCGA-AX-A06B TCGA-AX-A0IW TCGA-AX-A0J1 TCGA-B5-A0K4 TCGA-BK-A0CC 
      117.99        53.92        37.78        65.88        17.88        10.22 

$subtype3
TCGA-A5-A0GE TCGA-A5-A0GP TCGA-AP-A05P TCGA-AP-A0LH TCGA-AP-A0LJ TCGA-AX-A05T 
      105.37        46.55        20.91        36.36        31.73        19.82 
TCGA-AX-A05U TCGA-AX-A05W TCGA-AX-A05Y TCGA-AX-A06J TCGA-B5-A0K1 TCGA-BK-A0C9 
       29.69        68.35        72.03        30.02        30.51        35.90 

$subtype4
TCGA-A5-A0GM TCGA-A5-A0GU TCGA-AP-A05N TCGA-AP-A0LG TCGA-AP-A0LN TCGA-AP-A0LV 
       60.53        28.27         7.86        63.16        82.52        25.08 
TCGA-AX-A062 TCGA-B5-A0K0 TCGA-BG-A0LW TCGA-BG-A0MI 
       45.99        28.34        18.61        23.47 

subtype1 subtype2 subtype3 subtype4 
   13.58     5.95    19.82     7.86 
subtype1 subtype2 subtype3 subtype4 
  149.56   125.42   105.37    82.52 
subtype1 subtype2 subtype3 subtype4 
  41.735   46.240   33.815   28.305 
[1] "13.6 - 149.6 (41.7)" "6.0 - 125.4 (46.2)"  "19.8 - 105.4 (33.8)"
[4] "7.9 - 82.5 (28.3)"  
D1V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      12
  subtype2                                       8
  subtype3                                      11
  subtype4                                      10
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             0                                 2
  subtype2                             0                                10
  subtype3                             1                                 0
  subtype4                             0                                 0
D1V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       12        8       11       10
  MIXED SEROUS AND ENDOMETRIOID                  0        0        1        0
  SEROUS ENDOMETRIAL ADENOCARCINOMA              2       10        0        0
[1] 3 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V4, binary
          cls
clus        0  1
  subtype1  8  6
  subtype2 12  6
  subtype3  3  9
  subtype4  2  8
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    8    6
  subtype2   12    6
  subtype3    3    9
  subtype4    2    8
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO         8       12        3        2
  YES        6        6        9        8
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       R0 R1 R2 RX
  subtype1  8  2  1  0
  subtype2 14  1  1  1
  subtype3 10  1  0  0
  subtype4  9  0  0  0
D1V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  R0        8       14       10        9
  R1        2        1        1        0
  R2        1        1        0        0
  RX        0        1        0        0
[1] 4 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     1                         1
  subtype2                                0     0                         4
  subtype3                                1     3                         0
  subtype4                                0     0                         1
          vv
clus       WHITE
  subtype1    10
  subtype2    13
  subtype3     8
  subtype4     9
D1V6, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE        1        0        1        0
  ASIAN                                   1        0        3        0
  BLACK OR AFRICAN AMERICAN               1        4        0        1
  WHITE                                  10       13        8        9
[1] 4 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D1V7, binary
          cls
clus       0 1
  subtype1 1 6
  subtype2 1 6
  subtype3 0 9
  subtype4 0 3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1    6
  subtype2    1    6
  subtype3    0    9
  subtype4    0    3
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            1        1        0        0
  NOT HISPANIC OR LATINO        6        6        9        3
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = MRNA_CHIERARCHICAL
D2V1, survival
          sevent
clus2       0  1
  subtype1 13  1
  subtype2  7  3
  subtype3  4  3
  subtype4  7  0
  subtype5 14  2
subtype1 subtype2 subtype3 subtype4 subtype5 
      14       10        7        7       16 
subtype1 subtype2 subtype3 subtype4 subtype5 
       1        3        3        0        2 
$subtype1
TCGA-A5-A0G2 TCGA-A5-A0G5 TCGA-A5-A0GH TCGA-A5-A0GM TCGA-AP-A054 TCGA-AP-A056 
      149.56        37.02        74.10        60.53        23.31        86.07 
TCGA-AP-A05P TCGA-AP-A0LD TCGA-AX-A05Y TCGA-AX-A06B TCGA-AX-A06F TCGA-AX-A0J1 
       20.91       117.99        72.03        53.92        51.09        65.88 
TCGA-B5-A0K4 TCGA-BK-A0CC 
       17.88        10.22 

$subtype2
TCGA-A5-A0G3 TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A05A TCGA-AP-A05D TCGA-AP-A05H 
       46.95        21.99         5.95        39.42        57.80        45.53 
TCGA-AP-A05J TCGA-AP-A0L8 TCGA-AP-A0L9 TCGA-AX-A0IW 
       36.89        48.79       125.42        37.78 

$subtype3
TCGA-A5-A0GA TCGA-A5-A0GP TCGA-AP-A0LH TCGA-AX-A05S TCGA-AX-A05W TCGA-AX-A05Z 
       17.85        46.55        36.36        13.58        68.35        46.45 
TCGA-AX-A064 
       34.98 

$subtype4
TCGA-A5-A0GB TCGA-AP-A051 TCGA-AP-A0LT TCGA-AX-A060 TCGA-AX-A063 TCGA-B5-A0JR 
       32.78        83.67        49.22        35.34        66.58        56.91 
TCGA-B5-A0JZ 
       28.64 

$subtype5
TCGA-A5-A0GE TCGA-A5-A0GU TCGA-AP-A05N TCGA-AP-A0LG TCGA-AP-A0LJ TCGA-AP-A0LN 
      105.37        28.27         7.86        63.16        31.73        82.52 
TCGA-AP-A0LV TCGA-AX-A05T TCGA-AX-A05U TCGA-AX-A062 TCGA-AX-A06J TCGA-B5-A0K0 
       25.08        19.82        29.69        45.99        30.02        28.34 
TCGA-B5-A0K1 TCGA-BG-A0LW TCGA-BG-A0MI TCGA-BK-A0C9 
       30.51        18.61        23.47        35.90 

subtype1 subtype2 subtype3 subtype4 subtype5 
   10.22     5.95    13.58    28.64     7.86 
subtype1 subtype2 subtype3 subtype4 subtype5 
  149.56   125.42    68.35    83.67   105.37 
subtype1 subtype2 subtype3 subtype4 subtype5 
  57.225   42.475   36.360   49.220   29.855 
[1] "10.2 - 149.6 (57.2)" "6.0 - 125.4 (42.5)"  "13.6 - 68.3 (36.4)" 
[4] "28.6 - 83.7 (49.2)"  "7.9 - 105.4 (29.9)" 
D2V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      11
  subtype2                                       1
  subtype3                                       6
  subtype4                                       7
  subtype5                                      16
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             0                                 3
  subtype2                             0                                 9
  subtype3                             1                                 0
  subtype4                             0                                 0
  subtype5                             0                                 0
D2V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       11        1        6        7
  MIXED SEROUS AND ENDOMETRIOID                  0        0        1        0
  SEROUS ENDOMETRIAL ADENOCARCINOMA              3        9        0        0
                                         clus
vv                                        subtype5
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       16
  MIXED SEROUS AND ENDOMETRIOID                  0
  SEROUS ENDOMETRIAL ADENOCARCINOMA              0
[1] 3 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V4, binary
          cls
clus        0  1
  subtype1  7  7
  subtype2  7  3
  subtype3  2  5
  subtype4  5  2
  subtype5  4 12
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7    7
  subtype2    7    3
  subtype3    2    5
  subtype4    5    2
  subtype5    4   12
     clus
vv    subtype1 subtype2 subtype3 subtype4 subtype5
  NO         7        7        2        5        4
  YES        7        3        5        2       12
[1] 2 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       R0 R1 R2 RX
  subtype1 11  1  0  1
  subtype2  9  0  1  0
  subtype3  4  1  1  0
  subtype4  4  1  0  0
  subtype5 13  1  0  0
D2V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4 subtype5
  R0       11        9        4        4       13
  R1        1        0        1        1        1
  R2        0        1        1        0        0
  RX        1        0        0        0        0
[1] 4 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     2                         2
  subtype2                                0     0                         3
  subtype3                                0     1                         0
  subtype4                                1     0                         0
  subtype5                                1     1                         1
          vv
clus       WHITE
  subtype1     9
  subtype2     7
  subtype3     5
  subtype4     6
  subtype5    13
D2V6, multiclass
                                  clus
vv                                 subtype1 subtype2 subtype3 subtype4 subtype5
  AMERICAN INDIAN OR ALASKA NATIVE        0        0        0        1        1
  ASIAN                                   2        0        1        0        1
  BLACK OR AFRICAN AMERICAN               2        3        0        0        1
  WHITE                                   9        7        5        6       13
[1] 4 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V7, binary
          cls
clus       0 1
  subtype1 1 9
  subtype2 0 2
  subtype3 1 5
  subtype4 0 2
  subtype5 0 6
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1    9
  subtype2    0    2
  subtype3    1    5
  subtype4    0    2
  subtype5    0    6
                        clus
vv                       subtype1 subtype2 subtype3 subtype4 subtype5
  HISPANIC OR LATINO            1        0        1        0        0
  NOT HISPANIC OR LATINO        9        2        5        2        6
[1] 2 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = CN_CNMF
D3V1, survival
          sevent
clus2        0   1
  subtype1 262  23
  subtype2  36   9
  subtype3 111  26
  subtype4   9   2
  subtype5   5   0
subtype1 subtype2 subtype3 subtype4 subtype5 
     285       45      137       11        5 
subtype1 subtype2 subtype3 subtype4 subtype5 
      23        9       26        2        0 
$subtype1
TCGA-A5-A0G1 TCGA-A5-A0G9 TCGA-A5-A0GA TCGA-A5-A0GB TCGA-A5-A0GD TCGA-A5-A0GE 
      106.88        83.51        17.85        32.78         3.22       105.37 
TCGA-A5-A0GG TCGA-A5-A0GH TCGA-A5-A0GI TCGA-A5-A0GM TCGA-A5-A0GP TCGA-A5-A0GQ 
       87.32        74.10        57.53        60.53        46.55        38.37 
TCGA-A5-A0GU TCGA-A5-A0GW TCGA-A5-A0GX TCGA-A5-A0R8 TCGA-A5-A0R9 TCGA-A5-A0RA 
       28.27        23.21        68.65        19.59        24.62        29.06 
TCGA-A5-A0VP TCGA-A5-A0VQ TCGA-A5-A1OF TCGA-A5-A1OJ TCGA-A5-A1OK TCGA-A5-A2K5 
       42.35        15.95         7.92         9.60         8.02         5.33 
TCGA-A5-A2K7 TCGA-AJ-A23O TCGA-AJ-A2QL TCGA-AJ-A2QO TCGA-AJ-A3BG TCGA-AJ-A3BK 
        5.16         1.97        19.79         3.02         0.76         1.68 
TCGA-AJ-A3EK TCGA-AJ-A3EL TCGA-AJ-A3NC TCGA-AJ-A3NE TCGA-AJ-A3OJ TCGA-AJ-A3OK 
       14.66        22.49        36.99        20.65         1.94        15.95 
TCGA-AJ-A3OL TCGA-AJ-A5DW TCGA-AP-A051 TCGA-AP-A054 TCGA-AP-A056 TCGA-AP-A059 
        1.87         2.33        83.67        23.31        86.07         8.22 
TCGA-AP-A05N TCGA-AP-A05O TCGA-AP-A0LD TCGA-AP-A0LE TCGA-AP-A0LG TCGA-AP-A0LH 
        7.86        12.20       117.99       110.37        63.16        36.36 
TCGA-AP-A0LJ TCGA-AP-A0LL TCGA-AP-A0LM TCGA-AP-A0LN TCGA-AP-A0LP TCGA-AP-A0LQ 
       31.73        83.97        27.12        82.52        61.64        80.78 
TCGA-AP-A0LS TCGA-AP-A0LT TCGA-AP-A0LV TCGA-AP-A1DH TCGA-AP-A1DK TCGA-AP-A1DM 
       63.06        49.22        25.08        71.67        60.36        55.89 
TCGA-AP-A1DP TCGA-AP-A1DR TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AP-A1E3 
       35.54        49.15         6.71        30.90        10.42        27.85 
TCGA-AP-A1E4 TCGA-AX-A05S TCGA-AX-A05T TCGA-AX-A05U TCGA-AX-A05Y TCGA-AX-A05Z 
       16.24        13.58        19.82        29.69        72.03        46.45 
TCGA-AX-A060 TCGA-AX-A062 TCGA-AX-A063 TCGA-AX-A064 TCGA-AX-A06D TCGA-AX-A06F 
       35.34        45.99        66.58        34.98        12.26        51.09 
TCGA-AX-A06H TCGA-AX-A06J TCGA-AX-A06L TCGA-AX-A0IS TCGA-AX-A0IZ TCGA-AX-A0J0 
       27.39        30.02        60.66        35.01        43.82        40.11 
TCGA-AX-A0J1 TCGA-AX-A1C4 TCGA-AX-A1C5 TCGA-AX-A1C9 TCGA-AX-A1CC TCGA-AX-A1CE 
       65.88        13.28        19.20        15.25        12.43        20.05 
TCGA-AX-A1CI TCGA-AX-A1CJ TCGA-AX-A1CK TCGA-AX-A1CN TCGA-AX-A2HA TCGA-AX-A2HC 
       72.56        54.12        67.50        25.12        68.71        33.40 
TCGA-AX-A2HD TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A2HJ TCGA-AX-A2IN TCGA-AX-A3FS 
       40.50        26.33        17.75        27.32        31.13         0.23 
TCGA-AX-A3FT TCGA-AX-A3G8 TCGA-AX-A3G9 TCGA-AX-A3GB TCGA-B5-A0JR TCGA-B5-A0JS 
        0.10         1.18         8.35        14.47        56.91        46.75 
TCGA-B5-A0JU TCGA-B5-A0JV TCGA-B5-A0JX TCGA-B5-A0JY TCGA-B5-A0JZ TCGA-B5-A0K0 
       48.76        40.67        44.71        32.55        28.64        28.34 
TCGA-B5-A0K1 TCGA-B5-A0K2 TCGA-B5-A0K6 TCGA-B5-A0K7 TCGA-B5-A0K9 TCGA-B5-A11F 
       30.51        25.91        13.74        17.10        11.01       185.79 
TCGA-B5-A11G TCGA-B5-A11H TCGA-B5-A11J TCGA-B5-A11N TCGA-B5-A11O TCGA-B5-A11Q 
      113.36        88.34        54.44        43.96        40.50        32.09 
TCGA-B5-A11S TCGA-B5-A11U TCGA-B5-A11W TCGA-B5-A11Y TCGA-B5-A11Z TCGA-B5-A121 
       27.35        16.73        19.50        18.41        17.36        16.57 
TCGA-B5-A1MR TCGA-B5-A1MV TCGA-B5-A1MW TCGA-B5-A1MX TCGA-B5-A1MZ TCGA-B5-A3FC 
      191.84        14.40        14.70        11.70        15.29        62.14 
TCGA-B5-A5OC TCGA-BG-A0LW TCGA-BG-A0LX TCGA-BG-A0M0 TCGA-BG-A0M3 TCGA-BG-A0M7 
       41.06        18.61        20.19        19.33        35.21        38.37 
TCGA-BG-A0M9 TCGA-BG-A0MA TCGA-BG-A0MC TCGA-BG-A0MG TCGA-BG-A0MI TCGA-BG-A0MK 
       28.27        10.72        41.52        48.56        23.47        43.30 
TCGA-BG-A0MO TCGA-BG-A0MQ TCGA-BG-A0MU TCGA-BG-A0VV TCGA-BG-A0VW TCGA-BG-A0VX 
       43.04        39.32        20.28        26.66        16.34        34.29 
TCGA-BG-A0VZ TCGA-BG-A0W2 TCGA-BG-A0YU TCGA-BG-A186 TCGA-BG-A187 TCGA-BG-A18A 
       28.54        56.58        14.83        13.78        14.73        14.01 
TCGA-BG-A18B TCGA-BG-A220 TCGA-BG-A222 TCGA-BG-A2AD TCGA-BG-A2L7 TCGA-BG-A3EW 
       15.45        14.27         9.57        35.67        20.12        11.31 
TCGA-BK-A0CA TCGA-BK-A0CB TCGA-BK-A13B TCGA-BK-A13C TCGA-BK-A56F TCGA-BK-A6W3 
       34.98         6.21        31.76        24.99        13.18        10.03 
TCGA-BK-A6W4 TCGA-BS-A0T9 TCGA-BS-A0TA TCGA-BS-A0TC TCGA-BS-A0TD TCGA-BS-A0TG 
        9.86        46.95        23.47        85.55        78.21        77.95 
TCGA-BS-A0TJ TCGA-BS-A0U5 TCGA-BS-A0U7 TCGA-BS-A0U8 TCGA-BS-A0UA TCGA-BS-A0UF 
       67.99        96.49        30.74        97.41        88.34        85.84 
TCGA-BS-A0UJ TCGA-BS-A0UL TCGA-BS-A0V4 TCGA-BS-A0V6 TCGA-BS-A0VI TCGA-BS-A0WQ 
       82.39        81.57        59.51        62.79        63.16        66.48 
TCGA-D1-A0ZN TCGA-D1-A0ZO TCGA-D1-A0ZR TCGA-D1-A0ZS TCGA-D1-A0ZU TCGA-D1-A0ZV 
       16.83        19.79         0.56         4.87        28.67        23.93 
TCGA-D1-A101 TCGA-D1-A103 TCGA-D1-A15W TCGA-D1-A15X TCGA-D1-A15Z TCGA-D1-A160 
        1.74        21.99        30.08        29.88         1.91         3.68 
TCGA-D1-A161 TCGA-D1-A163 TCGA-D1-A165 TCGA-D1-A167 TCGA-D1-A16B TCGA-D1-A16D 
       29.33        32.58         0.66        15.72        36.36        37.51 
TCGA-D1-A16E TCGA-D1-A16G TCGA-D1-A16J TCGA-D1-A16O TCGA-D1-A16Q TCGA-D1-A16R 
       36.79        27.42        29.92        33.63        10.65         0.69 
TCGA-D1-A16X TCGA-D1-A16Y TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A176 TCGA-D1-A177 
        3.65        17.49        19.53         6.64        30.15        18.02 
TCGA-D1-A17A TCGA-D1-A17B TCGA-D1-A17C TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17H 
        1.58         7.00         0.99        30.44         1.28        28.01 
TCGA-D1-A17L TCGA-D1-A17M TCGA-D1-A17N TCGA-D1-A17Q TCGA-D1-A17S TCGA-D1-A17T 
       26.37        10.22         1.51         1.78        24.30         2.33 
TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NY TCGA-D1-A1NZ TCGA-D1-A1O5 TCGA-D1-A1O7 
       22.92         1.41        16.87        18.02        15.06         1.05 
TCGA-D1-A1O8 TCGA-D1-A2G0 TCGA-D1-A3DA TCGA-DI-A0WH TCGA-DI-A1BU TCGA-DI-A1BY 
        3.95         3.52         0.26        16.31        39.29        36.62 
TCGA-DI-A1C3 TCGA-E6-A1LX TCGA-E6-A1M0 TCGA-E6-A2P8 TCGA-E6-A2P9 TCGA-EC-A1NJ 
       24.30        23.38        17.06         2.37         6.67        16.01 
TCGA-EC-A1QX TCGA-EC-A24G TCGA-EO-A22R TCGA-EO-A22S TCGA-EO-A22T TCGA-EO-A22U 
        7.36        16.80        31.96        35.05        33.01        27.12 
TCGA-EO-A22X TCGA-EO-A3AU TCGA-EO-A3AV TCGA-EO-A3AY TCGA-EY-A1G8 TCGA-EY-A1GD 
       32.28        19.36        35.15        12.89        14.99         8.15 
TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GI TCGA-EY-A1GK TCGA-EY-A1GL TCGA-EY-A1GT 
       24.36        27.16        23.34        22.78        13.97        16.11 
TCGA-EY-A1GU TCGA-EY-A1H0 TCGA-EY-A215 TCGA-EY-A2OM TCGA-EY-A2OP TCGA-EY-A548 
       12.43        19.33        18.87        22.82        31.04         2.14 
TCGA-EY-A549 TCGA-EY-A5W2 TCGA-FI-A2CX TCGA-FI-A2D0 TCGA-FI-A2D5 TCGA-FI-A2D6 
        6.97         5.29        40.01        33.99        13.84         8.98 
TCGA-FI-A2F4 TCGA-QS-A5YQ TCGA-QS-A5YR 
       28.96         4.21         5.52 

$subtype2
TCGA-A5-A0G2 TCGA-A5-A0GN TCGA-A5-A0GV TCGA-A5-A0R7 TCGA-A5-A2K3 TCGA-A5-A3LO 
      149.56        60.53        20.81        17.59        46.32         7.33 
TCGA-AJ-A2QK TCGA-AJ-A2QN TCGA-AJ-A3BI TCGA-AJ-A3I9 TCGA-AP-A05P TCGA-AP-A3K1 
        0.39         2.40         2.24         1.28        20.91        18.25 
TCGA-AX-A05W TCGA-AX-A3FZ TCGA-B5-A0JT TCGA-B5-A11L TCGA-B5-A11P TCGA-B5-A11V 
       68.35         0.20        43.13        45.90        36.82        19.56 
TCGA-B5-A1MU TCGA-BG-A0M2 TCGA-BG-A0MS TCGA-BG-A0RY TCGA-BG-A0VT TCGA-BG-A18C 
       50.89        20.94        30.81        15.42        24.39        15.45 
TCGA-BG-A221 TCGA-BG-A2AE TCGA-BK-A0C9 TCGA-BS-A0TE TCGA-BS-A0TI TCGA-BS-A0UT 
        1.81        23.70        35.90         4.80        61.87        72.72 
TCGA-BS-A0V7 TCGA-D1-A0ZQ TCGA-D1-A102 TCGA-D1-A169 TCGA-D1-A16V TCGA-D1-A17R 
       63.58         8.55         4.44        37.32         1.41        11.15 
TCGA-D1-A2G5 TCGA-D1-A2G6 TCGA-EO-A1Y7 TCGA-EY-A1G7 TCGA-EY-A1GH TCGA-EY-A1GP 
       41.42         8.48         7.99         6.21        23.34        18.84 
TCGA-EY-A1GW TCGA-EY-A1GX TCGA-FI-A2D4 
        8.55         6.48         7.99 

$subtype3
TCGA-A5-A0G5 TCGA-A5-A0GJ TCGA-A5-A0GR TCGA-A5-A0R6 TCGA-A5-A1OG TCGA-A5-A1OH 
       37.02        65.75        36.82        19.96        11.44        36.33 
TCGA-A5-A2K2 TCGA-A5-A2K4 TCGA-A5-A3LP TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A2QM 
       91.04        28.64        14.96         1.18         1.08         0.85 
TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3EJ TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NF 
        0.49         1.12         1.64        22.26         0.92         1.35 
TCGA-AJ-A3NH TCGA-AJ-A3QS TCGA-AJ-A3TW TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A05A 
        0.76        16.87         1.71        21.99         5.95        39.42 
TCGA-AP-A05D TCGA-AP-A05H TCGA-AP-A05J TCGA-AP-A0L8 TCGA-AP-A0L9 TCGA-AP-A0LF 
       57.80        45.53        36.89        48.79       125.42         3.39 
TCGA-AP-A0LI TCGA-AP-A1DQ TCGA-AP-A5FX TCGA-AW-A1PO TCGA-AX-A06B TCGA-AX-A0IU 
       97.71        41.95        33.73         0.56        53.92        28.54 
TCGA-AX-A0IW TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CF TCGA-AX-A1CP 
       37.78        16.96        13.55        20.28        76.83        36.39 
TCGA-AX-A1CR TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HF 
       11.08         4.77        30.12        71.24        61.18        19.36 
TCGA-AX-A2HK TCGA-AX-A2IO TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3G1 TCGA-AX-A3G3 
        2.96        38.70         0.33         0.13        20.52         0.03 
TCGA-AX-A3G4 TCGA-AX-A3G7 TCGA-AX-A3GI TCGA-B5-A0JN TCGA-B5-A0K3 TCGA-B5-A0K8 
        0.13         0.23         0.13        80.38        23.01        17.85 
TCGA-B5-A0KB TCGA-B5-A11I TCGA-B5-A1MS TCGA-B5-A1MY TCGA-B5-A1N2 TCGA-B5-A3S1 
        4.11        75.72       102.31        11.87        12.79         5.03 
TCGA-B5-A5OD TCGA-B5-A5OE TCGA-BG-A0M6 TCGA-BG-A0M8 TCGA-BG-A0YV TCGA-BG-A3PP 
       34.13        34.95         7.92        36.49        12.56         6.81 
TCGA-BK-A0CC TCGA-BK-A139 TCGA-BK-A26L TCGA-BK-A4ZD TCGA-BS-A0U9 TCGA-BS-A0V8 
       10.22        10.16        24.13        16.64        67.20        49.55 
TCGA-D1-A0ZP TCGA-D1-A0ZZ TCGA-D1-A15V TCGA-D1-A16I TCGA-D1-A16N TCGA-D1-A16S 
       29.95        22.55        39.48        11.51        31.07        18.67 
TCGA-D1-A179 TCGA-D1-A17K TCGA-D1-A1NU TCGA-D1-A1NW TCGA-D1-A1NX TCGA-D1-A1O0 
        6.77        28.08        13.22         0.72        18.25         2.07 
TCGA-D1-A2G7 TCGA-D1-A3DG TCGA-D1-A3DH TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT 
       44.88         4.27         4.11        35.38         9.37        12.39 
TCGA-DI-A2QU TCGA-DI-A2QY TCGA-E6-A1LZ TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A2CG 
       31.10        91.96        48.36        10.92        10.78        32.38 
TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EO-A3AZ TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW 
       19.40        34.39        27.16        26.96        22.26        16.34 
TCGA-EY-A1GC TCGA-EY-A1GJ TCGA-EY-A1GM TCGA-EY-A1GR TCGA-EY-A1GS TCGA-EY-A1GV 
        4.54        23.90         6.90        17.62        15.09        15.81 
TCGA-EY-A210 TCGA-EY-A212 TCGA-EY-A214 TCGA-EY-A2ON TCGA-EY-A2OQ TCGA-EY-A3L3 
       12.59         3.62        14.40        13.45        29.10        27.35 
TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A547 TCGA-EY-A54A TCGA-FI-A2CY TCGA-FI-A2D2 
       13.84         6.44        17.92         3.72        34.98        36.00 
TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY TCGA-FI-A2F8 TCGA-FI-A2F9 
       96.69        59.01         9.07        28.93        25.02        26.01 
TCGA-FI-A3PV TCGA-H5-A2HR TCGA-K6-A3WQ TCGA-KJ-A3U4 TCGA-PG-A5BC 
       41.06         1.74        13.15         2.43        10.82 

$subtype4
TCGA-AJ-A3NG TCGA-AP-A0LO TCGA-AX-A2H7 TCGA-B5-A0K4 TCGA-B5-A11E TCGA-B5-A11R 
       15.62        33.40        33.53        17.88         8.71        33.50 
TCGA-BG-A0M4 TCGA-BS-A0UV TCGA-D1-A168 TCGA-EO-A22Y TCGA-EY-A1GQ 
       34.98        73.25        36.10        24.79        17.88 

$subtype5
TCGA-AP-A1DO TCGA-BG-A0MT TCGA-BG-A0W1 TCGA-EY-A1GO TCGA-EY-A2OO 
       31.30        21.17        52.83        19.27        45.76 

subtype1 subtype2 subtype3 subtype4 subtype5 
    0.10     0.20     0.03     8.71    19.27 
subtype1 subtype2 subtype3 subtype4 subtype5 
  191.84   149.56   125.42    73.25    52.83 
subtype1 subtype2 subtype3 subtype4 subtype5 
   24.99    18.84    18.25    33.40    31.30 
[1] "0.1 - 191.8 (25.0)" "0.2 - 149.6 (18.8)" "0.0 - 125.4 (18.2)"
[4] "8.7 - 73.2 (33.4)"  "19.3 - 52.8 (31.3)"
D3V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                     274
  subtype2                                      41
  subtype3                                      38
  subtype4                                      10
  subtype5                                       4
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             7                                 5
  subtype2                             0                                 4
  subtype3                            11                                89
  subtype4                             1                                 0
  subtype5                             1                                 0
D3V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA      274       41       38       10
  MIXED SEROUS AND ENDOMETRIOID                  7        0       11        1
  SEROUS ENDOMETRIAL ADENOCARCINOMA              5        4       89        0
                                         clus
vv                                        subtype5
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA        4
  MIXED SEROUS AND ENDOMETRIOID                  1
  SEROUS ENDOMETRIAL ADENOCARCINOMA              0
[1] 3 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V4, binary
          cls
clus         0   1
  subtype1  95 191
  subtype2   6  39
  subtype3  30 108
  subtype4   5   6
  subtype5   2   3
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   95  191
  subtype2    6   39
  subtype3   30  108
  subtype4    5    6
  subtype5    2    3
     clus
vv    subtype1 subtype2 subtype3 subtype4 subtype5
  NO        95        6       30        5        2
  YES      191       39      108        6        3
[1] 2 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1 205  13   5  16
  subtype2  31   1   2   3
  subtype3  87   8  10  10
  subtype4   8   0   0   0
  subtype5   5   0   0   0
D3V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4 subtype5
  R0      205       31       87        8        5
  R1       13        1        8        0        0
  R2        5        2       10        0        0
  RX       16        3       10        0        0
[1] 4 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                3    13                        31
  subtype2                                0     4                         2
  subtype3                                1     2                        39
  subtype4                                0     0                         1
  subtype5                                0     0                         0
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         4   223
  subtype2                                         1    37
  subtype3                                         3    83
  subtype4                                         1     7
  subtype5                                         0     5
D3V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE                 3        0        1        0
  ASIAN                                           13        4        2        0
  BLACK OR AFRICAN AMERICAN                       31        2       39        1
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        4        1        3        1
  WHITE                                          223       37       83        7
                                           clus
vv                                          subtype5
  AMERICAN INDIAN OR ALASKA NATIVE                 0
  ASIAN                                            0
  BLACK OR AFRICAN AMERICAN                        0
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        0
  WHITE                                            5
[1] 5 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V7, binary
          cls
clus         0   1
  subtype1   7 196
  subtype2   2  35
  subtype3   4  93
  subtype4   0   7
  subtype5   0   5
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7  196
  subtype2    2   35
  subtype3    4   93
  subtype4    0    7
  subtype5    0    5
                        clus
vv                       subtype1 subtype2 subtype3 subtype4 subtype5
  HISPANIC OR LATINO            7        2        4        0        0
  NOT HISPANIC OR LATINO      196       35       93        7        5
[1] 2 5
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(4) Variable = METHLYATION_CNMF
D4V1, survival
          sevent
clus2        0   1
  subtype1 117  24
  subtype2  70   7
  subtype3 146  14
subtype1 subtype2 subtype3 
     141       77      160 
subtype1 subtype2 subtype3 
      24        7       14 
$subtype1
TCGA-A5-A0G1 TCGA-A5-A0GR TCGA-A5-A1OF TCGA-A5-A1OG TCGA-A5-A1OH TCGA-A5-A2K2 
      106.88        36.82         7.92        11.44        36.33        91.04 
TCGA-A5-A2K3 TCGA-A5-A2K4 TCGA-A5-A3LP TCGA-AJ-A23M TCGA-AJ-A2QM TCGA-AJ-A3BF 
       46.32        28.64        14.96         1.18         0.85         1.12 
TCGA-AJ-A3EJ TCGA-AJ-A3EL TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NE TCGA-AJ-A3NF 
        1.64        22.49        22.26         0.92        20.65         1.35 
TCGA-AJ-A3NH TCGA-AJ-A3OJ TCGA-AJ-A3QS TCGA-AJ-A3TW TCGA-AP-A059 TCGA-AP-A0LF 
        0.76         1.94        16.87         1.71         8.22         3.39 
TCGA-AP-A0LM TCGA-AP-A1DK TCGA-AP-A1E4 TCGA-AP-A3K1 TCGA-AP-A5FX TCGA-AX-A06D 
       27.12        60.36        16.24        18.25        33.73        12.26 
TCGA-AX-A0IZ TCGA-AX-A1C5 TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CC 
       43.82        19.20        16.96        13.55        20.28        12.43 
TCGA-AX-A1CF TCGA-AX-A1CN TCGA-AX-A1CR TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 
       76.83        25.12        11.08         4.77        30.12        71.24 
TCGA-AX-A2H8 TCGA-AX-A2HF TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A2HK TCGA-AX-A2IN 
       61.18        19.36        26.33        17.75         2.96        31.13 
TCGA-AX-A3FT TCGA-AX-A3FZ TCGA-AX-A3G3 TCGA-AX-A3G7 TCGA-AX-A3G8 TCGA-AX-A3GI 
        0.10         0.20         0.03         0.23         1.18         0.13 
TCGA-B5-A0K8 TCGA-B5-A0KB TCGA-B5-A11I TCGA-B5-A11X TCGA-B5-A1MR TCGA-B5-A1MU 
       17.85         4.11        75.72        19.59       191.84        50.89 
TCGA-B5-A1MY TCGA-B5-A1N2 TCGA-B5-A3S1 TCGA-B5-A5OC TCGA-B5-A5OD TCGA-B5-A5OE 
       11.87        12.79         5.03        41.06        34.13        34.95 
TCGA-BG-A0YV TCGA-BG-A18C TCGA-BG-A220 TCGA-BG-A221 TCGA-BG-A2AE TCGA-BK-A0CC 
       12.56        15.45        14.27         1.81        23.70        10.22 
TCGA-BK-A139 TCGA-BK-A26L TCGA-BS-A0U9 TCGA-BS-A0V8 TCGA-D1-A0ZP TCGA-D1-A0ZS 
       10.16        24.13        67.20        49.55        29.95         4.87 
TCGA-D1-A0ZZ TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A168 TCGA-D1-A16G TCGA-D1-A16I 
       22.55        39.48        29.88        36.10        27.42        11.51 
TCGA-D1-A16J TCGA-D1-A16S TCGA-D1-A179 TCGA-D1-A17K TCGA-D1-A1NU TCGA-D1-A1NW 
       29.92        18.67         6.77        28.08        13.22         0.72 
TCGA-D1-A1NX TCGA-D1-A1O8 TCGA-D1-A2G0 TCGA-D1-A3DG TCGA-D1-A3DH TCGA-DI-A1BU 
       18.25         3.95         3.52         4.27         4.11        39.29 
TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT TCGA-E6-A1LZ TCGA-E6-A2P8 TCGA-EC-A1QX 
       35.38         9.37        12.39        48.36         2.37         7.36 
TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A22T TCGA-EO-A22X TCGA-EO-A3AV TCGA-EO-A3AZ 
       10.92        10.78        33.01        32.28        35.15        27.16 
TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1G7 TCGA-EY-A1GC TCGA-EY-A1GJ 
       26.96        22.26        16.34         6.21         4.54        23.90 
TCGA-EY-A1GM TCGA-EY-A1GO TCGA-EY-A1GP TCGA-EY-A1GS TCGA-EY-A1GV TCGA-EY-A212 
        6.90        19.27        18.84        15.09        15.81         3.62 
TCGA-EY-A214 TCGA-EY-A2ON TCGA-EY-A2OO TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A3QX 
       14.40        13.45        45.76        29.10        27.35        13.84 
TCGA-EY-A4KR TCGA-EY-A54A TCGA-FI-A2CX TCGA-FI-A2CY TCGA-FI-A2D2 TCGA-FI-A2D6 
        6.44         3.72        40.01        34.98        36.00         8.98 
TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY TCGA-FI-A2F8 TCGA-FI-A3PV 
       96.69        59.01         9.07        28.93        25.02        41.06 
TCGA-H5-A2HR TCGA-K6-A3WQ TCGA-KJ-A3U4 
        1.74        13.15         2.43 

$subtype2
TCGA-A5-A0GG TCGA-A5-A0GQ TCGA-A5-A1OJ TCGA-A5-A1OK TCGA-A5-A3LO TCGA-AJ-A23N 
       87.32        38.37         9.60         8.02         7.33         1.08 
TCGA-AJ-A2QK TCGA-AJ-A3BD TCGA-AJ-A3OK TCGA-AJ-A5DW TCGA-AJ-A8CT TCGA-AP-A1DQ 
        0.39         0.49        15.95         2.33         2.70        41.95 
TCGA-AP-A1E3 TCGA-AW-A1PO TCGA-AX-A06L TCGA-AX-A1C9 TCGA-AX-A1CJ TCGA-AX-A1CP 
       27.85         0.56        60.66        15.25        54.12        36.39 
TCGA-AX-A2H7 TCGA-AX-A2IO TCGA-AX-A3G4 TCGA-B5-A11M TCGA-B5-A11O TCGA-B5-A11P 
       33.53        38.70         0.13        44.78        40.50        36.82 
TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11U TCGA-B5-A11Y TCGA-B5-A121 TCGA-B5-A1MS 
       33.50        27.35        16.73        18.41        16.57       102.31 
TCGA-BG-A0VV TCGA-BG-A0VX TCGA-BG-A0W1 TCGA-BG-A0W2 TCGA-BG-A0YU TCGA-BG-A186 
       26.66        34.29        52.83        56.58        14.83        13.78 
TCGA-BG-A18A TCGA-BG-A3PP TCGA-BK-A56F TCGA-BK-A6W4 TCGA-BS-A0T9 TCGA-BS-A0UL 
       14.01         6.81        13.18         9.86        46.95        81.57 
TCGA-BS-A0V7 TCGA-D1-A0ZR TCGA-D1-A0ZV TCGA-D1-A15W TCGA-D1-A162 TCGA-D1-A165 
       63.58         0.56        23.93        30.08        37.64         0.66 
TCGA-D1-A16B TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16O TCGA-D1-A16Q TCGA-D1-A16R 
       36.36        37.51        36.79        33.63        10.65         0.69 
TCGA-D1-A16X TCGA-D1-A16Y TCGA-D1-A17B TCGA-D1-A17C TCGA-D1-A17L TCGA-D1-A17N 
        3.65        17.49         7.00         0.99        26.37         1.51 
TCGA-D1-A17S TCGA-D1-A1O5 TCGA-D1-A2G7 TCGA-DI-A0WH TCGA-DI-A1BY TCGA-DI-A1C3 
       24.30        15.06        44.88        16.31        36.62        24.30 
TCGA-DI-A2QU TCGA-DI-A2QY TCGA-EO-A2CG TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EY-A1GR 
       31.10        91.96        32.38        19.40        34.39        17.62 
TCGA-EY-A210 TCGA-FI-A2D0 TCGA-FI-A2F9 TCGA-PG-A5BC TCGA-QS-A5YQ 
       12.59        33.99        26.01        10.82         4.21 

$subtype3
TCGA-5S-A9Q8 TCGA-A5-A0VO TCGA-A5-A2K5 TCGA-A5-A2K7 TCGA-AJ-A23O TCGA-AJ-A2QL 
        1.08        11.97         5.33         5.16         1.97        19.79 
TCGA-AJ-A2QN TCGA-AJ-A2QO TCGA-AJ-A3BG TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3EK 
        2.40         3.02         0.76         2.24         1.68        14.66 
TCGA-AJ-A3I9 TCGA-AJ-A3NC TCGA-AJ-A3NG TCGA-AJ-A3OL TCGA-AJ-A8CW TCGA-AP-A05O 
        1.28        36.99        15.62         1.87         0.13        12.20 
TCGA-AP-A0LS TCGA-AP-A1DH TCGA-AP-A1DM TCGA-AP-A1DO TCGA-AP-A1DP TCGA-AP-A1DR 
       63.06        71.67        55.89        31.30        35.54        49.15 
TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AX-A06H TCGA-AX-A0IS TCGA-AX-A0J0 
        6.71        30.90        10.42        27.39        35.01        40.11 
TCGA-AX-A1C4 TCGA-AX-A1CE TCGA-AX-A1CI TCGA-AX-A1CK TCGA-AX-A2HA TCGA-AX-A2HC 
       13.28        20.05        72.56        67.50        68.71        33.40 
TCGA-AX-A2HD TCGA-AX-A2HJ TCGA-AX-A3FS TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3G1 
       40.50        27.32         0.23         0.33         0.13        20.52 
TCGA-AX-A3G9 TCGA-AX-A3GB TCGA-B5-A0JT TCGA-B5-A0JU TCGA-B5-A0JX TCGA-B5-A11E 
        8.35        14.47        43.13        48.76        44.71         8.71 
TCGA-B5-A11F TCGA-B5-A11G TCGA-B5-A11H TCGA-B5-A11J TCGA-B5-A11L TCGA-B5-A11N 
      185.79       113.36        88.34        54.44        45.90        43.96 
TCGA-B5-A11Q TCGA-B5-A11V TCGA-B5-A11W TCGA-B5-A11Z TCGA-B5-A1MV TCGA-B5-A1MW 
       32.09        19.56        19.50        17.36        14.40        14.70 
TCGA-B5-A1MX TCGA-B5-A1MZ TCGA-B5-A3FC TCGA-BG-A0MA TCGA-BG-A0MH TCGA-BG-A0MK 
       11.70        15.29        62.14        10.72        44.09        43.30 
TCGA-BG-A0VT TCGA-BG-A0VW TCGA-BG-A0VZ TCGA-BG-A187 TCGA-BG-A18B TCGA-BG-A222 
       24.39        16.34        28.54        14.73        15.45         9.57 
TCGA-BG-A2AD TCGA-BG-A2L7 TCGA-BG-A3EW TCGA-BK-A0CA TCGA-BK-A13B TCGA-BK-A13C 
       35.67        20.12        11.31        34.98        31.76        24.99 
TCGA-BK-A4ZD TCGA-BK-A6W3 TCGA-BS-A0U5 TCGA-BS-A0UA TCGA-BS-A0V4 TCGA-BS-A0V6 
       16.64        10.03        96.49        88.34        59.51        62.79 
TCGA-BS-A0VI TCGA-BS-A0WQ TCGA-D1-A0ZN TCGA-D1-A0ZO TCGA-D1-A0ZQ TCGA-D1-A0ZU 
       63.16        66.48        16.83        19.79         8.55        28.67 
TCGA-D1-A101 TCGA-D1-A102 TCGA-D1-A103 TCGA-D1-A15Z TCGA-D1-A160 TCGA-D1-A161 
        1.74         4.44        21.99         1.91         3.68        29.33 
TCGA-D1-A163 TCGA-D1-A167 TCGA-D1-A169 TCGA-D1-A16F TCGA-D1-A16N TCGA-D1-A16V 
       32.58        15.72        37.32         2.63        31.07         1.41 
TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A176 TCGA-D1-A177 TCGA-D1-A17A TCGA-D1-A17D 
       19.53         6.64        30.15        18.02         1.58        30.44 
TCGA-D1-A17F TCGA-D1-A17H TCGA-D1-A17M TCGA-D1-A17Q TCGA-D1-A17R TCGA-D1-A17T 
        1.28        28.01        10.22         1.78        11.15         2.33 
TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NY TCGA-D1-A1NZ TCGA-D1-A1O0 TCGA-D1-A1O7 
       22.92         1.41        16.87        18.02         2.07         1.05 
TCGA-D1-A2G5 TCGA-D1-A2G6 TCGA-D1-A3DA TCGA-E6-A1LX TCGA-E6-A1M0 TCGA-E6-A2P9 
       41.42         8.48         0.26        23.38        17.06         6.67 
TCGA-EC-A1NJ TCGA-EC-A24G TCGA-EO-A1Y7 TCGA-EO-A22R TCGA-EO-A22S TCGA-EO-A22U 
       16.01        16.80         7.99        31.96        35.05        27.12 
TCGA-EO-A22Y TCGA-EO-A3AU TCGA-EO-A3AY TCGA-EY-A1G8 TCGA-EY-A1GD TCGA-EY-A1GE 
       24.79        19.36        12.89        14.99         8.15        24.36 
TCGA-EY-A1GF TCGA-EY-A1GH TCGA-EY-A1GI TCGA-EY-A1GK TCGA-EY-A1GL TCGA-EY-A1GQ 
       27.16        23.34        23.34        22.78        13.97        17.88 
TCGA-EY-A1GT TCGA-EY-A1GU TCGA-EY-A1GW TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A215 
       16.11        12.43         8.55         6.48        19.33        18.87 
TCGA-EY-A2OM TCGA-EY-A2OP TCGA-EY-A547 TCGA-EY-A548 TCGA-EY-A549 TCGA-EY-A5W2 
       22.82        31.04        17.92         2.14         6.97         5.29 
TCGA-FI-A2D4 TCGA-FI-A2D5 TCGA-FI-A2F4 TCGA-QS-A5YR 
        7.99        13.84        28.96         5.52 

subtype1 subtype2 subtype3 
    0.03     0.13     0.13 
subtype1 subtype2 subtype3 
  191.84   102.31   185.79 
subtype1 subtype2 subtype3 
   16.96    24.30    17.90 
[1] "0.0 - 191.8 (17.0)" "0.1 - 102.3 (24.3)" "0.1 - 185.8 (17.9)"
D4V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      59
  subtype2                                      62
  subtype3                                     157
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            15                                69
  subtype2                             1                                14
  subtype3                             3                                 0
D4V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       59       62      157
  MIXED SEROUS AND ENDOMETRIOID                 15        1        3
  SEROUS ENDOMETRIAL ADENOCARCINOMA             69       14        0
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V4, binary
          cls
clus         0   1
  subtype1  37 106
  subtype2  12  65
  subtype3  38 122
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   37  106
  subtype2   12   65
  subtype3   38  122
     clus
vv    subtype1 subtype2 subtype3
  NO        37       12       38
  YES      106       65      122
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1  91   9   8  10
  subtype2  48   3   4  11
  subtype3 114   6   1   7
D4V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0       91       48      114
  R1        9        3        6
  R2        8        4        1
  RX       10       11        7
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     2                        32
  subtype2                                0     2                        13
  subtype3                                1     3                        23
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         3    95
  subtype2                                         4    55
  subtype3                                         0   125
D4V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        0        1
  ASIAN                                            2        2        3
  BLACK OR AFRICAN AMERICAN                       32       13       23
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        3        4        0
  WHITE                                           95       55      125
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V7, binary
          cls
clus         0   1
  subtype1   6 100
  subtype2   1  58
  subtype3   3 117
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  100
  subtype2    1   58
  subtype3    3  117
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            6        1        3
  NOT HISPANIC OR LATINO      100       58      117
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(5) Variable = RPPA_CNMF
D5V1, survival
          sevent
clus2       0  1
  subtype1 38  4
  subtype2 33  6
  subtype3 39  1
  subtype4  8  4
  subtype5 39  2
  subtype6 23  3
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
      42       39       40       12       41       26 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
       4        6        1        4        2        3 
$subtype1
TCGA-A5-A0G1 TCGA-A5-A0GE TCGA-A5-A0GQ TCGA-A5-A0GR TCGA-A5-A0R8 TCGA-A5-A0RA 
      106.88       105.37        38.37        36.82        19.59        29.06 
TCGA-A5-A0VP TCGA-AP-A059 TCGA-AP-A05J TCGA-AP-A0LF TCGA-AP-A0LI TCGA-AP-A0LM 
       42.35         8.22        36.89         3.39        97.71        27.12 
TCGA-AX-A05Z TCGA-AX-A064 TCGA-AX-A06D TCGA-AX-A06L TCGA-B5-A0K2 TCGA-B5-A0K4 
       46.45        34.98        12.26        60.66        25.91        17.88 
TCGA-B5-A11I TCGA-B5-A11U TCGA-B5-A11Y TCGA-BG-A0M0 TCGA-BG-A0M2 TCGA-BG-A0MG 
       75.72        16.73        18.41        19.33        20.94        48.56 
TCGA-BK-A0CA TCGA-BK-A0CC TCGA-BK-A139 TCGA-BS-A0T9 TCGA-BS-A0U9 TCGA-D1-A0ZR 
       34.98        10.22        10.16        46.95        67.20         0.56 
TCGA-D1-A101 TCGA-D1-A15X TCGA-D1-A163 TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F 
        1.74        29.88        32.58        37.51        36.79         2.63 
TCGA-D1-A16G TCGA-D1-A16J TCGA-D1-A16X TCGA-D1-A17B TCGA-D1-A17D TCGA-D1-A17N 
       27.42        29.92         3.65         7.00        30.44         1.51 

$subtype2
TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0GH TCGA-A5-A0GV TCGA-A5-A0GW 
      149.56        46.95        37.02        74.10        20.81        23.21 
TCGA-A5-A0R6 TCGA-A5-A0R7 TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A054 TCGA-AP-A056 
       19.96        17.59        21.99         5.95        23.31        86.07 
TCGA-AP-A05A TCGA-AP-A05D TCGA-AP-A0LD TCGA-AP-A0LE TCGA-AP-A0LT TCGA-AX-A06B 
       39.42        57.80       117.99       110.37        49.22        53.92 
TCGA-AX-A06F TCGA-AX-A0J0 TCGA-B5-A0JN TCGA-B5-A0JY TCGA-B5-A0K3 TCGA-B5-A11E 
       51.09        40.11        80.38        32.55        23.01         8.71 
TCGA-B5-A11H TCGA-B5-A11X TCGA-BG-A0RY TCGA-BG-A0YV TCGA-BG-A18C TCGA-BS-A0TA 
       88.34        19.59        15.42        12.56        15.45        23.47 
TCGA-BS-A0TJ TCGA-D1-A167 TCGA-D1-A168 TCGA-D1-A16N TCGA-D1-A16S TCGA-D1-A177 
       67.99        15.72        36.10        31.07        18.67        18.02 
TCGA-D1-A179 TCGA-D1-A17K TCGA-D1-A17R 
        6.77        28.08        11.15 

$subtype3
TCGA-A5-A0G9 TCGA-A5-A0GB TCGA-A5-A0GJ TCGA-A5-A0GM TCGA-AX-A05W TCGA-AX-A063 
       83.51        32.78        65.75        60.53        68.35        66.58 
TCGA-AX-A06J TCGA-AX-A0J1 TCGA-B5-A0JZ TCGA-B5-A0K1 TCGA-B5-A11F TCGA-B5-A11N 
       30.02        65.88        28.64        30.51       185.79        43.96 
TCGA-B5-A11Q TCGA-B5-A11S TCGA-B5-A11W TCGA-BG-A0LX TCGA-BG-A0M7 TCGA-BG-A0M9 
       32.09        27.35        19.50        20.19        38.37        28.27 
TCGA-BG-A0MC TCGA-BG-A0MH TCGA-BG-A0MS TCGA-BG-A0MT TCGA-BG-A0W1 TCGA-BG-A0YU 
       41.52        44.09        30.81        21.17        52.83        14.83 
TCGA-BG-A186 TCGA-BG-A18A TCGA-BG-A18B TCGA-BK-A0CB TCGA-BK-A13C TCGA-BS-A0U7 
       13.78        14.01        15.45         6.21        24.99        30.74 
TCGA-BS-A0U8 TCGA-D1-A0ZZ TCGA-D1-A15W TCGA-D1-A160 TCGA-D1-A16O TCGA-D1-A175 
       97.41        22.55        30.08         3.68        33.63         6.64 
TCGA-D1-A17H TCGA-D1-A17L TCGA-D1-A17M TCGA-D1-A17Q 
       28.01        26.37        10.22         1.78 

$subtype4
TCGA-A5-A0GA TCGA-A5-A0GD TCGA-A5-A0GG TCGA-AP-A0LP TCGA-AX-A05S TCGA-AX-A05Y 
       17.85         3.22        87.32        61.64        13.58        72.03 
TCGA-AX-A060 TCGA-BG-A0M4 TCGA-BK-A0C9 TCGA-BS-A0TC TCGA-BS-A0UF TCGA-D1-A16V 
       35.34        34.98        35.90        85.55        85.84         1.41 

$subtype5
TCGA-A5-A0GI TCGA-A5-A0GN TCGA-A5-A0GU TCGA-A5-A0R9 TCGA-A5-A0VQ TCGA-AP-A051 
       57.53        60.53        28.27        24.62        15.95        83.67 
TCGA-AP-A05N TCGA-AP-A05O TCGA-AP-A05P TCGA-AP-A0LG TCGA-AP-A0LJ TCGA-AP-A0LL 
        7.86        12.20        20.91        63.16        31.73        83.97 
TCGA-AP-A0LN TCGA-AP-A0LV TCGA-AX-A05T TCGA-AX-A05U TCGA-AX-A062 TCGA-AX-A0IS 
       82.52        25.08        19.82        29.69        45.99        35.01 
TCGA-B5-A0K0 TCGA-B5-A0K7 TCGA-B5-A11G TCGA-B5-A11V TCGA-B5-A11Z TCGA-B5-A121 
       28.34        17.10       113.36        19.56        17.36        16.57 
TCGA-BG-A0M3 TCGA-BG-A0MU TCGA-BG-A0VT TCGA-BG-A0VV TCGA-BS-A0TI TCGA-BS-A0UJ 
       35.21        20.28        24.39        26.66        61.87        82.39 
TCGA-BS-A0V7 TCGA-D1-A15Z TCGA-D1-A165 TCGA-D1-A16B TCGA-D1-A16Q TCGA-D1-A16Y 
       63.58         1.91         0.66        36.36        10.65        17.49 
TCGA-D1-A176 TCGA-D1-A17C TCGA-D1-A17S TCGA-D1-A17T TCGA-DI-A0WH 
       30.15         0.99        24.30         2.33        16.31 

$subtype6
TCGA-A5-A0GX TCGA-A5-A0VO TCGA-AP-A05H TCGA-AP-A0LH TCGA-AX-A0IW TCGA-AX-A0IZ 
       68.65        11.97        45.53        36.36        37.78        43.82 
TCGA-B5-A0JT TCGA-B5-A0K9 TCGA-BG-A0LW TCGA-BG-A0M6 TCGA-BG-A0M8 TCGA-BG-A187 
       43.13        11.01        18.61         7.92        36.49        14.73 
TCGA-BS-A0TD TCGA-BS-A0TG TCGA-D1-A0ZP TCGA-D1-A0ZU TCGA-D1-A102 TCGA-D1-A103 
       78.21        77.95        29.95        28.67         4.44        21.99 
TCGA-D1-A15V TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A169 TCGA-D1-A16I TCGA-D1-A16R 
       39.48        29.33        37.64        37.32        11.51         0.69 
TCGA-D1-A17F TCGA-D1-A17U 
        1.28        22.92 

subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
    0.56     5.95     1.78     1.41     0.66     0.69 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
  106.88   149.56   185.79    87.32   113.36    78.21 
subtype1 subtype2 subtype3 subtype4 subtype5 subtype6 
   29.47    28.08    30.05    35.62    25.08    29.64 
[1] "0.6 - 106.9 (29.5)" "6.0 - 149.6 (28.1)" "1.8 - 185.8 (30.0)"
[4] "1.4 - 87.3 (35.6)"  "0.7 - 113.4 (25.1)" "0.7 - 78.2 (29.6)" 
D5V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      35
  subtype2                                      28
  subtype3                                      39
  subtype4                                      12
  subtype5                                      41
  subtype6                                      19
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             1                                 6
  subtype2                             0                                11
  subtype3                             1                                 0
  subtype4                             0                                 0
  subtype5                             0                                 0
  subtype6                             1                                 6
D5V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       35       28       39       12
  MIXED SEROUS AND ENDOMETRIOID                  1        0        1        0
  SEROUS ENDOMETRIAL ADENOCARCINOMA              6       11        0        0
                                         clus
vv                                        subtype5 subtype6
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       41       19
  MIXED SEROUS AND ENDOMETRIOID                  0        1
  SEROUS ENDOMETRIAL ADENOCARCINOMA              0        6
[1] 3 6
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V4, binary
          cls
clus        0  1
  subtype1 20 22
  subtype2 19 20
  subtype3 13 27
  subtype4  4  8
  subtype5 13 28
  subtype6 11 15
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   20   22
  subtype2   19   20
  subtype3   13   27
  subtype4    4    8
  subtype5   13   28
  subtype6   11   15
     clus
vv    subtype1 subtype2 subtype3 subtype4 subtype5 subtype6
  NO        20       19       13        4       13       11
  YES       22       20       27        8       28       15
[1] 2 6
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       R0 R1 R2 RX
  subtype1 24  3  3  6
  subtype2 29  1  1  2
  subtype3 26  0  0  5
  subtype4 10  1  1  0
  subtype5 32  2  0  1
  subtype6 22  0  0  2
D5V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4 subtype5 subtype6
  R0       24       29       26       10       32       22
  R1        3        1        0        1        2        0
  R2        3        1        0        1        0        0
  RX        6        2        5        0        1        2
[1] 4 6
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     1                         6
  subtype2                                0     3                         6
  subtype3                                0     0                         2
  subtype4                                1     2                         1
  subtype5                                1     2                         3
  subtype6                                0     1                         0
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         2    30
  subtype2                                         1    28
  subtype3                                         0    38
  subtype4                                         0     8
  subtype5                                         1    33
  subtype6                                         0    25
D5V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE                 0        0        0        1
  ASIAN                                            1        3        0        2
  BLACK OR AFRICAN AMERICAN                        6        6        2        1
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        2        1        0        0
  WHITE                                           30       28       38        8
                                           clus
vv                                          subtype5 subtype6
  AMERICAN INDIAN OR ALASKA NATIVE                 1        0
  ASIAN                                            2        1
  BLACK OR AFRICAN AMERICAN                        3        0
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        1        0
  WHITE                                           33       25
[1] 5 6
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V7, binary
          cls
clus        0  1
  subtype1  2 29
  subtype2  2 21
  subtype3  0 30
  subtype4  0 10
  subtype5  1 23
  subtype6  0 22
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   29
  subtype2    2   21
  subtype3    0   30
  subtype4    0   10
  subtype5    1   23
  subtype6    0   22
                        clus
vv                       subtype1 subtype2 subtype3 subtype4 subtype5 subtype6
  HISPANIC OR LATINO            2        2        0        0        1        0
  NOT HISPANIC OR LATINO       29       21       30       10       23       22
[1] 2 6
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = RPPA_CHIERARCHICAL
D6V1, survival
          sevent
clus2       0  1
  subtype1 59 11
  subtype2 63  4
  subtype3 40  4
  subtype4 18  1
subtype1 subtype2 subtype3 subtype4 
      70       67       44       19 
subtype1 subtype2 subtype3 subtype4 
      11        4        4        1 
$subtype1
TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0GE TCGA-A5-A0GH 
      106.88       149.56        46.95        37.02       105.37        74.10 
TCGA-A5-A0GQ TCGA-A5-A0R8 TCGA-A5-A0VP TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A054 
       38.37        19.59        42.35        21.99         5.95        23.31 
TCGA-AP-A056 TCGA-AP-A05A TCGA-AP-A05J TCGA-AP-A0LD TCGA-AP-A0LF TCGA-AP-A0LI 
       86.07        39.42        36.89       117.99         3.39        97.71 
TCGA-AP-A0LT TCGA-AX-A05S TCGA-AX-A05T TCGA-AX-A064 TCGA-AX-A06D TCGA-AX-A06F 
       49.22        13.58        19.82        34.98        12.26        51.09 
TCGA-AX-A06L TCGA-AX-A0J0 TCGA-B5-A0JN TCGA-B5-A0JY TCGA-B5-A0K3 TCGA-B5-A0K7 
       60.66        40.11        80.38        32.55        23.01        17.10 
TCGA-B5-A11H TCGA-B5-A11I TCGA-B5-A11X TCGA-B5-A11Y TCGA-BG-A0M0 TCGA-BG-A0M6 
       88.34        75.72        19.59        18.41        19.33         7.92 
TCGA-BG-A0MG TCGA-BG-A0YV TCGA-BK-A0CA TCGA-BK-A0CC TCGA-BK-A139 TCGA-BS-A0T9 
       48.56        12.56        34.98        10.22        10.16        46.95 
TCGA-BS-A0TA TCGA-BS-A0U9 TCGA-BS-A0V7 TCGA-D1-A0ZR TCGA-D1-A0ZZ TCGA-D1-A101 
       23.47        67.20        63.58         0.56        22.55         1.74 
TCGA-D1-A15W TCGA-D1-A15X TCGA-D1-A163 TCGA-D1-A167 TCGA-D1-A168 TCGA-D1-A16D 
       30.08        29.88        32.58        15.72        36.10        37.51 
TCGA-D1-A16E TCGA-D1-A16F TCGA-D1-A16G TCGA-D1-A16J TCGA-D1-A16Q TCGA-D1-A16S 
       36.79         2.63        27.42        29.92        10.65        18.67 
TCGA-D1-A16X TCGA-D1-A16Y TCGA-D1-A176 TCGA-D1-A177 TCGA-D1-A179 TCGA-D1-A17B 
        3.65        17.49        30.15        18.02         6.77         7.00 
TCGA-D1-A17C TCGA-D1-A17N TCGA-D1-A17S TCGA-D1-A17T 
        0.99         1.51        24.30         2.33 

$subtype2
TCGA-A5-A0G9 TCGA-A5-A0GJ TCGA-A5-A0GM TCGA-A5-A0GR TCGA-A5-A0GU TCGA-A5-A0GV 
       83.51        65.75        60.53        36.82        28.27        20.81 
TCGA-A5-A0GW TCGA-A5-A0R6 TCGA-A5-A0R7 TCGA-A5-A0R9 TCGA-A5-A0RA TCGA-A5-A0VQ 
       23.21        19.96        17.59        24.62        29.06        15.95 
TCGA-AP-A051 TCGA-AP-A059 TCGA-AP-A05D TCGA-AP-A05N TCGA-AP-A05O TCGA-AP-A05P 
       83.67         8.22        57.80         7.86        12.20        20.91 
TCGA-AP-A0LE TCGA-AP-A0LG TCGA-AP-A0LH TCGA-AP-A0LJ TCGA-AP-A0LL TCGA-AP-A0LM 
      110.37        63.16        36.36        31.73        83.97        27.12 
TCGA-AP-A0LN TCGA-AP-A0LV TCGA-AX-A05U TCGA-AX-A05Z TCGA-AX-A062 TCGA-AX-A06B 
       82.52        25.08        29.69        46.45        45.99        53.92 
TCGA-AX-A06J TCGA-B5-A0K0 TCGA-B5-A0K2 TCGA-B5-A0K4 TCGA-B5-A11E TCGA-B5-A11G 
       30.02        28.34        25.91        17.88         8.71       113.36 
TCGA-B5-A11N TCGA-B5-A11Q TCGA-B5-A11S TCGA-B5-A11U TCGA-B5-A11V TCGA-B5-A11W 
       43.96        32.09        27.35        16.73        19.56        19.50 
TCGA-B5-A11Z TCGA-B5-A121 TCGA-BG-A0LW TCGA-BG-A0LX TCGA-BG-A0M2 TCGA-BG-A0M8 
       17.36        16.57        18.61        20.19        20.94        36.49 
TCGA-BG-A0MT TCGA-BG-A0RY TCGA-BG-A0VT TCGA-BG-A0W1 TCGA-BG-A0YU TCGA-BG-A187 
       21.17        15.42        24.39        52.83        14.83        14.73 
TCGA-BG-A18A TCGA-BG-A18C TCGA-BK-A0CB TCGA-BK-A13C TCGA-BS-A0UJ TCGA-D1-A15Z 
       14.01        15.45         6.21        24.99        82.39         1.91 
TCGA-D1-A165 TCGA-D1-A16B TCGA-D1-A17D TCGA-D1-A17K TCGA-D1-A17L TCGA-D1-A17R 
        0.66        36.36        30.44        28.08        26.37        11.15 
TCGA-DI-A0WH 
       16.31 

$subtype3
TCGA-A5-A0GA TCGA-A5-A0GB TCGA-A5-A0GD TCGA-A5-A0GG TCGA-A5-A0GI TCGA-A5-A0GN 
       17.85        32.78         3.22        87.32        57.53        60.53 
TCGA-AP-A0LP TCGA-AX-A05W TCGA-AX-A05Y TCGA-AX-A060 TCGA-AX-A063 TCGA-AX-A0IS 
       61.64        68.35        72.03        35.34        66.58        35.01 
TCGA-AX-A0J1 TCGA-B5-A0JZ TCGA-B5-A0K1 TCGA-B5-A11F TCGA-BG-A0M3 TCGA-BG-A0M4 
       65.88        28.64        30.51       185.79        35.21        34.98 
TCGA-BG-A0M7 TCGA-BG-A0M9 TCGA-BG-A0MC TCGA-BG-A0MH TCGA-BG-A0MS TCGA-BG-A0MU 
       38.37        28.27        41.52        44.09        30.81        20.28 
TCGA-BG-A186 TCGA-BG-A18B TCGA-BK-A0C9 TCGA-BS-A0TC TCGA-BS-A0TI TCGA-BS-A0TJ 
       13.78        15.45        35.90        85.55        61.87        67.99 
TCGA-BS-A0U7 TCGA-BS-A0U8 TCGA-BS-A0UF TCGA-D1-A102 TCGA-D1-A160 TCGA-D1-A169 
       30.74        97.41        85.84         4.44         3.68        37.32 
TCGA-D1-A16N TCGA-D1-A16O TCGA-D1-A16V TCGA-D1-A175 TCGA-D1-A17H TCGA-D1-A17M 
       31.07        33.63         1.41         6.64        28.01        10.22 
TCGA-D1-A17Q TCGA-D1-A17U 
        1.78        22.92 

$subtype4
TCGA-A5-A0GX TCGA-A5-A0VO TCGA-AP-A05H TCGA-AX-A0IW TCGA-AX-A0IZ TCGA-B5-A0JT 
       68.65        11.97        45.53        37.78        43.82        43.13 
TCGA-B5-A0K9 TCGA-BG-A0VV TCGA-BS-A0TD TCGA-BS-A0TG TCGA-D1-A0ZP TCGA-D1-A0ZU 
       11.01        26.66        78.21        77.95        29.95        28.67 
TCGA-D1-A103 TCGA-D1-A15V TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A16I TCGA-D1-A16R 
       21.99        39.48        29.33        37.64        11.51         0.69 
TCGA-D1-A17F 
        1.28 

subtype1 subtype2 subtype3 subtype4 
    0.56     0.66     1.41     0.69 
subtype1 subtype2 subtype3 subtype4 
  149.56   113.36   185.79    78.21 
subtype1 subtype2 subtype3 subtype4 
  28.650   25.080   34.995   29.950 
[1] "0.6 - 149.6 (28.6)" "0.7 - 113.4 (25.1)" "1.4 - 185.8 (35.0)"
[4] "0.7 - 78.2 (29.9)" 
D6V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      52
  subtype2                                      64
  subtype3                                      44
  subtype4                                      14
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             2                                16
  subtype2                             1                                 2
  subtype3                             0                                 0
  subtype4                             0                                 5
D6V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       52       64       44       14
  MIXED SEROUS AND ENDOMETRIOID                  2        1        0        0
  SEROUS ENDOMETRIAL ADENOCARCINOMA             16        2        0        5
[1] 3 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V4, binary
          cls
clus        0  1
  subtype1 29 41
  subtype2 26 41
  subtype3 17 27
  subtype4  8 11
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   29   41
  subtype2   26   41
  subtype3   17   27
  subtype4    8   11
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        29       26       17        8
  YES       41       41       27       11
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       R0 R1 R2 RX
  subtype1 43  4  5  9
  subtype2 50  1  0  3
  subtype3 34  2  0  3
  subtype4 16  0  0  1
D6V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  R0       43       50       34       16
  R1        4        1        2        0
  R2        5        0        0        0
  RX        9        3        3        1
[1] 4 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                0     2                         9
  subtype2                                1     3                         7
  subtype3                                1     3                         2
  subtype4                                0     1                         0
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         4    54
  subtype2                                         0    52
  subtype3                                         0    38
  subtype4                                         0    18
D6V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE                 0        1        1        0
  ASIAN                                            2        3        3        1
  BLACK OR AFRICAN AMERICAN                        9        7        2        0
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        4        0        0        0
  WHITE                                           54       52       38       18
[1] 5 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V7, binary
          cls
clus        0  1
  subtype1  3 46
  subtype2  2 37
  subtype3  0 37
  subtype4  0 15
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    3   46
  subtype2    2   37
  subtype3    0   37
  subtype4    0   15
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            3        2        0        0
  NOT HISPANIC OR LATINO       46       37       37       15
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = MRNASEQ_CNMF
D7V1, survival
          sevent
clus2        0   1
  subtype1 163  40
  subtype2 132  12
  subtype3 131   8
subtype1 subtype2 subtype3 
     203      144      139 
subtype1 subtype2 subtype3 
      40       12        8 
$subtype1
TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0GH TCGA-A5-A0GR 
      106.88       149.56        46.95        37.02        74.10        36.82 
TCGA-A5-A0R6 TCGA-A5-A1OG TCGA-A5-A1OH TCGA-A5-A2K2 TCGA-A5-A2K3 TCGA-A5-A2K4 
       19.96        11.44        36.33        91.04        46.32        28.64 
TCGA-A5-A2K7 TCGA-A5-A3LP TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A2QM TCGA-AJ-A3BD 
        5.16        14.96         1.18         1.08         0.85         0.49 
TCGA-AJ-A3BF TCGA-AJ-A3EJ TCGA-AJ-A3EL TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NF 
        1.12         1.64        22.49        22.26         0.92         1.35 
TCGA-AJ-A3NG TCGA-AJ-A3NH TCGA-AJ-A3OJ TCGA-AJ-A3OL TCGA-AJ-A3QS TCGA-AJ-A3TW 
       15.62         0.76         1.94         1.87        16.87         1.71 
TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A054 TCGA-AP-A056 TCGA-AP-A059 TCGA-AP-A05A 
       21.99         5.95        23.31        86.07         8.22        39.42 
TCGA-AP-A05D TCGA-AP-A05H TCGA-AP-A05J TCGA-AP-A0L8 TCGA-AP-A0L9 TCGA-AP-A0LD 
       57.80        45.53        36.89        48.79       125.42       117.99 
TCGA-AP-A0LF TCGA-AP-A0LH TCGA-AP-A0LI TCGA-AP-A0LM TCGA-AP-A1DK TCGA-AP-A1DQ 
        3.39        36.36        97.71        27.12        60.36        41.95 
TCGA-AP-A1E4 TCGA-AP-A3K1 TCGA-AW-A1PO TCGA-AX-A06B TCGA-AX-A06D TCGA-AX-A06F 
       16.24        18.25         0.56        53.92        12.26        51.09 
TCGA-AX-A0IU TCGA-AX-A0IW TCGA-AX-A0J0 TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1CA 
       28.54        37.78        40.11        16.96        13.55        20.28 
TCGA-AX-A1CC TCGA-AX-A1CF TCGA-AX-A1CP TCGA-AX-A1CR TCGA-AX-A2H2 TCGA-AX-A2H4 
       12.43        76.83        36.39        11.08         4.77        30.12 
TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HD TCGA-AX-A2HF TCGA-AX-A2HG TCGA-AX-A2HH 
       71.24        61.18        40.50        19.36        26.33        17.75 
TCGA-AX-A2HK TCGA-AX-A2IN TCGA-AX-A2IO TCGA-AX-A3FS TCGA-AX-A3FT TCGA-AX-A3FZ 
        2.96        31.13        38.70         0.23         0.10         0.20 
TCGA-AX-A3G3 TCGA-AX-A3G4 TCGA-AX-A3G7 TCGA-AX-A3G8 TCGA-AX-A3GI TCGA-B5-A0JN 
        0.03         0.13         0.23         1.18         0.13        80.38 
TCGA-B5-A0K3 TCGA-B5-A0K4 TCGA-B5-A0K8 TCGA-B5-A11E TCGA-B5-A11I TCGA-B5-A11U 
       23.01        17.88        17.85         8.71        75.72        16.73 
TCGA-B5-A11X TCGA-B5-A1MR TCGA-B5-A1MS TCGA-B5-A1MU TCGA-B5-A1MW TCGA-B5-A1MY 
       19.59       191.84       102.31        50.89        14.70        11.87 
TCGA-B5-A1N2 TCGA-B5-A3S1 TCGA-B5-A5OD TCGA-B5-A5OE TCGA-BG-A0M6 TCGA-BG-A0MT 
       12.79         5.03        34.13        34.95         7.92        21.17 
TCGA-BG-A0YV TCGA-BG-A18C TCGA-BG-A220 TCGA-BG-A221 TCGA-BG-A222 TCGA-BG-A2AD 
       12.56        15.45        14.27         1.81         9.57        35.67 
TCGA-BG-A2AE TCGA-BG-A2L7 TCGA-BG-A3PP TCGA-BK-A0CC TCGA-BK-A139 TCGA-BK-A26L 
       23.70        20.12         6.81        10.22        10.16        24.13 
TCGA-BK-A4ZD TCGA-BS-A0TE TCGA-BS-A0U9 TCGA-BS-A0UV TCGA-BS-A0V7 TCGA-BS-A0V8 
       16.64         4.80        67.20        73.25        63.58        49.55 
TCGA-D1-A0ZP TCGA-D1-A0ZS TCGA-D1-A0ZZ TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A167 
       29.95         4.87        22.55        39.48        29.88        15.72 
TCGA-D1-A16G TCGA-D1-A16I TCGA-D1-A16J TCGA-D1-A16N TCGA-D1-A16S TCGA-D1-A16Y 
       27.42        11.51        29.92        31.07        18.67        17.49 
TCGA-D1-A179 TCGA-D1-A17K TCGA-D1-A1NU TCGA-D1-A1NW TCGA-D1-A1NX TCGA-D1-A1O0 
        6.77        28.08        13.22         0.72        18.25         2.07 
TCGA-D1-A1O8 TCGA-D1-A2G0 TCGA-D1-A2G6 TCGA-D1-A2G7 TCGA-D1-A3DG TCGA-D1-A3DH 
        3.95         3.52         8.48        44.88         4.27         4.11 
TCGA-DI-A0WH TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QU TCGA-DI-A2QY 
       16.31        35.38         9.37        12.39        31.10        91.96 
TCGA-E6-A1LZ TCGA-E6-A2P8 TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A22T TCGA-EO-A22X 
       48.36         2.37        10.92        10.78        33.01        32.28 
TCGA-EO-A2CG TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EO-A3AV TCGA-EO-A3AY TCGA-EO-A3AZ 
       32.38        19.40        34.39        35.15        12.89        27.16 
TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1G7 TCGA-EY-A1GC TCGA-EY-A1GM 
       26.96        22.26        16.34         6.21         4.54         6.90 
TCGA-EY-A1GO TCGA-EY-A1GP TCGA-EY-A1GR TCGA-EY-A1GS TCGA-EY-A1GT TCGA-EY-A1GV 
       19.27        18.84        17.62        15.09        16.11        15.81 
TCGA-EY-A210 TCGA-EY-A212 TCGA-EY-A2OM TCGA-EY-A2ON TCGA-EY-A2OO TCGA-EY-A2OP 
       12.59         3.62        22.82        13.45        45.76        31.04 
TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A547 TCGA-EY-A54A 
       29.10        27.35        13.84         6.44        17.92         3.72 
TCGA-FI-A2CX TCGA-FI-A2CY TCGA-FI-A2D0 TCGA-FI-A2D2 TCGA-FI-A2D5 TCGA-FI-A2D6 
       40.01        34.98        33.99        36.00        13.84         8.98 
TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY TCGA-FI-A2F8 TCGA-FI-A2F9 
       96.69        59.01         9.07        28.93        25.02        26.01 
TCGA-FI-A3PV TCGA-H5-A2HR TCGA-K6-A3WQ TCGA-KJ-A3U4 TCGA-PG-A5BC 
       41.06         1.74        13.15         2.43        10.82 

$subtype2
TCGA-A5-A0GA TCGA-A5-A0GB TCGA-A5-A0GI TCGA-A5-A0GJ TCGA-A5-A0GM TCGA-A5-A0GN 
       17.85        32.78        57.53        65.75        60.53        60.53 
TCGA-A5-A0GU TCGA-A5-A0GV TCGA-A5-A0GW TCGA-A5-A0GX TCGA-A5-A0R7 TCGA-A5-A0VP 
       28.27        20.81        23.21        68.65        17.59        42.35 
TCGA-A5-A0VQ TCGA-A5-A2K5 TCGA-A5-A3LO TCGA-AJ-A23O TCGA-AJ-A3BG TCGA-AJ-A3EK 
       15.95         5.33         7.33         1.97         0.76        14.66 
TCGA-AJ-A3NC TCGA-AJ-A3NE TCGA-AJ-A5DW TCGA-AP-A051 TCGA-AP-A05N TCGA-AP-A0LE 
       36.99        20.65         2.33        83.67         7.86       110.37 
TCGA-AP-A0LG TCGA-AP-A0LL TCGA-AP-A0LS TCGA-AP-A0LT TCGA-AP-A1DH TCGA-AP-A1DM 
       63.16        83.97        63.06        49.22        71.67        55.89 
TCGA-AP-A1DO TCGA-AP-A1DR TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AP-A1E3 
       31.30        49.15         6.71        30.90        10.42        27.85 
TCGA-AX-A05S TCGA-AX-A05Z TCGA-AX-A060 TCGA-AX-A062 TCGA-AX-A063 TCGA-AX-A064 
       13.58        46.45        35.34        45.99        66.58        34.98 
TCGA-AX-A06H TCGA-AX-A0IS TCGA-AX-A0IZ TCGA-AX-A0J1 TCGA-AX-A1C4 TCGA-AX-A1CI 
       27.39        35.01        43.82        65.88        13.28        72.56 
TCGA-AX-A1CK TCGA-AX-A1CN TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A3G9 TCGA-B5-A0JU 
       67.50        25.12        68.71        33.40         8.35        48.76 
TCGA-B5-A0JV TCGA-B5-A0JY TCGA-B5-A0JZ TCGA-B5-A0K0 TCGA-B5-A0K6 TCGA-B5-A0K7 
       40.67        32.55        28.64        28.34        13.74        17.10 
TCGA-B5-A0K9 TCGA-B5-A11F TCGA-B5-A11L TCGA-B5-A11N TCGA-B5-A11Q TCGA-B5-A11V 
       11.01       185.79        45.90        43.96        32.09        19.56 
TCGA-B5-A11Z TCGA-B5-A1MX TCGA-B5-A1MZ TCGA-B5-A3FC TCGA-B5-A5OC TCGA-BG-A0LW 
       17.36        11.70        15.29        62.14        41.06        18.61 
TCGA-BG-A0LX TCGA-BG-A0M3 TCGA-BG-A0M8 TCGA-BG-A0MI TCGA-BG-A0MO TCGA-BG-A0MQ 
       20.19        35.21        36.49        23.47        43.04        39.32 
TCGA-BG-A0MS TCGA-BG-A0MU TCGA-BG-A0RY TCGA-BG-A0VT TCGA-BG-A0VX TCGA-BG-A186 
       30.81        20.28        15.42        24.39        34.29        13.78 
TCGA-BG-A3EW TCGA-BK-A0CB TCGA-BK-A13B TCGA-BK-A6W3 TCGA-BS-A0T9 TCGA-BS-A0TG 
       11.31         6.21        31.76        10.03        46.95        77.95 
TCGA-BS-A0TI TCGA-BS-A0TJ TCGA-BS-A0U7 TCGA-BS-A0U8 TCGA-BS-A0UF TCGA-BS-A0UJ 
       61.87        67.99        30.74        97.41        85.84        82.39 
TCGA-BS-A0UL TCGA-BS-A0UT TCGA-BS-A0V4 TCGA-BS-A0VI TCGA-BS-A0WQ TCGA-D1-A0ZN 
       81.57        72.72        59.51        63.16        66.48        16.83 
TCGA-D1-A0ZQ TCGA-D1-A0ZU TCGA-D1-A101 TCGA-D1-A102 TCGA-D1-A103 TCGA-D1-A15Z 
        8.55        28.67         1.74         4.44        21.99         1.91 
TCGA-D1-A160 TCGA-D1-A163 TCGA-D1-A168 TCGA-D1-A16B TCGA-D1-A16Q TCGA-D1-A16R 
        3.68        32.58        36.10        36.36        10.65         0.69 
TCGA-D1-A16V TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A177 TCGA-D1-A17C TCGA-D1-A17H 
        1.41        19.53         6.64        18.02         0.99        28.01 
TCGA-D1-A17L TCGA-D1-A17M TCGA-D1-A17R TCGA-D1-A1NY TCGA-D1-A3DA TCGA-DI-A1BY 
       26.37        10.22        11.15        16.87         0.26        36.62 
TCGA-DI-A1C3 TCGA-E6-A1LX TCGA-E6-A1M0 TCGA-EC-A1QX TCGA-EO-A22R TCGA-EO-A22S 
       24.30        23.38        17.06         7.36        31.96        35.05 
TCGA-EO-A22U TCGA-EO-A3AU TCGA-EY-A1G8 TCGA-EY-A1GD TCGA-EY-A1GI TCGA-EY-A1GL 
       27.12        19.36        14.99         8.15        23.34        13.97 
TCGA-EY-A1GQ TCGA-EY-A1GU TCGA-EY-A214 TCGA-EY-A215 TCGA-EY-A5W2 TCGA-FI-A2D4 
       17.88        12.43        14.40        18.87         5.29         7.99 

$subtype3
TCGA-A5-A0G9 TCGA-A5-A0GD TCGA-A5-A0GE TCGA-A5-A0GG TCGA-A5-A0GP TCGA-A5-A0GQ 
       83.51         3.22       105.37        87.32        46.55        38.37 
TCGA-A5-A0R8 TCGA-A5-A0R9 TCGA-A5-A0RA TCGA-A5-A0VO TCGA-A5-A1OF TCGA-A5-A1OJ 
       19.59        24.62        29.06        11.97         7.92         9.60 
TCGA-A5-A1OK TCGA-AJ-A2QK TCGA-AJ-A2QL TCGA-AJ-A2QN TCGA-AJ-A2QO TCGA-AJ-A3BI 
        8.02         0.39        19.79         2.40         3.02         2.24 
TCGA-AJ-A3BK TCGA-AJ-A3I9 TCGA-AJ-A3OK TCGA-AP-A05O TCGA-AP-A05P TCGA-AP-A0LJ 
        1.68         1.28        15.95        12.20        20.91        31.73 
TCGA-AP-A0LN TCGA-AP-A0LO TCGA-AP-A0LP TCGA-AP-A0LV TCGA-AP-A1DP TCGA-AP-A5FX 
       82.52        33.40        61.64        25.08        35.54        33.73 
TCGA-AX-A05T TCGA-AX-A05U TCGA-AX-A05Y TCGA-AX-A06J TCGA-AX-A06L TCGA-AX-A1C5 
       19.82        29.69        72.03        30.02        60.66        19.20 
TCGA-AX-A1C9 TCGA-AX-A1CE TCGA-AX-A1CJ TCGA-AX-A2H7 TCGA-AX-A2HJ TCGA-AX-A3FW 
       15.25        20.05        54.12        33.53        27.32         0.33 
TCGA-AX-A3FX TCGA-AX-A3G1 TCGA-AX-A3GB TCGA-B5-A0JS TCGA-B5-A0JT TCGA-B5-A0JX 
        0.13        20.52        14.47        46.75        43.13        44.71 
TCGA-B5-A0K1 TCGA-B5-A0K2 TCGA-B5-A0KB TCGA-B5-A11G TCGA-B5-A11H TCGA-B5-A11J 
       30.51        25.91         4.11       113.36        88.34        54.44 
TCGA-B5-A11M TCGA-B5-A11O TCGA-B5-A11P TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11W 
       44.78        40.50        36.82        33.50        27.35        19.50 
TCGA-B5-A11Y TCGA-B5-A121 TCGA-B5-A1MV TCGA-BG-A0M0 TCGA-BG-A0M2 TCGA-BG-A0M4 
       18.41        16.57        14.40        19.33        20.94        34.98 
TCGA-BG-A0M7 TCGA-BG-A0M9 TCGA-BG-A0MA TCGA-BG-A0MC TCGA-BG-A0MG TCGA-BG-A0MH 
       38.37        28.27        10.72        41.52        48.56        44.09 
TCGA-BG-A0MK TCGA-BG-A0VV TCGA-BG-A0VW TCGA-BG-A0VZ TCGA-BG-A0W1 TCGA-BG-A0W2 
       43.30        26.66        16.34        28.54        52.83        56.58 
TCGA-BG-A0YU TCGA-BG-A187 TCGA-BG-A18A TCGA-BG-A18B TCGA-BK-A0C9 TCGA-BK-A0CA 
       14.83        14.73        14.01        15.45        35.90        34.98 
TCGA-BK-A13C TCGA-BK-A56F TCGA-BK-A6W4 TCGA-BS-A0TA TCGA-BS-A0TC TCGA-BS-A0TD 
       24.99        13.18         9.86        23.47        85.55        78.21 
TCGA-BS-A0U5 TCGA-BS-A0UA TCGA-BS-A0UM TCGA-BS-A0V6 TCGA-D1-A0ZO TCGA-D1-A0ZR 
       96.49        88.34        86.93        62.79        19.79         0.56 
TCGA-D1-A0ZV TCGA-D1-A15W TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A165 TCGA-D1-A169 
       23.93        30.08        29.33        37.64         0.66        37.32 
TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F TCGA-D1-A16O TCGA-D1-A16X TCGA-D1-A176 
       37.51        36.79         2.63        33.63         3.65        30.15 
TCGA-D1-A17A TCGA-D1-A17B TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17N TCGA-D1-A17Q 
        1.58         7.00        30.44         1.28         1.51         1.78 
TCGA-D1-A17S TCGA-D1-A17T TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NZ TCGA-D1-A1O5 
       24.30         2.33        22.92         1.41        18.02        15.06 
TCGA-D1-A1O7 TCGA-D1-A2G5 TCGA-E6-A2P9 TCGA-EC-A1NJ TCGA-EC-A24G TCGA-EO-A1Y7 
        1.05        41.42         6.67        16.01        16.80         7.99 
TCGA-EO-A22Y TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GH TCGA-EY-A1GK TCGA-EY-A1GW 
       24.79        24.36        27.16        23.34        22.78         8.55 
TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A548 TCGA-EY-A549 TCGA-FI-A2F4 TCGA-QS-A5YQ 
        6.48        19.33         2.14         6.97        28.96         4.21 
TCGA-QS-A5YR 
        5.52 

subtype1 subtype2 subtype3 
    0.03     0.26     0.13 
subtype1 subtype2 subtype3 
  191.84   185.79   113.36 
subtype1 subtype2 subtype3 
   18.67    27.62    23.93 
[1] "0.0 - 191.8 (18.7)" "0.3 - 185.8 (27.6)" "0.1 - 113.4 (23.9)"
D7V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      92
  subtype2                                     143
  subtype3                                     135
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            15                                98
  subtype2                             1                                 0
  subtype3                             3                                 1
D7V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       92      143      135
  MIXED SEROUS AND ENDOMETRIOID                 15        1        3
  SEROUS ENDOMETRIAL ADENOCARCINOMA             98        0        1
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V4, binary
          cls
clus         0   1
  subtype1  51 154
  subtype2  55  89
  subtype3  31 108
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   51  154
  subtype2   55   89
  subtype3   31  108
     clus
vv    subtype1 subtype2 subtype3
  NO        51       55       31
  YES      154       89      108
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1 131  13  11  14
  subtype2 107   6   4   4
  subtype3  99   3   2  11
D7V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0      131      107       99
  R1       13        6        3
  R2       11        4        2
  RX       14        4       11
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     5                        42
  subtype2                                2     6                        14
  subtype3                                1     8                        18
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         6   136
  subtype2                                         2   114
  subtype3                                         1   107
D7V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        2        1
  ASIAN                                            5        6        8
  BLACK OR AFRICAN AMERICAN                       42       14       18
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        6        2        1
  WHITE                                          136      114      107
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V7, binary
          cls
clus         0   1
  subtype1   6 141
  subtype2   3  97
  subtype3   4  99
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    6  141
  subtype2    3   97
  subtype3    4   99
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            6        3        4
  NOT HISPANIC OR LATINO      141       97       99
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(8) Variable = MRNASEQ_CHIERARCHICAL
D8V1, survival
          sevent
clus2        0   1
  subtype1 115  32
  subtype2 180  20
  subtype3 131   8
subtype1 subtype2 subtype3 
     147      200      139 
subtype1 subtype2 subtype3 
      32       20        8 
$subtype1
TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0GH TCGA-A5-A0GR 
      106.88       149.56        46.95        37.02        74.10        36.82 
TCGA-A5-A0R6 TCGA-A5-A1OF TCGA-A5-A1OG TCGA-A5-A1OH TCGA-A5-A2K2 TCGA-A5-A2K3 
       19.96         7.92        11.44        36.33        91.04        46.32 
TCGA-A5-A2K4 TCGA-A5-A3LP TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A2QM TCGA-AJ-A3BD 
       28.64        14.96         1.18         1.08         0.85         0.49 
TCGA-AJ-A3BF TCGA-AJ-A3EJ TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NF TCGA-AJ-A3NH 
        1.12         1.64        22.26         0.92         1.35         0.76 
TCGA-AJ-A3OJ TCGA-AJ-A3QS TCGA-AJ-A3TW TCGA-AP-A052 TCGA-AP-A053 TCGA-AP-A059 
        1.94        16.87         1.71        21.99         5.95         8.22 
TCGA-AP-A05A TCGA-AP-A05D TCGA-AP-A05H TCGA-AP-A05J TCGA-AP-A05P TCGA-AP-A0L8 
       39.42        57.80        45.53        36.89        20.91        48.79 
TCGA-AP-A0L9 TCGA-AP-A0LD TCGA-AP-A0LF TCGA-AP-A0LH TCGA-AP-A0LI TCGA-AP-A1DQ 
      125.42       117.99         3.39        36.36        97.71        41.95 
TCGA-AP-A1E4 TCGA-AP-A3K1 TCGA-AW-A1PO TCGA-AX-A06D TCGA-AX-A0IU TCGA-AX-A0IW 
       16.24        18.25         0.56        12.26        28.54        37.78 
TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CC TCGA-AX-A1CP TCGA-AX-A1CR 
       16.96        13.55        20.28        12.43        36.39        11.08 
TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HF TCGA-AX-A2HG 
        4.77        30.12        71.24        61.18        19.36        26.33 
TCGA-AX-A2HK TCGA-AX-A2IO TCGA-AX-A3FT TCGA-AX-A3G3 TCGA-AX-A3G4 TCGA-AX-A3G7 
        2.96        38.70         0.10         0.03         0.13         0.23 
TCGA-AX-A3GI TCGA-B5-A0JN TCGA-B5-A0K3 TCGA-B5-A0K8 TCGA-B5-A11I TCGA-B5-A1MR 
        0.13        80.38        23.01        17.85        75.72       191.84 
TCGA-B5-A1MS TCGA-B5-A1MU TCGA-B5-A1MY TCGA-B5-A1N2 TCGA-B5-A3S1 TCGA-B5-A5OD 
      102.31        50.89        11.87        12.79         5.03        34.13 
TCGA-B5-A5OE TCGA-BG-A0M4 TCGA-BG-A0M6 TCGA-BG-A0YV TCGA-BG-A221 TCGA-BG-A3PP 
       34.95        34.98         7.92        12.56         1.81         6.81 
TCGA-BK-A0CC TCGA-BK-A26L TCGA-BS-A0TA TCGA-BS-A0TE TCGA-D1-A0ZP TCGA-D1-A0ZZ 
       10.22        24.13        23.47         4.80        29.95        22.55 
TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A16G TCGA-D1-A16I TCGA-D1-A16S TCGA-D1-A16Y 
       39.48        29.88        27.42        11.51        18.67        17.49 
TCGA-D1-A179 TCGA-D1-A1NU TCGA-D1-A1NW TCGA-D1-A1NX TCGA-D1-A2G0 TCGA-D1-A2G7 
        6.77        13.22         0.72        18.25         3.52        44.88 
TCGA-D1-A3DH TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QY TCGA-E6-A1LZ 
        4.11        35.38         9.37        12.39        91.96        48.36 
TCGA-EC-A1QX TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A22T TCGA-EO-A2CG TCGA-EO-A2CH 
        7.36        10.92        10.78        33.01        32.38        19.40 
TCGA-EO-A3AS TCGA-EO-A3AV TCGA-EO-A3AY TCGA-EO-A3AZ TCGA-EO-A3B1 TCGA-EO-A3KU 
       34.39        35.15        12.89        27.16        26.96        22.26 
TCGA-EO-A3KW TCGA-EY-A1G7 TCGA-EY-A1GM TCGA-EY-A1GO TCGA-EY-A1GS TCGA-EY-A1GV 
       16.34         6.21         6.90        19.27        15.09        15.81 
TCGA-EY-A210 TCGA-EY-A212 TCGA-EY-A2ON TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A4KR 
       12.59         3.62        13.45        29.10        27.35         6.44 
TCGA-EY-A54A TCGA-FI-A2CX TCGA-FI-A2CY TCGA-FI-A2D2 TCGA-FI-A2EU TCGA-FI-A2EW 
        3.72        40.01        34.98        36.00        96.69        59.01 
TCGA-FI-A2EX TCGA-FI-A2EY TCGA-FI-A2F8 TCGA-FI-A2F9 TCGA-FI-A3PV TCGA-H5-A2HR 
        9.07        28.93        25.02        26.01        41.06         1.74 
TCGA-K6-A3WQ TCGA-KJ-A3U4 TCGA-PG-A5BC 
       13.15         2.43        10.82 

$subtype2
TCGA-A5-A0GA TCGA-A5-A0GB TCGA-A5-A0GI TCGA-A5-A0GN TCGA-A5-A0GU TCGA-A5-A0GV 
       17.85        32.78        57.53        60.53        28.27        20.81 
TCGA-A5-A0GW TCGA-A5-A0GX TCGA-A5-A0R7 TCGA-A5-A0VP TCGA-A5-A0VQ TCGA-A5-A2K5 
       23.21        68.65        17.59        42.35        15.95         5.33 
TCGA-A5-A2K7 TCGA-A5-A3LO TCGA-AJ-A23O TCGA-AJ-A3BG TCGA-AJ-A3EK TCGA-AJ-A3EL 
        5.16         7.33         1.97         0.76        14.66        22.49 
TCGA-AJ-A3NC TCGA-AJ-A3NE TCGA-AJ-A3NG TCGA-AJ-A3OL TCGA-AJ-A5DW TCGA-AP-A051 
       36.99        20.65        15.62         1.87         2.33        83.67 
TCGA-AP-A054 TCGA-AP-A056 TCGA-AP-A05N TCGA-AP-A0LE TCGA-AP-A0LG TCGA-AP-A0LL 
       23.31        86.07         7.86       110.37        63.16        83.97 
TCGA-AP-A0LM TCGA-AP-A0LN TCGA-AP-A0LT TCGA-AP-A0LV TCGA-AP-A1DH TCGA-AP-A1DK 
       27.12        82.52        49.22        25.08        71.67        60.36 
TCGA-AP-A1DM TCGA-AP-A1DO TCGA-AP-A1DR TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 
       55.89        31.30        49.15         6.71        30.90        10.42 
TCGA-AP-A1E3 TCGA-AX-A05T TCGA-AX-A05Z TCGA-AX-A060 TCGA-AX-A062 TCGA-AX-A063 
       27.85        19.82        46.45        35.34        45.99        66.58 
TCGA-AX-A064 TCGA-AX-A06B TCGA-AX-A06F TCGA-AX-A06H TCGA-AX-A0IS TCGA-AX-A0IZ 
       34.98        53.92        51.09        27.39        35.01        43.82 
TCGA-AX-A0J0 TCGA-AX-A0J1 TCGA-AX-A1C4 TCGA-AX-A1C5 TCGA-AX-A1CF TCGA-AX-A1CI 
       40.11        65.88        13.28        19.20        76.83        72.56 
TCGA-AX-A1CK TCGA-AX-A1CN TCGA-AX-A2H7 TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HD 
       67.50        25.12        33.53        68.71        33.40        40.50 
TCGA-AX-A2HH TCGA-AX-A2IN TCGA-AX-A3FS TCGA-AX-A3FZ TCGA-AX-A3G8 TCGA-AX-A3G9 
       17.75        31.13         0.23         0.20         1.18         8.35 
TCGA-B5-A0JU TCGA-B5-A0JV TCGA-B5-A0JY TCGA-B5-A0JZ TCGA-B5-A0K0 TCGA-B5-A0K4 
       48.76        40.67        32.55        28.64        28.34        17.88 
TCGA-B5-A0K6 TCGA-B5-A0K7 TCGA-B5-A0K9 TCGA-B5-A11E TCGA-B5-A11F TCGA-B5-A11N 
       13.74        17.10        11.01         8.71       185.79        43.96 
TCGA-B5-A11P TCGA-B5-A11Q TCGA-B5-A11U TCGA-B5-A11V TCGA-B5-A11X TCGA-B5-A11Z 
       36.82        32.09        16.73        19.56        19.59        17.36 
TCGA-B5-A1MW TCGA-B5-A1MX TCGA-B5-A1MZ TCGA-B5-A3FC TCGA-B5-A5OC TCGA-BG-A0LW 
       14.70        11.70        15.29        62.14        41.06        18.61 
TCGA-BG-A0LX TCGA-BG-A0M3 TCGA-BG-A0M8 TCGA-BG-A0MI TCGA-BG-A0MO TCGA-BG-A0MQ 
       20.19        35.21        36.49        23.47        43.04        39.32 
TCGA-BG-A0MS TCGA-BG-A0MT TCGA-BG-A0MU TCGA-BG-A0RY TCGA-BG-A0VT TCGA-BG-A0VX 
       30.81        21.17        20.28        15.42        24.39        34.29 
TCGA-BG-A186 TCGA-BG-A18C TCGA-BG-A220 TCGA-BG-A222 TCGA-BG-A2AD TCGA-BG-A2AE 
       13.78        15.45        14.27         9.57        35.67        23.70 
TCGA-BG-A2L7 TCGA-BG-A3EW TCGA-BK-A0CB TCGA-BK-A13B TCGA-BK-A4ZD TCGA-BS-A0T9 
       20.12        11.31         6.21        31.76        16.64        46.95 
TCGA-BS-A0TG TCGA-BS-A0TI TCGA-BS-A0TJ TCGA-BS-A0U7 TCGA-BS-A0U8 TCGA-BS-A0U9 
       77.95        61.87        67.99        30.74        97.41        67.20 
TCGA-BS-A0UF TCGA-BS-A0UJ TCGA-BS-A0UL TCGA-BS-A0UT TCGA-BS-A0UV TCGA-BS-A0V4 
       85.84        82.39        81.57        72.72        73.25        59.51 
TCGA-BS-A0V7 TCGA-BS-A0V8 TCGA-BS-A0VI TCGA-BS-A0WQ TCGA-D1-A0ZN TCGA-D1-A0ZQ 
       63.58        49.55        63.16        66.48        16.83         8.55 
TCGA-D1-A0ZS TCGA-D1-A0ZU TCGA-D1-A102 TCGA-D1-A15Z TCGA-D1-A160 TCGA-D1-A163 
        4.87        28.67         4.44         1.91         3.68        32.58 
TCGA-D1-A167 TCGA-D1-A168 TCGA-D1-A16B TCGA-D1-A16J TCGA-D1-A16N TCGA-D1-A16Q 
       15.72        36.10        36.36        29.92        31.07        10.65 
TCGA-D1-A16R TCGA-D1-A16V TCGA-D1-A174 TCGA-D1-A177 TCGA-D1-A17C TCGA-D1-A17H 
        0.69         1.41        19.53        18.02         0.99        28.01 
TCGA-D1-A17K TCGA-D1-A17L TCGA-D1-A17M TCGA-D1-A17N TCGA-D1-A17R TCGA-D1-A17T 
       28.08        26.37        10.22         1.51        11.15         2.33 
TCGA-D1-A1NY TCGA-D1-A1O0 TCGA-D1-A1O8 TCGA-D1-A2G6 TCGA-D1-A3DA TCGA-D1-A3DG 
       16.87         2.07         3.95         8.48         0.26         4.27 
TCGA-DI-A0WH TCGA-DI-A2QU TCGA-E6-A1LX TCGA-E6-A1M0 TCGA-E6-A2P8 TCGA-EO-A22R 
       16.31        31.10        23.38        17.06         2.37        31.96 
TCGA-EO-A22S TCGA-EO-A22U TCGA-EO-A22X TCGA-EO-A3AU TCGA-EY-A1G8 TCGA-EY-A1GC 
       35.05        27.12        32.28        19.36        14.99         4.54 
TCGA-EY-A1GD TCGA-EY-A1GI TCGA-EY-A1GL TCGA-EY-A1GP TCGA-EY-A1GQ TCGA-EY-A1GR 
        8.15        23.34        13.97        18.84        17.88        17.62 
TCGA-EY-A1GT TCGA-EY-A1GU TCGA-EY-A214 TCGA-EY-A215 TCGA-EY-A2OM TCGA-EY-A2OO 
       16.11        12.43        14.40        18.87        22.82        45.76 
TCGA-EY-A2OP TCGA-EY-A3QX TCGA-EY-A547 TCGA-EY-A5W2 TCGA-FI-A2D0 TCGA-FI-A2D4 
       31.04        13.84        17.92         5.29        33.99         7.99 
TCGA-FI-A2D5 TCGA-FI-A2D6 
       13.84         8.98 

$subtype3
TCGA-A5-A0G9 TCGA-A5-A0GD TCGA-A5-A0GE TCGA-A5-A0GG TCGA-A5-A0GJ TCGA-A5-A0GM 
       83.51         3.22       105.37        87.32        65.75        60.53 
TCGA-A5-A0GP TCGA-A5-A0GQ TCGA-A5-A0R8 TCGA-A5-A0R9 TCGA-A5-A0RA TCGA-A5-A0VO 
       46.55        38.37        19.59        24.62        29.06        11.97 
TCGA-A5-A1OJ TCGA-A5-A1OK TCGA-AJ-A2QK TCGA-AJ-A2QL TCGA-AJ-A2QN TCGA-AJ-A2QO 
        9.60         8.02         0.39        19.79         2.40         3.02 
TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3I9 TCGA-AJ-A3OK TCGA-AP-A05O TCGA-AP-A0LJ 
        2.24         1.68         1.28        15.95        12.20        31.73 
TCGA-AP-A0LO TCGA-AP-A0LP TCGA-AP-A0LS TCGA-AP-A1DP TCGA-AP-A5FX TCGA-AX-A05S 
       33.40        61.64        63.06        35.54        33.73        13.58 
TCGA-AX-A05U TCGA-AX-A05Y TCGA-AX-A06J TCGA-AX-A06L TCGA-AX-A1C9 TCGA-AX-A1CE 
       29.69        72.03        30.02        60.66        15.25        20.05 
TCGA-AX-A1CJ TCGA-AX-A2HJ TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3G1 TCGA-AX-A3GB 
       54.12        27.32         0.33         0.13        20.52        14.47 
TCGA-B5-A0JS TCGA-B5-A0JT TCGA-B5-A0JX TCGA-B5-A0K1 TCGA-B5-A0K2 TCGA-B5-A0KB 
       46.75        43.13        44.71        30.51        25.91         4.11 
TCGA-B5-A11G TCGA-B5-A11H TCGA-B5-A11J TCGA-B5-A11L TCGA-B5-A11M TCGA-B5-A11O 
      113.36        88.34        54.44        45.90        44.78        40.50 
TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11W TCGA-B5-A11Y TCGA-B5-A121 TCGA-B5-A1MV 
       33.50        27.35        19.50        18.41        16.57        14.40 
TCGA-BG-A0M0 TCGA-BG-A0M2 TCGA-BG-A0M7 TCGA-BG-A0M9 TCGA-BG-A0MA TCGA-BG-A0MC 
       19.33        20.94        38.37        28.27        10.72        41.52 
TCGA-BG-A0MG TCGA-BG-A0MH TCGA-BG-A0MK TCGA-BG-A0VV TCGA-BG-A0VW TCGA-BG-A0VZ 
       48.56        44.09        43.30        26.66        16.34        28.54 
TCGA-BG-A0W1 TCGA-BG-A0W2 TCGA-BG-A0YU TCGA-BG-A187 TCGA-BG-A18A TCGA-BG-A18B 
       52.83        56.58        14.83        14.73        14.01        15.45 
TCGA-BK-A0C9 TCGA-BK-A0CA TCGA-BK-A139 TCGA-BK-A13C TCGA-BK-A56F TCGA-BK-A6W3 
       35.90        34.98        10.16        24.99        13.18        10.03 
TCGA-BK-A6W4 TCGA-BS-A0TC TCGA-BS-A0TD TCGA-BS-A0U5 TCGA-BS-A0UA TCGA-BS-A0UM 
        9.86        85.55        78.21        96.49        88.34        86.93 
TCGA-BS-A0V6 TCGA-D1-A0ZO TCGA-D1-A0ZR TCGA-D1-A0ZV TCGA-D1-A101 TCGA-D1-A103 
       62.79        19.79         0.56        23.93         1.74        21.99 
TCGA-D1-A15W TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A165 TCGA-D1-A169 TCGA-D1-A16D 
       30.08        29.33        37.64         0.66        37.32        37.51 
TCGA-D1-A16E TCGA-D1-A16F TCGA-D1-A16O TCGA-D1-A16X TCGA-D1-A175 TCGA-D1-A176 
       36.79         2.63        33.63         3.65         6.64        30.15 
TCGA-D1-A17A TCGA-D1-A17B TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17Q TCGA-D1-A17S 
        1.58         7.00        30.44         1.28         1.78        24.30 
TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NZ TCGA-D1-A1O5 TCGA-D1-A1O7 TCGA-D1-A2G5 
       22.92         1.41        18.02        15.06         1.05        41.42 
TCGA-DI-A1BY TCGA-DI-A1C3 TCGA-E6-A2P9 TCGA-EC-A1NJ TCGA-EC-A24G TCGA-EO-A1Y7 
       36.62        24.30         6.67        16.01        16.80         7.99 
TCGA-EO-A22Y TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GH TCGA-EY-A1GK TCGA-EY-A1GW 
       24.79        24.36        27.16        23.34        22.78         8.55 
TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A548 TCGA-EY-A549 TCGA-FI-A2F4 TCGA-QS-A5YQ 
        6.48        19.33         2.14         6.97        28.96         4.21 
TCGA-QS-A5YR 
        5.52 

subtype1 subtype2 subtype3 
    0.03     0.20     0.13 
subtype1 subtype2 subtype3 
  191.84   185.79   113.36 
subtype1 subtype2 subtype3 
  19.270   23.425   24.300 
[1] "0.0 - 191.8 (19.3)" "0.2 - 185.8 (23.4)" "0.1 - 113.4 (24.3)"
D8V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      39
  subtype2                                     195
  subtype3                                     136
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            13                                97
  subtype2                             4                                 1
  subtype3                             2                                 1
D8V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       39      195      136
  MIXED SEROUS AND ENDOMETRIOID                 13        4        2
  SEROUS ENDOMETRIAL ADENOCARCINOMA             97        1        1
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V4, binary
          cls
clus         0   1
  subtype1  40 109
  subtype2  66 134
  subtype3  31 108
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   40  109
  subtype2   66  134
  subtype3   31  108
     clus
vv    subtype1 subtype2 subtype3
  NO        40       66       31
  YES      109      134      108
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1  96   9  10  11
  subtype2 141  11   5   7
  subtype3 100   2   2  11
D8V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0       96      141      100
  R1        9       11        2
  R2       10        5        2
  RX       11        7       11
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     6                        34
  subtype2                                2     6                        22
  subtype3                                1     7                        18
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         2    93
  subtype2                                         7   153
  subtype3                                         0   111
D8V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        2        1
  ASIAN                                            6        6        7
  BLACK OR AFRICAN AMERICAN                       34       22       18
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        2        7        0
  WHITE                                           93      153      111
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V7, binary
          cls
clus         0   1
  subtype1   7  96
  subtype2   4 138
  subtype3   2 103
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    7   96
  subtype2    4  138
  subtype3    2  103
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            7        4        2
  NOT HISPANIC OR LATINO       96      138      103
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(9) Variable = MIRSEQ_CNMF
D9V1, survival
          sevent
clus2        0   1
  subtype1 124  14
  subtype2 157  35
  subtype3 146   8
subtype1 subtype2 subtype3 
     138      192      154 
subtype1 subtype2 subtype3 
      14       35        8 
$subtype1
TCGA-A5-A0GI TCGA-A5-A0GN TCGA-A5-A0GP TCGA-A5-A0GV TCGA-A5-A0GW TCGA-A5-A0GX 
       57.53        60.53        46.55        20.81        23.21        68.65 
TCGA-A5-A0R7 TCGA-A5-A0VQ TCGA-A5-A1OK TCGA-AJ-A23O TCGA-AJ-A2QN TCGA-AJ-A3EJ 
       17.59        15.95         8.02         1.97         2.40         1.64 
TCGA-AJ-A3NC TCGA-AJ-A3NE TCGA-AJ-A3NH TCGA-AJ-A3OL TCGA-AJ-A8CW TCGA-AP-A051 
       36.99        20.65         0.76         1.87         0.13        83.67 
TCGA-AP-A054 TCGA-AP-A05P TCGA-AP-A0LE TCGA-AP-A0LG TCGA-AP-A0LL TCGA-AP-A0LM 
       23.31        20.91       110.37        63.16        83.97        27.12 
TCGA-AP-A0LN TCGA-AP-A0LO TCGA-AP-A0LT TCGA-AP-A0LV TCGA-AP-A1DM TCGA-AP-A1DO 
       82.52        33.40        49.22        25.08        55.89        31.30 
TCGA-AP-A1DR TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AP-A5FX TCGA-AW-A1PO TCGA-AX-A05U 
       49.15        30.90        10.42        33.73         0.56        29.69 
TCGA-AX-A05Z TCGA-AX-A060 TCGA-AX-A062 TCGA-AX-A064 TCGA-AX-A06D TCGA-AX-A06J 
       46.45        35.34        45.99        34.98        12.26        30.02 
TCGA-AX-A0IS TCGA-AX-A0IZ TCGA-AX-A0J0 TCGA-AX-A0J1 TCGA-AX-A1C4 TCGA-AX-A1C5 
       35.01        43.82        40.11        65.88        13.28        19.20 
TCGA-AX-A1CI TCGA-AX-A1CK TCGA-AX-A1CN TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HD 
       72.56        67.50        25.12        68.71        33.40        40.50 
TCGA-AX-A3FZ TCGA-AX-A3G8 TCGA-B5-A0JR TCGA-B5-A0JU TCGA-B5-A0JV TCGA-B5-A0JY 
        0.20         1.18        56.91        48.76        40.67        32.55 
TCGA-B5-A0JZ TCGA-B5-A0K0 TCGA-B5-A0K6 TCGA-B5-A0K7 TCGA-B5-A11E TCGA-B5-A11F 
       28.64        28.34        13.74        17.10         8.71       185.79 
TCGA-B5-A11U TCGA-B5-A11V TCGA-B5-A11X TCGA-B5-A11Z TCGA-B5-A1MZ TCGA-B5-A5OC 
       16.73        19.56        19.59        17.36        15.29        41.06 
TCGA-BG-A0LW TCGA-BG-A0M3 TCGA-BG-A0MI TCGA-BG-A0MO TCGA-BG-A0MQ TCGA-BG-A0MS 
       18.61        35.21        23.47        43.04        39.32        30.81 
TCGA-BG-A0MU TCGA-BG-A0RY TCGA-BG-A0VT TCGA-BG-A0VX TCGA-BG-A0W2 TCGA-BG-A186 
       20.28        15.42        24.39        34.29        56.58        13.78 
TCGA-BG-A18C TCGA-BG-A222 TCGA-BK-A13B TCGA-BK-A13C TCGA-BK-A4ZD TCGA-BS-A0T9 
       15.45         9.57        31.76        24.99        16.64        46.95 
TCGA-BS-A0TG TCGA-BS-A0TI TCGA-BS-A0U5 TCGA-BS-A0U7 TCGA-BS-A0U8 TCGA-BS-A0UJ 
       77.95        61.87        96.49        30.74        97.41        82.39 
TCGA-BS-A0UT TCGA-BS-A0V4 TCGA-BS-A0V7 TCGA-BS-A0VI TCGA-BS-A0WQ TCGA-D1-A0ZN 
       72.72        59.51        63.58        63.16        66.48        16.83 
TCGA-D1-A0ZQ TCGA-D1-A0ZS TCGA-D1-A102 TCGA-D1-A15Z TCGA-D1-A160 TCGA-D1-A163 
        8.55         4.87         4.44         1.91         3.68        32.58 
TCGA-D1-A16N TCGA-D1-A16R TCGA-D1-A177 TCGA-D1-A17K TCGA-D1-A17M TCGA-D1-A17R 
       31.07         0.69        18.02        28.08        10.22        11.15 
TCGA-D1-A1NY TCGA-D1-A1O8 TCGA-D1-A2G6 TCGA-D1-A3DA TCGA-DI-A0WH TCGA-DI-A1C3 
       16.87         3.95         8.48         0.26        16.31        24.30 
TCGA-E6-A1LX TCGA-E6-A1M0 TCGA-EO-A22R TCGA-EO-A22S TCGA-EO-A22U TCGA-EO-A22X 
       23.38        17.06        31.96        35.05        27.12        32.28 
TCGA-EO-A3AU TCGA-EY-A1G8 TCGA-EY-A1GD TCGA-EY-A1GL TCGA-EY-A1GQ TCGA-EY-A1GR 
       19.36        14.99         8.15        13.97        17.88        17.62 
TCGA-EY-A1GU TCGA-EY-A2OM TCGA-EY-A2OO TCGA-EY-A2OP TCGA-EY-A548 TCGA-EY-A5W2 
       12.43        22.82        45.76        31.04         2.14         5.29 

$subtype2
TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0GA TCGA-A5-A0GH 
      106.88       149.56        46.95        37.02        17.85        74.10 
TCGA-A5-A0GR TCGA-A5-A1OF TCGA-A5-A1OG TCGA-A5-A1OH TCGA-A5-A2K2 TCGA-A5-A2K3 
       36.82         7.92        11.44        36.33        91.04        46.32 
TCGA-A5-A2K4 TCGA-A5-A2K5 TCGA-A5-A2K7 TCGA-A5-A3LO TCGA-A5-A3LP TCGA-AJ-A23M 
       28.64         5.33         5.16         7.33        14.96         1.18 
TCGA-AJ-A23N TCGA-AJ-A2QM TCGA-AJ-A2QO TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3BG 
        1.08         0.85         3.02         0.49         1.12         0.76 
TCGA-AJ-A3EK TCGA-AJ-A3EL TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NF TCGA-AJ-A3NG 
       14.66        22.49        22.26         0.92         1.35        15.62 
TCGA-AJ-A3OJ TCGA-AJ-A3QS TCGA-AJ-A3TW TCGA-AP-A053 TCGA-AP-A059 TCGA-AP-A0L8 
        1.94        16.87         1.71         5.95         8.22        48.79 
TCGA-AP-A0L9 TCGA-AP-A0LD TCGA-AP-A0LF TCGA-AP-A0LH TCGA-AP-A0LI TCGA-AP-A1DH 
      125.42       117.99         3.39        36.36        97.71        71.67 
TCGA-AP-A1DQ TCGA-AP-A1E3 TCGA-AP-A1E4 TCGA-AP-A3K1 TCGA-AX-A06B TCGA-AX-A06F 
       41.95        27.85        16.24        18.25        53.92        51.09 
TCGA-AX-A0IU TCGA-AX-A0IW TCGA-AX-A1C7 TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CC 
       28.54        37.78        16.96        13.55        20.28        12.43 
TCGA-AX-A1CF TCGA-AX-A1CP TCGA-AX-A1CR TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 
       76.83        36.39        11.08         4.77        30.12        71.24 
TCGA-AX-A2H8 TCGA-AX-A2HF TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A2HK TCGA-AX-A2IN 
       61.18        19.36        26.33        17.75         2.96        31.13 
TCGA-AX-A2IO TCGA-AX-A3FS TCGA-AX-A3FT TCGA-AX-A3G1 TCGA-AX-A3G3 TCGA-AX-A3G4 
       38.70         0.23         0.10        20.52         0.03         0.13 
TCGA-AX-A3G7 TCGA-AX-A3G9 TCGA-AX-A3GI TCGA-B5-A0JN TCGA-B5-A0K3 TCGA-B5-A0K4 
        0.23         8.35         0.13        80.38        23.01        17.88 
TCGA-B5-A0K8 TCGA-B5-A0K9 TCGA-B5-A11H TCGA-B5-A11I TCGA-B5-A11L TCGA-B5-A1MR 
       17.85        11.01        88.34        75.72        45.90       191.84 
TCGA-B5-A1MS TCGA-B5-A1MU TCGA-B5-A1MW TCGA-B5-A1MY TCGA-B5-A1N2 TCGA-B5-A3S1 
      102.31        50.89        14.70        11.87        12.79         5.03 
TCGA-B5-A5OD TCGA-B5-A5OE TCGA-BG-A0LX TCGA-BG-A0M4 TCGA-BG-A0M6 TCGA-BG-A0MG 
       34.13        34.95        20.19        34.98         7.92        48.56 
TCGA-BG-A0MT TCGA-BG-A0YV TCGA-BG-A221 TCGA-BG-A2AD TCGA-BG-A2AE TCGA-BG-A3EW 
       21.17        12.56         1.81        35.67        23.70        11.31 
TCGA-BG-A3PP TCGA-BK-A0CC TCGA-BK-A139 TCGA-BK-A26L TCGA-BS-A0TA TCGA-BS-A0TE 
        6.81        10.22        10.16        24.13        23.47         4.80 
TCGA-BS-A0TJ TCGA-BS-A0U9 TCGA-BS-A0UF TCGA-BS-A0UV TCGA-BS-A0V8 TCGA-D1-A0ZP 
       67.99        67.20        85.84        73.25        49.55        29.95 
TCGA-D1-A0ZZ TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A167 TCGA-D1-A168 TCGA-D1-A16G 
       22.55        39.48        29.88        15.72        36.10        27.42 
TCGA-D1-A16I TCGA-D1-A16J TCGA-D1-A16S TCGA-D1-A16Y TCGA-D1-A179 TCGA-D1-A17C 
       11.51        29.92        18.67        17.49         6.77         0.99 
TCGA-D1-A17H TCGA-D1-A1NU TCGA-D1-A1NW TCGA-D1-A2G0 TCGA-D1-A2G7 TCGA-D1-A3DG 
       28.01        13.22         0.72         3.52        44.88         4.27 
TCGA-D1-A3DH TCGA-DI-A1BU TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QU 
        4.11        39.29        35.38         9.37        12.39        31.10 
TCGA-DI-A2QY TCGA-E6-A1LZ TCGA-E6-A2P8 TCGA-EC-A1QX TCGA-EO-A1Y5 TCGA-EO-A1Y8 
       91.96        48.36         2.37         7.36        10.92        10.78 
TCGA-EO-A22T TCGA-EO-A2CG TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EO-A3AV TCGA-EO-A3AY 
       33.01        32.38        19.40        34.39        35.15        12.89 
TCGA-EO-A3AZ TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1G7 TCGA-EY-A1GC 
       27.16        26.96        22.26        16.34         6.21         4.54 
TCGA-EY-A1GJ TCGA-EY-A1GM TCGA-EY-A1GO TCGA-EY-A1GP TCGA-EY-A1GS TCGA-EY-A1GT 
       23.90         6.90        19.27        18.84        15.09        16.11 
TCGA-EY-A1GV TCGA-EY-A210 TCGA-EY-A212 TCGA-EY-A214 TCGA-EY-A215 TCGA-EY-A2ON 
       15.81        12.59         3.62        14.40        18.87        13.45 
TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A547 TCGA-EY-A54A 
       29.10        27.35        13.84         6.44        17.92         3.72 
TCGA-FI-A2CX TCGA-FI-A2CY TCGA-FI-A2D0 TCGA-FI-A2D2 TCGA-FI-A2D4 TCGA-FI-A2D5 
       40.01        34.98        33.99        36.00         7.99        13.84 
TCGA-FI-A2D6 TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX TCGA-FI-A2EY TCGA-FI-A2F8 
        8.98        96.69        59.01         9.07        28.93        25.02 
TCGA-FI-A2F9 TCGA-FI-A3PV TCGA-H5-A2HR TCGA-K6-A3WQ TCGA-KJ-A3U4 TCGA-PG-A5BC 
       26.01        41.06         1.74        13.15         2.43        10.82 

$subtype3
TCGA-A5-A0G9 TCGA-A5-A0GB TCGA-A5-A0GD TCGA-A5-A0GE TCGA-A5-A0GG TCGA-A5-A0GJ 
       83.51        32.78         3.22       105.37        87.32        65.75 
TCGA-A5-A0GM TCGA-A5-A0GQ TCGA-A5-A0GU TCGA-A5-A0R6 TCGA-A5-A0R8 TCGA-A5-A0R9 
       60.53        38.37        28.27        19.96        19.59        24.62 
TCGA-A5-A0RA TCGA-A5-A0VO TCGA-A5-A0VP TCGA-A5-A1OJ TCGA-AJ-A2QK TCGA-AJ-A2QL 
       29.06        11.97        42.35         9.60         0.39        19.79 
TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3I9 TCGA-AJ-A3OK TCGA-AJ-A5DW TCGA-AJ-A8CT 
        2.24         1.68         1.28        15.95         2.33         2.70 
TCGA-AP-A05O TCGA-AP-A0LJ TCGA-AP-A0LP TCGA-AP-A0LQ TCGA-AP-A0LS TCGA-AP-A1DK 
       12.20        31.73        61.64        80.78        63.06        60.36 
TCGA-AP-A1DP TCGA-AP-A1DV TCGA-AX-A05S TCGA-AX-A05T TCGA-AX-A05W TCGA-AX-A05Y 
       35.54         6.71        13.58        19.82        68.35        72.03 
TCGA-AX-A063 TCGA-AX-A06H TCGA-AX-A06L TCGA-AX-A1C9 TCGA-AX-A1CE TCGA-AX-A1CJ 
       66.58        27.39        60.66        15.25        20.05        54.12 
TCGA-AX-A2H7 TCGA-AX-A2HJ TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3GB TCGA-B5-A0JS 
       33.53        27.32         0.33         0.13        14.47        46.75 
TCGA-B5-A0JT TCGA-B5-A0JX TCGA-B5-A0K1 TCGA-B5-A0K2 TCGA-B5-A0KB TCGA-B5-A11G 
       43.13        44.71        30.51        25.91         4.11       113.36 
TCGA-B5-A11J TCGA-B5-A11M TCGA-B5-A11N TCGA-B5-A11O TCGA-B5-A11P TCGA-B5-A11Q 
       54.44        44.78        43.96        40.50        36.82        32.09 
TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11W TCGA-B5-A11Y TCGA-B5-A121 TCGA-B5-A1MV 
       33.50        27.35        19.50        18.41        16.57        14.40 
TCGA-B5-A1MX TCGA-B5-A3FC TCGA-BG-A0M0 TCGA-BG-A0M2 TCGA-BG-A0M7 TCGA-BG-A0M8 
       11.70        62.14        19.33        20.94        38.37        36.49 
TCGA-BG-A0M9 TCGA-BG-A0MA TCGA-BG-A0MC TCGA-BG-A0MH TCGA-BG-A0MK TCGA-BG-A0VV 
       28.27        10.72        41.52        44.09        43.30        26.66 
TCGA-BG-A0VW TCGA-BG-A0VZ TCGA-BG-A0W1 TCGA-BG-A0YU TCGA-BG-A187 TCGA-BG-A18A 
       16.34        28.54        52.83        14.83        14.73        14.01 
TCGA-BG-A18B TCGA-BG-A2L7 TCGA-BK-A0C9 TCGA-BK-A0CA TCGA-BK-A56F TCGA-BK-A6W3 
       15.45        20.12        35.90        34.98        13.18        10.03 
TCGA-BK-A6W4 TCGA-BS-A0TC TCGA-BS-A0TD TCGA-BS-A0UA TCGA-BS-A0UL TCGA-BS-A0UM 
        9.86        85.55        78.21        88.34        81.57        86.93 
TCGA-BS-A0V6 TCGA-D1-A0ZO TCGA-D1-A0ZR TCGA-D1-A0ZU TCGA-D1-A0ZV TCGA-D1-A101 
       62.79        19.79         0.56        28.67        23.93         1.74 
TCGA-D1-A103 TCGA-D1-A15W TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A165 TCGA-D1-A169 
       21.99        30.08        29.33        37.64         0.66        37.32 
TCGA-D1-A16B TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F TCGA-D1-A16O TCGA-D1-A16Q 
       36.36        37.51        36.79         2.63        33.63        10.65 
TCGA-D1-A16V TCGA-D1-A16X TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A176 TCGA-D1-A17A 
        1.41         3.65        19.53         6.64        30.15         1.58 
TCGA-D1-A17B TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17L TCGA-D1-A17N TCGA-D1-A17Q 
        7.00        30.44         1.28        26.37         1.51         1.78 
TCGA-D1-A17S TCGA-D1-A17T TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NX TCGA-D1-A1NZ 
       24.30         2.33        22.92         1.41        18.25        18.02 
TCGA-D1-A1O0 TCGA-D1-A1O5 TCGA-D1-A1O7 TCGA-D1-A2G5 TCGA-DI-A1BY TCGA-E6-A2P9 
        2.07        15.06         1.05        41.42        36.62         6.67 
TCGA-EC-A1NJ TCGA-EC-A24G TCGA-EO-A1Y7 TCGA-EO-A22Y TCGA-EY-A1GE TCGA-EY-A1GF 
       16.01        16.80         7.99        24.79        24.36        27.16 
TCGA-EY-A1GH TCGA-EY-A1GI TCGA-EY-A1GK TCGA-EY-A1GW TCGA-EY-A1GX TCGA-EY-A1H0 
       23.34        23.34        22.78         8.55         6.48        19.33 
TCGA-EY-A549 TCGA-FI-A2F4 TCGA-QS-A5YQ TCGA-QS-A5YR 
        6.97        28.96         4.21         5.52 

subtype1 subtype2 subtype3 
    0.13     0.03     0.13 
subtype1 subtype2 subtype3 
  185.79   191.84   113.36 
subtype1 subtype2 subtype3 
  26.120   18.755   23.635 
[1] "0.1 - 185.8 (26.1)" "0.0 - 191.8 (18.8)" "0.1 - 113.4 (23.6)"
D9V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                     134
  subtype2                                      88
  subtype3                                     150
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             3                                 1
  subtype2                            16                                90
  subtype3                             1                                 3
D9V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA      134       88      150
  MIXED SEROUS AND ENDOMETRIOID                  3       16        1
  SEROUS ENDOMETRIAL ADENOCARCINOMA              1       90        3
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V4, binary
          cls
clus         0   1
  subtype1  42  96
  subtype2  50 144
  subtype3  42 112
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   42   96
  subtype2   50  144
  subtype3   42  112
     clus
vv    subtype1 subtype2 subtype3
  NO        42       50       42
  YES       96      144      112
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1  99   7   3   6
  subtype2 124  11  11  13
  subtype3 113   4   2  10
D9V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0       99      124      113
  R1        7       11        4
  R2        3       11        2
  RX        6       13       10
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                2     6                        21
  subtype2                                1     7                        37
  subtype3                                1     6                        18
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         2   100
  subtype2                                         6   129
  subtype3                                         1   124
D9V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 2        1        1
  ASIAN                                            6        7        6
  BLACK OR AFRICAN AMERICAN                       21       37       18
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        2        6        1
  WHITE                                          100      129      124
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V7, binary
          cls
clus         0   1
  subtype1   2  92
  subtype2   9 134
  subtype3   2 113
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   92
  subtype2    9  134
  subtype3    2  113
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            2        9        2
  NOT HISPANIC OR LATINO       92      134      113
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(10) Variable = MIRSEQ_CHIERARCHICAL
D10V1, survival
          sevent
clus2        0   1
  subtype1  51   3
  subtype2 117  29
  subtype3 109   6
  subtype4 150  19
subtype1 subtype2 subtype3 subtype4 
      54      146      115      169 
subtype1 subtype2 subtype3 subtype4 
       3       29        6       19 
$subtype1
TCGA-A5-A0GI TCGA-A5-A0GM TCGA-A5-A0GU TCGA-A5-A0GV TCGA-A5-A0GX TCGA-AJ-A3NC 
       57.53        60.53        28.27        20.81        68.65        36.99 
TCGA-AP-A0LJ TCGA-AP-A0LL TCGA-AP-A0LN TCGA-AP-A0LV TCGA-AX-A05T TCGA-AX-A05U 
       31.73        83.97        82.52        25.08        19.82        29.69 
TCGA-AX-A05Z TCGA-AX-A062 TCGA-AX-A0IS TCGA-AX-A1C4 TCGA-AX-A3GB TCGA-B5-A0K0 
       46.45        45.99        35.01        13.28        14.47        28.34 
TCGA-B5-A0K6 TCGA-B5-A0K7 TCGA-B5-A11F TCGA-B5-A11V TCGA-B5-A11Z TCGA-B5-A1MZ 
       13.74        17.10       185.79        19.56        17.36        15.29 
TCGA-BG-A0LW TCGA-BG-A0M3 TCGA-BG-A0M8 TCGA-BG-A0MI TCGA-BG-A0MO TCGA-BG-A0MS 
       18.61        35.21        36.49        23.47        43.04        30.81 
TCGA-BG-A0MU TCGA-BG-A0VT TCGA-BG-A0VX TCGA-BG-A0W2 TCGA-BG-A186 TCGA-BK-A13B 
       20.28        24.39        34.29        56.58        13.78        31.76 
TCGA-BS-A0T9 TCGA-BS-A0TG TCGA-BS-A0TI TCGA-BS-A0U8 TCGA-BS-A0UJ TCGA-BS-A0UT 
       46.95        77.95        61.87        97.41        82.39        72.72 
TCGA-BS-A0V7 TCGA-BS-A0WQ TCGA-D1-A0ZU TCGA-D1-A102 TCGA-D1-A103 TCGA-D1-A16Q 
       63.58        66.48        28.67         4.44        21.99        10.65 
TCGA-D1-A16R TCGA-D1-A17C TCGA-D1-A17N TCGA-D1-A1O8 TCGA-DI-A1C3 TCGA-EY-A1GL 
        0.69         0.99         1.51         3.95        24.30        13.97 

$subtype2
TCGA-A5-A0G1 TCGA-A5-A0G2 TCGA-A5-A0G3 TCGA-A5-A0G5 TCGA-A5-A0GA TCGA-A5-A0GH 
      106.88       149.56        46.95        37.02        17.85        74.10 
TCGA-A5-A0GR TCGA-A5-A0R6 TCGA-A5-A1OG TCGA-A5-A1OH TCGA-A5-A2K2 TCGA-A5-A2K3 
       36.82        19.96        11.44        36.33        91.04        46.32 
TCGA-A5-A2K4 TCGA-A5-A3LP TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A2QM TCGA-AJ-A3BD 
       28.64        14.96         1.18         1.08         0.85         0.49 
TCGA-AJ-A3BF TCGA-AJ-A3EL TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NF TCGA-AJ-A3NH 
        1.12        22.49        22.26         0.92         1.35         0.76 
TCGA-AJ-A3OJ TCGA-AJ-A3QS TCGA-AJ-A3TW TCGA-AP-A059 TCGA-AP-A05P TCGA-AP-A0L8 
        1.94        16.87         1.71         8.22        20.91        48.79 
TCGA-AP-A0L9 TCGA-AP-A0LF TCGA-AP-A0LH TCGA-AP-A0LI TCGA-AP-A1DQ TCGA-AP-A3K1 
      125.42         3.39        36.36        97.71        41.95        18.25 
TCGA-AX-A06F TCGA-AX-A0IU TCGA-AX-A0IW TCGA-AX-A0J0 TCGA-AX-A0J1 TCGA-AX-A1C7 
       51.09        28.54        37.78        40.11        65.88        16.96 
TCGA-AX-A1C8 TCGA-AX-A1CA TCGA-AX-A1CC TCGA-AX-A1CP TCGA-AX-A1CR TCGA-AX-A2H2 
       13.55        20.28        12.43        36.39        11.08         4.77 
TCGA-AX-A2H4 TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HD TCGA-AX-A2HF TCGA-AX-A2HG 
       30.12        71.24        61.18        40.50        19.36        26.33 
TCGA-AX-A2HK TCGA-AX-A2IN TCGA-AX-A2IO TCGA-AX-A3FT TCGA-AX-A3G3 TCGA-AX-A3G4 
        2.96        31.13        38.70         0.10         0.03         0.13 
TCGA-AX-A3G7 TCGA-AX-A3GI TCGA-B5-A0JN TCGA-B5-A0K3 TCGA-B5-A0K8 TCGA-B5-A0K9 
        0.23         0.13        80.38        23.01        17.85        11.01 
TCGA-B5-A11I TCGA-B5-A1MR TCGA-B5-A1MS TCGA-B5-A1MU TCGA-B5-A1MY TCGA-B5-A1N2 
       75.72       191.84       102.31        50.89        11.87        12.79 
TCGA-B5-A3S1 TCGA-B5-A5OD TCGA-B5-A5OE TCGA-BG-A0M4 TCGA-BG-A0M6 TCGA-BG-A0YV 
        5.03        34.13        34.95        34.98         7.92        12.56 
TCGA-BG-A2L7 TCGA-BK-A0CC TCGA-BK-A139 TCGA-BK-A26L TCGA-BS-A0UF TCGA-D1-A0ZP 
       20.12        10.22        10.16        24.13        85.84        29.95 
TCGA-D1-A0ZS TCGA-D1-A0ZZ TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A16G TCGA-D1-A16I 
        4.87        22.55        39.48        29.88        27.42        11.51 
TCGA-D1-A16J TCGA-D1-A16S TCGA-D1-A16Y TCGA-D1-A179 TCGA-D1-A1NU TCGA-D1-A1NW 
       29.92        18.67        17.49         6.77        13.22         0.72 
TCGA-D1-A2G0 TCGA-D1-A2G7 TCGA-D1-A3DG TCGA-D1-A3DH TCGA-DI-A1BU TCGA-DI-A1NN 
        3.52        44.88         4.27         4.11        39.29        35.38 
TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QY TCGA-E6-A1LZ TCGA-E6-A2P8 TCGA-EC-A1QX 
        9.37        12.39        91.96        48.36         2.37         7.36 
TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A22T TCGA-EO-A2CG TCGA-EO-A3AV TCGA-EO-A3AZ 
       10.92        10.78        33.01        32.38        35.15        27.16 
TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1G7 TCGA-EY-A1GC TCGA-EY-A1GM 
       26.96        22.26        16.34         6.21         4.54         6.90 
TCGA-EY-A1GP TCGA-EY-A1GS TCGA-EY-A1GV TCGA-EY-A210 TCGA-EY-A212 TCGA-EY-A2ON 
       18.84        15.09        15.81        12.59         3.62        13.45 
TCGA-EY-A2OQ TCGA-EY-A3L3 TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A54A TCGA-FI-A2CX 
       29.10        27.35        13.84         6.44         3.72        40.01 
TCGA-FI-A2CY TCGA-FI-A2D2 TCGA-FI-A2D6 TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX 
       34.98        36.00         8.98        96.69        59.01         9.07 
TCGA-FI-A2EY TCGA-FI-A2F8 TCGA-FI-A2F9 TCGA-FI-A3PV TCGA-H5-A2HR TCGA-K6-A3WQ 
       28.93        25.02        26.01        41.06         1.74        13.15 
TCGA-KJ-A3U4 TCGA-PG-A5BC 
        2.43        10.82 

$subtype3
TCGA-A5-A0G9 TCGA-A5-A0GB TCGA-A5-A0GD TCGA-A5-A0GE TCGA-A5-A0GG TCGA-A5-A0GQ 
       83.51        32.78         3.22       105.37        87.32        38.37 
TCGA-A5-A0R8 TCGA-A5-A0R9 TCGA-A5-A0RA TCGA-A5-A0VO TCGA-A5-A1OJ TCGA-A5-A1OK 
       19.59        24.62        29.06        11.97         9.60         8.02 
TCGA-AJ-A2QL TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3I9 TCGA-AJ-A3OK TCGA-AJ-A8CT 
       19.79         2.24         1.68         1.28        15.95         2.70 
TCGA-AP-A05O TCGA-AP-A0LP TCGA-AP-A0LQ TCGA-AP-A0LS TCGA-AP-A1DP TCGA-AX-A05W 
       12.20        61.64        80.78        63.06        35.54        68.35 
TCGA-AX-A05Y TCGA-AX-A06J TCGA-AX-A06L TCGA-AX-A1C9 TCGA-AX-A1CE TCGA-AX-A1CJ 
       72.03        30.02        60.66        15.25        20.05        54.12 
TCGA-AX-A2H7 TCGA-AX-A2HJ TCGA-AX-A3FW TCGA-AX-A3FX TCGA-B5-A0JS TCGA-B5-A0JT 
       33.53        27.32         0.33         0.13        46.75        43.13 
TCGA-B5-A0JX TCGA-B5-A0K1 TCGA-B5-A0K2 TCGA-B5-A0KB TCGA-B5-A11J TCGA-B5-A11M 
       44.71        30.51        25.91         4.11        54.44        44.78 
TCGA-B5-A11O TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11W TCGA-B5-A11Y TCGA-B5-A121 
       40.50        33.50        27.35        19.50        18.41        16.57 
TCGA-B5-A1MV TCGA-BG-A0M0 TCGA-BG-A0M2 TCGA-BG-A0MA TCGA-BG-A0MC TCGA-BG-A0MG 
       14.40        19.33        20.94        10.72        41.52        48.56 
TCGA-BG-A0MH TCGA-BG-A0VV TCGA-BG-A0VW TCGA-BG-A0VZ TCGA-BG-A0W1 TCGA-BG-A0YU 
       44.09        26.66        16.34        28.54        52.83        14.83 
TCGA-BG-A187 TCGA-BG-A18A TCGA-BG-A18B TCGA-BK-A0C9 TCGA-BK-A0CA TCGA-BK-A13C 
       14.73        14.01        15.45        35.90        34.98        24.99 
TCGA-BK-A56F TCGA-BS-A0TA TCGA-BS-A0TC TCGA-BS-A0TD TCGA-BS-A0U5 TCGA-BS-A0V6 
       13.18        23.47        85.55        78.21        96.49        62.79 
TCGA-D1-A0ZO TCGA-D1-A0ZR TCGA-D1-A0ZV TCGA-D1-A15W TCGA-D1-A161 TCGA-D1-A162 
       19.79         0.56        23.93        30.08        29.33        37.64 
TCGA-D1-A165 TCGA-D1-A169 TCGA-D1-A16B TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F 
        0.66        37.32        36.36        37.51        36.79         2.63 
TCGA-D1-A16O TCGA-D1-A16X TCGA-D1-A17A TCGA-D1-A17B TCGA-D1-A17D TCGA-D1-A17F 
       33.63         3.65         1.58         7.00        30.44         1.28 
TCGA-D1-A17S TCGA-D1-A17T TCGA-D1-A1NS TCGA-D1-A1NX TCGA-D1-A1NZ TCGA-D1-A1O0 
       24.30         2.33         1.41        18.25        18.02         2.07 
TCGA-D1-A1O5 TCGA-D1-A1O7 TCGA-D1-A2G5 TCGA-DI-A1BY TCGA-EC-A24G TCGA-EO-A1Y7 
       15.06         1.05        41.42        36.62        16.80         7.99 
TCGA-EO-A22Y TCGA-EO-A2CH TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GH TCGA-EY-A1GK 
       24.79        19.40        24.36        27.16        23.34        22.78 
TCGA-EY-A1GW TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A549 TCGA-FI-A2F4 TCGA-QS-A5YQ 
        8.55         6.48        19.33         6.97        28.96         4.21 
TCGA-QS-A5YR 
        5.52 

$subtype4
TCGA-A5-A0GJ TCGA-A5-A0GN TCGA-A5-A0GP TCGA-A5-A0GW TCGA-A5-A0R7 TCGA-A5-A0VP 
       65.75        60.53        46.55        23.21        17.59        42.35 
TCGA-A5-A0VQ TCGA-A5-A1OF TCGA-A5-A2K5 TCGA-A5-A2K7 TCGA-A5-A3LO TCGA-AJ-A23O 
       15.95         7.92         5.33         5.16         7.33         1.97 
TCGA-AJ-A2QK TCGA-AJ-A2QN TCGA-AJ-A2QO TCGA-AJ-A3BG TCGA-AJ-A3EJ TCGA-AJ-A3EK 
        0.39         2.40         3.02         0.76         1.64        14.66 
TCGA-AJ-A3NE TCGA-AJ-A3NG TCGA-AJ-A3OL TCGA-AJ-A5DW TCGA-AJ-A8CW TCGA-AP-A051 
       20.65        15.62         1.87         2.33         0.13        83.67 
TCGA-AP-A053 TCGA-AP-A054 TCGA-AP-A0LD TCGA-AP-A0LE TCGA-AP-A0LG TCGA-AP-A0LM 
        5.95        23.31       117.99       110.37        63.16        27.12 
TCGA-AP-A0LO TCGA-AP-A0LT TCGA-AP-A1DH TCGA-AP-A1DK TCGA-AP-A1DM TCGA-AP-A1DO 
       33.40        49.22        71.67        60.36        55.89        31.30 
TCGA-AP-A1DR TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E1 TCGA-AP-A1E3 TCGA-AP-A1E4 
       49.15         6.71        30.90        10.42        27.85        16.24 
TCGA-AP-A5FX TCGA-AW-A1PO TCGA-AX-A05S TCGA-AX-A060 TCGA-AX-A063 TCGA-AX-A064 
       33.73         0.56        13.58        35.34        66.58        34.98 
TCGA-AX-A06B TCGA-AX-A06D TCGA-AX-A06H TCGA-AX-A0IZ TCGA-AX-A1C5 TCGA-AX-A1CF 
       53.92        12.26        27.39        43.82        19.20        76.83 
TCGA-AX-A1CI TCGA-AX-A1CK TCGA-AX-A1CN TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HH 
       72.56        67.50        25.12        68.71        33.40        17.75 
TCGA-AX-A3FS TCGA-AX-A3FZ TCGA-AX-A3G1 TCGA-AX-A3G8 TCGA-AX-A3G9 TCGA-B5-A0JR 
        0.23         0.20        20.52         1.18         8.35        56.91 
TCGA-B5-A0JU TCGA-B5-A0JV TCGA-B5-A0JY TCGA-B5-A0JZ TCGA-B5-A0K4 TCGA-B5-A11E 
       48.76        40.67        32.55        28.64        17.88         8.71 
TCGA-B5-A11G TCGA-B5-A11H TCGA-B5-A11L TCGA-B5-A11N TCGA-B5-A11P TCGA-B5-A11Q 
      113.36        88.34        45.90        43.96        36.82        32.09 
TCGA-B5-A11U TCGA-B5-A11X TCGA-B5-A1MW TCGA-B5-A1MX TCGA-B5-A3FC TCGA-B5-A5OC 
       16.73        19.59        14.70        11.70        62.14        41.06 
TCGA-BG-A0LX TCGA-BG-A0M7 TCGA-BG-A0M9 TCGA-BG-A0MK TCGA-BG-A0MQ TCGA-BG-A0MT 
       20.19        38.37        28.27        43.30        39.32        21.17 
TCGA-BG-A0RY TCGA-BG-A18C TCGA-BG-A221 TCGA-BG-A222 TCGA-BG-A2AD TCGA-BG-A2AE 
       15.42        15.45         1.81         9.57        35.67        23.70 
TCGA-BG-A3EW TCGA-BG-A3PP TCGA-BK-A4ZD TCGA-BK-A6W3 TCGA-BK-A6W4 TCGA-BS-A0TE 
       11.31         6.81        16.64        10.03         9.86         4.80 
TCGA-BS-A0TJ TCGA-BS-A0U7 TCGA-BS-A0U9 TCGA-BS-A0UA TCGA-BS-A0UL TCGA-BS-A0UM 
       67.99        30.74        67.20        88.34        81.57        86.93 
TCGA-BS-A0UV TCGA-BS-A0V4 TCGA-BS-A0V8 TCGA-BS-A0VI TCGA-D1-A0ZN TCGA-D1-A0ZQ 
       73.25        59.51        49.55        63.16        16.83         8.55 
TCGA-D1-A101 TCGA-D1-A15Z TCGA-D1-A160 TCGA-D1-A163 TCGA-D1-A167 TCGA-D1-A168 
        1.74         1.91         3.68        32.58        15.72        36.10 
TCGA-D1-A16N TCGA-D1-A16V TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A176 TCGA-D1-A177 
       31.07         1.41        19.53         6.64        30.15        18.02 
TCGA-D1-A17H TCGA-D1-A17K TCGA-D1-A17L TCGA-D1-A17M TCGA-D1-A17Q TCGA-D1-A17R 
       28.01        28.08        26.37        10.22         1.78        11.15 
TCGA-D1-A17U TCGA-D1-A1NY TCGA-D1-A2G6 TCGA-D1-A3DA TCGA-DI-A0WH TCGA-DI-A2QU 
       22.92        16.87         8.48         0.26        16.31        31.10 
TCGA-E6-A1LX TCGA-E6-A1M0 TCGA-E6-A2P9 TCGA-EC-A1NJ TCGA-EO-A22R TCGA-EO-A22S 
       23.38        17.06         6.67        16.01        31.96        35.05 
TCGA-EO-A22U TCGA-EO-A22X TCGA-EO-A3AS TCGA-EO-A3AU TCGA-EO-A3AY TCGA-EY-A1G8 
       27.12        32.28        34.39        19.36        12.89        14.99 
TCGA-EY-A1GD TCGA-EY-A1GI TCGA-EY-A1GJ TCGA-EY-A1GO TCGA-EY-A1GQ TCGA-EY-A1GR 
        8.15        23.34        23.90        19.27        17.88        17.62 
TCGA-EY-A1GT TCGA-EY-A1GU TCGA-EY-A214 TCGA-EY-A215 TCGA-EY-A2OM TCGA-EY-A2OO 
       16.11        12.43        14.40        18.87        22.82        45.76 
TCGA-EY-A2OP TCGA-EY-A547 TCGA-EY-A548 TCGA-EY-A5W2 TCGA-FI-A2D0 TCGA-FI-A2D4 
       31.04        17.92         2.14         5.29        33.99         7.99 
TCGA-FI-A2D5 
       13.84 

subtype1 subtype2 subtype3 subtype4 
    0.69     0.03     0.13     0.13 
subtype1 subtype2 subtype3 subtype4 
  185.79   191.84   105.37   117.99 
subtype1 subtype2 subtype3 subtype4 
   29.18    19.66    23.93    20.65 
[1] "0.7 - 185.8 (29.2)" "0.0 - 191.8 (19.7)" "0.1 - 105.4 (23.9)"
[4] "0.1 - 118.0 (20.6)"
D10V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      54
  subtype2                                      45
  subtype3                                     111
  subtype4                                     162
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             0                                 0
  subtype2                            13                                89
  subtype3                             1                                 3
  subtype4                             6                                 2
D10V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3 subtype4
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       54       45      111      162
  MIXED SEROUS AND ENDOMETRIOID                  0       13        1        6
  SEROUS ENDOMETRIAL ADENOCARCINOMA              0       89        3        2
[1] 3 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V4, binary
          cls
clus         0   1
  subtype1  13  41
  subtype2  33 114
  subtype3  32  83
  subtype4  56 114
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   13   41
  subtype2   33  114
  subtype3   32   83
  subtype4   56  114
     clus
vv    subtype1 subtype2 subtype3 subtype4
  NO        13       33       32       56
  YES       41      114       83      114
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1  36   4   1   4
  subtype2  98   9   7  11
  subtype3  84   2   2   8
  subtype4 118   7   6   6
D10V5, multiclass
    clus
vv   subtype1 subtype2 subtype3 subtype4
  R0       36       98       84      118
  R1        4        9        2        7
  R2        1        7        2        6
  RX        4       11        8        6
[1] 4 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     3                         4
  subtype2                                1     6                        35
  subtype3                                0     6                        13
  subtype4                                2     4                        24
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         2    42
  subtype2                                         2    94
  subtype3                                         1    92
  subtype4                                         4   125
D10V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3 subtype4
  AMERICAN INDIAN OR ALASKA NATIVE                 1        1        0        2
  ASIAN                                            3        6        6        4
  BLACK OR AFRICAN AMERICAN                        4       35       13       24
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        2        2        1        4
  WHITE                                           42       94       92      125
[1] 5 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V7, binary
          cls
clus         0   1
  subtype1   1  35
  subtype2   5 104
  subtype3   2  83
  subtype4   5 117
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    1   35
  subtype2    5  104
  subtype3    2   83
  subtype4    5  117
                        clus
vv                       subtype1 subtype2 subtype3 subtype4
  HISPANIC OR LATINO            1        5        2        5
  NOT HISPANIC OR LATINO       35      104       83      117
[1] 2 4
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = MIRSEQ_MATURE_CNMF
D11V1, survival
          sevent
clus2        0   1
  subtype1 110   8
  subtype2 129  25
  subtype3  72  13
subtype1 subtype2 subtype3 
     118      154       85 
subtype1 subtype2 subtype3 
       8       25       13 
$subtype1
TCGA-A5-A0GB TCGA-A5-A0GQ TCGA-A5-A1OK TCGA-AJ-A2QK TCGA-AJ-A2QL TCGA-AJ-A2QN 
       32.78        38.37         8.02         0.39        19.79         2.40 
TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3I9 TCGA-AJ-A3NC TCGA-AJ-A3OK TCGA-AJ-A8CT 
        2.24         1.68         1.28        36.99        15.95         2.70 
TCGA-AP-A05O TCGA-AP-A1DK TCGA-AP-A1DP TCGA-AP-A1E1 TCGA-AP-A5FX TCGA-AX-A06H 
       12.20        60.36        35.54        10.42        33.73        27.39 
TCGA-AX-A06L TCGA-AX-A1C4 TCGA-AX-A1C9 TCGA-AX-A1CE TCGA-AX-A1CJ TCGA-AX-A1CK 
       60.66        13.28        15.25        20.05        54.12        67.50 
TCGA-AX-A2H7 TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3G1 TCGA-B5-A0JR TCGA-B5-A0JT 
       33.53         0.33         0.13        20.52        56.91        43.13 
TCGA-B5-A0JX TCGA-B5-A0KB TCGA-B5-A11G TCGA-B5-A11J TCGA-B5-A11M TCGA-B5-A11N 
       44.71         4.11       113.36        54.44        44.78        43.96 
TCGA-B5-A11P TCGA-B5-A11Q TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11W TCGA-B5-A11Z 
       36.82        32.09        33.50        27.35        19.50        17.36 
TCGA-B5-A121 TCGA-B5-A1MV TCGA-B5-A1MZ TCGA-BG-A0MA TCGA-BG-A0MH TCGA-BG-A0MK 
       16.57        14.40        15.29        10.72        44.09        43.30 
TCGA-BG-A0VV TCGA-BG-A0VW TCGA-BG-A0VX TCGA-BG-A186 TCGA-BG-A187 TCGA-BG-A18A 
       26.66        16.34        34.29        13.78        14.73        14.01 
TCGA-BG-A18B TCGA-BG-A2L7 TCGA-BK-A0CA TCGA-BK-A13B TCGA-BK-A13C TCGA-BK-A56F 
       15.45        20.12        34.98        31.76        24.99        13.18 
TCGA-BK-A6W3 TCGA-BS-A0T9 TCGA-BS-A0V6 TCGA-D1-A0ZO TCGA-D1-A102 TCGA-D1-A103 
       10.03        46.95        62.79        19.79         4.44        21.99 
TCGA-D1-A15W TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A165 TCGA-D1-A169 TCGA-D1-A16B 
       30.08        29.33        37.64         0.66        37.32        36.36 
TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F TCGA-D1-A16N TCGA-D1-A16O TCGA-D1-A16Q 
       37.51        36.79         2.63        31.07        33.63        10.65 
TCGA-D1-A16R TCGA-D1-A16V TCGA-D1-A16X TCGA-D1-A176 TCGA-D1-A17A TCGA-D1-A17B 
        0.69         1.41         3.65        30.15         1.58         7.00 
TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17L TCGA-D1-A17N TCGA-D1-A17Q TCGA-D1-A17S 
       30.44         1.28        26.37         1.51         1.78        24.30 
TCGA-D1-A17T TCGA-D1-A17U TCGA-D1-A1NS TCGA-D1-A1NX TCGA-D1-A1NZ TCGA-D1-A1O0 
        2.33        22.92         1.41        18.25        18.02         2.07 
TCGA-D1-A1O5 TCGA-D1-A1O7 TCGA-D1-A2G5 TCGA-DI-A1BY TCGA-E6-A2P9 TCGA-EC-A1NJ 
       15.06         1.05        41.42        36.62         6.67        16.01 
TCGA-EC-A24G TCGA-EO-A1Y7 TCGA-EO-A22Y TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GH 
       16.80         7.99        24.79        24.36        27.16        23.34 
TCGA-EY-A1GI TCGA-EY-A1GK TCGA-EY-A1GU TCGA-EY-A1GW TCGA-EY-A1GX TCGA-EY-A1H0 
       23.34        22.78        12.43         8.55         6.48        19.33 
TCGA-EY-A549 TCGA-FI-A2F4 TCGA-QS-A5YQ TCGA-QS-A5YR 
        6.97        28.96         4.21         5.52 

$subtype2
TCGA-A5-A0G1 TCGA-A5-A1OF TCGA-A5-A1OG TCGA-A5-A2K2 TCGA-A5-A2K3 TCGA-A5-A2K4 
      106.88         7.92        11.44        91.04        46.32        28.64 
TCGA-A5-A2K5 TCGA-A5-A2K7 TCGA-A5-A3LP TCGA-AJ-A23M TCGA-AJ-A23N TCGA-AJ-A2QM 
        5.33         5.16        14.96         1.18         1.08         0.85 
TCGA-AJ-A2QO TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3BG TCGA-AJ-A3EJ TCGA-AJ-A3EK 
        3.02         0.49         1.12         0.76         1.64        14.66 
TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NE TCGA-AJ-A3NH TCGA-AJ-A3OL TCGA-AJ-A3TW 
       22.26         0.92        20.65         0.76         1.87         1.71 
TCGA-AJ-A5DW TCGA-AJ-A8CW TCGA-AP-A059 TCGA-AP-A0LF TCGA-AP-A0LO TCGA-AP-A0LS 
        2.33         0.13         8.22         3.39        33.40        63.06 
TCGA-AP-A1DH TCGA-AP-A1DO TCGA-AP-A1DR TCGA-AP-A1DV TCGA-AP-A1E4 TCGA-AP-A3K1 
       71.67        31.30        49.15         6.71        16.24        18.25 
TCGA-AW-A1PO TCGA-AX-A064 TCGA-AX-A06D TCGA-AX-A1C5 TCGA-AX-A1C7 TCGA-AX-A1CA 
        0.56        34.98        12.26        19.20        16.96        20.28 
TCGA-AX-A1CF TCGA-AX-A1CI TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 TCGA-AX-A2H8 
       76.83        72.56         4.77        30.12        71.24        61.18 
TCGA-AX-A2HA TCGA-AX-A2HC TCGA-AX-A2HD TCGA-AX-A2HF TCGA-AX-A2HG TCGA-AX-A2HH 
       68.71        33.40        40.50        19.36        26.33        17.75 
TCGA-AX-A3FS TCGA-AX-A3FT TCGA-AX-A3FZ TCGA-AX-A3G3 TCGA-AX-A3G7 TCGA-AX-A3G8 
        0.23         0.10         0.20         0.03         0.23         1.18 
TCGA-AX-A3G9 TCGA-AX-A3GI TCGA-B5-A0JU TCGA-B5-A0K8 TCGA-B5-A11H TCGA-B5-A1MR 
        8.35         0.13        48.76        17.85        88.34       191.84 
TCGA-B5-A1MS TCGA-B5-A1MW TCGA-B5-A3FC TCGA-B5-A3S1 TCGA-B5-A5OD TCGA-B5-A5OE 
      102.31        14.70        62.14         5.03        34.13        34.95 
TCGA-BG-A0YV TCGA-BG-A18C TCGA-BG-A221 TCGA-BG-A222 TCGA-BG-A2AD TCGA-BG-A2AE 
       12.56        15.45         1.81         9.57        35.67        23.70 
TCGA-BG-A3EW TCGA-BG-A3PP TCGA-BK-A0CC TCGA-BK-A139 TCGA-BK-A4ZD TCGA-BS-A0V8 
       11.31         6.81        10.22        10.16        16.64        49.55 
TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A15Z TCGA-D1-A167 TCGA-D1-A16I TCGA-D1-A16Y 
       39.48        29.88         1.91        15.72        11.51        17.49 
TCGA-D1-A177 TCGA-D1-A179 TCGA-D1-A17K TCGA-D1-A17M TCGA-D1-A1NU TCGA-D1-A2G0 
       18.02         6.77        28.08        10.22        13.22         3.52 
TCGA-D1-A3DA TCGA-D1-A3DG TCGA-D1-A3DH TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT 
        0.26         4.27         4.11        35.38         9.37        12.39 
TCGA-E6-A1LX TCGA-E6-A1LZ TCGA-E6-A1M0 TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A22S 
       23.38        48.36        17.06        10.92        10.78        35.05 
TCGA-EO-A22U TCGA-EO-A2CH TCGA-EO-A3AS TCGA-EO-A3AU TCGA-EO-A3AV TCGA-EO-A3AY 
       27.12        19.40        34.39        19.36        35.15        12.89 
TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1G7 TCGA-EY-A1G8 TCGA-EY-A1GC 
       26.96        22.26        16.34         6.21        14.99         4.54 
TCGA-EY-A1GJ TCGA-EY-A1GL TCGA-EY-A1GO TCGA-EY-A1GR TCGA-EY-A1GS TCGA-EY-A1GT 
       23.90        13.97        19.27        17.62        15.09        16.11 
TCGA-EY-A1GV TCGA-EY-A212 TCGA-EY-A214 TCGA-EY-A215 TCGA-EY-A2OM TCGA-EY-A2ON 
       15.81         3.62        14.40        18.87        22.82        13.45 
TCGA-EY-A2OO TCGA-EY-A2OP TCGA-EY-A3L3 TCGA-EY-A3QX TCGA-EY-A4KR TCGA-EY-A547 
       45.76        31.04        27.35        13.84         6.44        17.92 
TCGA-EY-A548 TCGA-EY-A54A TCGA-EY-A5W2 TCGA-FI-A2CX TCGA-FI-A2CY TCGA-FI-A2D2 
        2.14         3.72         5.29        40.01        34.98        36.00 
TCGA-FI-A2D4 TCGA-FI-A2D5 TCGA-FI-A2D6 TCGA-FI-A2EU TCGA-FI-A2EW TCGA-FI-A2EX 
        7.99        13.84         8.98        96.69        59.01         9.07 
TCGA-FI-A2EY TCGA-H5-A2HR TCGA-K6-A3WQ TCGA-KJ-A3U4 
       28.93         1.74        13.15         2.43 

$subtype3
TCGA-A5-A0GG TCGA-A5-A0GN TCGA-A5-A0GR TCGA-A5-A1OH TCGA-A5-A1OJ TCGA-A5-A3LO 
       87.32        60.53        36.82        36.33         9.60         7.33 
TCGA-AJ-A23O TCGA-AJ-A3EL TCGA-AJ-A3NF TCGA-AJ-A3NG TCGA-AJ-A3OJ TCGA-AJ-A3QS 
        1.97        22.49         1.35        15.62         1.94        16.87 
TCGA-AP-A0LM TCGA-AP-A1DM TCGA-AP-A1DQ TCGA-AP-A1E0 TCGA-AP-A1E3 TCGA-AX-A0IZ 
       27.12        55.89        41.95        30.90        27.85        43.82 
TCGA-AX-A1C8 TCGA-AX-A1CC TCGA-AX-A1CN TCGA-AX-A1CP TCGA-AX-A1CR TCGA-AX-A2HJ 
       13.55        12.43        25.12        36.39        11.08        27.32 
TCGA-AX-A2HK TCGA-AX-A2IN TCGA-AX-A2IO TCGA-AX-A3G4 TCGA-AX-A3GB TCGA-B5-A11L 
        2.96        31.13        38.70         0.13        14.47        45.90 
TCGA-B5-A11O TCGA-B5-A11U TCGA-B5-A1MU TCGA-B5-A1MX TCGA-B5-A1MY TCGA-B5-A1N2 
       40.50        16.73        50.89        11.70        11.87        12.79 
TCGA-B5-A5OC TCGA-BK-A26L TCGA-BK-A6W4 TCGA-BS-A0UA TCGA-BS-A0V4 TCGA-BS-A0V7 
       41.06        24.13         9.86        88.34        59.51        63.58 
TCGA-BS-A0VI TCGA-D1-A0ZN TCGA-D1-A0ZQ TCGA-D1-A0ZS TCGA-D1-A160 TCGA-D1-A163 
       63.16        16.83         8.55         4.87         3.68        32.58 
TCGA-D1-A168 TCGA-D1-A16G TCGA-D1-A16J TCGA-D1-A16S TCGA-D1-A174 TCGA-D1-A175 
       36.10        27.42        29.92        18.67        19.53         6.64 
TCGA-D1-A17C TCGA-D1-A17H TCGA-D1-A17R TCGA-D1-A1NW TCGA-D1-A1NY TCGA-D1-A1O8 
        0.99        28.01        11.15         0.72        16.87         3.95 
TCGA-D1-A2G6 TCGA-D1-A2G7 TCGA-DI-A0WH TCGA-DI-A1BU TCGA-DI-A1C3 TCGA-DI-A2QU 
        8.48        44.88        16.31        39.29        24.30        31.10 
TCGA-DI-A2QY TCGA-E6-A2P8 TCGA-EC-A1QX TCGA-EO-A22R TCGA-EO-A22T TCGA-EO-A22X 
       91.96         2.37         7.36        31.96        33.01        32.28 
TCGA-EO-A2CG TCGA-EO-A3AZ TCGA-EY-A1GD TCGA-EY-A1GM TCGA-EY-A1GP TCGA-EY-A1GQ 
       32.38        27.16         8.15         6.90        18.84        17.88 
TCGA-EY-A210 TCGA-EY-A2OQ TCGA-FI-A2D0 TCGA-FI-A2F8 TCGA-FI-A2F9 TCGA-FI-A3PV 
       12.59        29.10        33.99        25.02        26.01        41.06 
TCGA-PG-A5BC 
       10.82 

subtype1 subtype2 subtype3 
    0.13     0.03     0.13 
subtype1 subtype2 subtype3 
  113.36   191.84    91.96 
subtype1 subtype2 subtype3 
   19.79    15.27    24.30 
[1] "0.1 - 113.4 (19.8)" "0.0 - 191.8 (15.3)" "0.1 - 92.0 (24.3)" 
D11V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                     114
  subtype2                                      89
  subtype3                                      56
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                             2                                 2
  subtype2                             8                                59
  subtype3                             8                                21
D11V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA      114       89       56
  MIXED SEROUS AND ENDOMETRIOID                  2        8        8
  SEROUS ENDOMETRIAL ADENOCARCINOMA              2       59       21
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V4, binary
          cls
clus         0   1
  subtype1  28  90
  subtype2  34 122
  subtype3  23  62
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   28   90
  subtype2   34  122
  subtype3   23   62
     clus
vv    subtype1 subtype2 subtype3
  NO        28       34       23
  YES       90      122       62
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus        R0  R1  R2  RX
  subtype1  77   4   2  12
  subtype2 101   9  10   7
  subtype3  65   4   1   4
D11V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0       77      101       65
  R1        4        9        4
  R2        2       10        1
  RX       12        7        4
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     1                        19
  subtype2                                1     1                        29
  subtype3                                0     4                        16
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         1    93
  subtype2                                         1   109
  subtype3                                         3    59
D11V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        1        0
  ASIAN                                            1        1        4
  BLACK OR AFRICAN AMERICAN                       19       29       16
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        1        1        3
  WHITE                                           93      109       59
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V7, binary
          cls
clus         0   1
  subtype1   2  85
  subtype2   8 110
  subtype3   0  63
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    2   85
  subtype2    8  110
  subtype3    0   63
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            2        8        0
  NOT HISPANIC OR LATINO       85      110       63
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(12) Variable = MIRSEQ_MATURE_CHIERARCHICAL
D12V1, survival
          sevent
clus2        0   1
  subtype1 125  25
  subtype2  97   7
  subtype3  89  14
subtype1 subtype2 subtype3 
     150      104      103 
subtype1 subtype2 subtype3 
      25        7       14 
$subtype1
TCGA-A5-A0G1 TCGA-A5-A0GB TCGA-A5-A0GN TCGA-A5-A1OF TCGA-A5-A1OG TCGA-A5-A2K2 
      106.88        32.78        60.53         7.92        11.44        91.04 
TCGA-A5-A2K3 TCGA-A5-A2K5 TCGA-A5-A3LP TCGA-AJ-A23M TCGA-AJ-A2QM TCGA-AJ-A2QN 
       46.32         5.33        14.96         1.18         0.85         2.40 
TCGA-AJ-A2QO TCGA-AJ-A3BD TCGA-AJ-A3BF TCGA-AJ-A3BG TCGA-AJ-A3EJ TCGA-AJ-A3NC 
        3.02         0.49         1.12         0.76         1.64        36.99 
TCGA-AJ-A3NG TCGA-AJ-A3NH TCGA-AJ-A3OL TCGA-AJ-A3TW TCGA-AJ-A5DW TCGA-AJ-A8CW 
       15.62         0.76         1.87         1.71         2.33         0.13 
TCGA-AP-A0LF TCGA-AP-A0LO TCGA-AP-A0LS TCGA-AP-A1DH TCGA-AP-A1DK TCGA-AP-A1DO 
        3.39        33.40        63.06        71.67        60.36        31.30 
TCGA-AP-A1E1 TCGA-AP-A3K1 TCGA-AW-A1PO TCGA-AX-A06D TCGA-AX-A1C4 TCGA-AX-A1C5 
       10.42        18.25         0.56        12.26        13.28        19.20 
TCGA-AX-A1C7 TCGA-AX-A1CA TCGA-AX-A1CF TCGA-AX-A1CK TCGA-AX-A1CN TCGA-AX-A1CR 
       16.96        20.28        76.83        67.50        25.12        11.08 
TCGA-AX-A2H2 TCGA-AX-A2H4 TCGA-AX-A2H5 TCGA-AX-A2H8 TCGA-AX-A2HA TCGA-AX-A2HC 
        4.77        30.12        71.24        61.18        68.71        33.40 
TCGA-AX-A2HD TCGA-AX-A3FS TCGA-AX-A3FZ TCGA-AX-A3G3 TCGA-AX-A3G7 TCGA-AX-A3G8 
       40.50         0.23         0.20         0.03         0.23         1.18 
TCGA-AX-A3GI TCGA-B5-A0JU TCGA-B5-A0K8 TCGA-B5-A11G TCGA-B5-A11H TCGA-B5-A11L 
        0.13        48.76        17.85       113.36        88.34        45.90 
TCGA-B5-A11Q TCGA-B5-A11U TCGA-B5-A11Z TCGA-B5-A1MS TCGA-B5-A1MW TCGA-B5-A3FC 
       32.09        16.73        17.36       102.31        14.70        62.14 
TCGA-B5-A3S1 TCGA-B5-A5OD TCGA-B5-A5OE TCGA-BG-A0YV TCGA-BG-A186 TCGA-BG-A18C 
        5.03        34.13        34.95        12.56        13.78        15.45 
TCGA-BG-A221 TCGA-BG-A222 TCGA-BG-A2AD TCGA-BG-A2AE TCGA-BG-A2L7 TCGA-BG-A3EW 
        1.81         9.57        35.67        23.70        20.12        11.31 
TCGA-BK-A139 TCGA-BK-A13B TCGA-BK-A4ZD TCGA-BS-A0T9 TCGA-BS-A0V8 TCGA-D1-A103 
       10.16        31.76        16.64        46.95        49.55        21.99 
TCGA-D1-A15V TCGA-D1-A15X TCGA-D1-A15Z TCGA-D1-A16I TCGA-D1-A16N TCGA-D1-A16S 
       39.48        29.88         1.91        11.51        31.07        18.67 
TCGA-D1-A16V TCGA-D1-A16Y TCGA-D1-A176 TCGA-D1-A179 TCGA-D1-A17K TCGA-D1-A17L 
        1.41        17.49        30.15         6.77        28.08        26.37 
TCGA-D1-A17Q TCGA-D1-A1NU TCGA-D1-A1O8 TCGA-D1-A2G0 TCGA-D1-A3DA TCGA-D1-A3DH 
        1.78        13.22         3.95         3.52         0.26         4.11 
TCGA-DI-A0WH TCGA-DI-A1NN TCGA-DI-A1NO TCGA-DI-A2QT TCGA-DI-A2QU TCGA-E6-A1LZ 
       16.31        35.38         9.37        12.39        31.10        48.36 
TCGA-E6-A1M0 TCGA-EO-A1Y5 TCGA-EO-A1Y8 TCGA-EO-A22S TCGA-EO-A22U TCGA-EO-A3AS 
       17.06        10.92        10.78        35.05        27.12        34.39 
TCGA-EO-A3AV TCGA-EO-A3B1 TCGA-EO-A3KU TCGA-EO-A3KW TCGA-EY-A1G8 TCGA-EY-A1GC 
       35.15        26.96        22.26        16.34        14.99         4.54 
TCGA-EY-A1GD TCGA-EY-A1GJ TCGA-EY-A1GL TCGA-EY-A1GR TCGA-EY-A1GS TCGA-EY-A1GU 
        8.15        23.90        13.97        17.62        15.09        12.43 
TCGA-EY-A1GV TCGA-EY-A212 TCGA-EY-A214 TCGA-EY-A215 TCGA-EY-A2OM TCGA-EY-A2ON 
       15.81         3.62        14.40        18.87        22.82        13.45 
TCGA-EY-A2OO TCGA-EY-A2OP TCGA-EY-A3L3 TCGA-EY-A4KR TCGA-EY-A548 TCGA-FI-A2CX 
       45.76        31.04        27.35         6.44         2.14        40.01 
TCGA-FI-A2CY TCGA-FI-A2D2 TCGA-FI-A2D4 TCGA-FI-A2D5 TCGA-FI-A2EU TCGA-FI-A2EW 
       34.98        36.00         7.99        13.84        96.69        59.01 
TCGA-FI-A2EX TCGA-FI-A2EY TCGA-FI-A2F4 TCGA-H5-A2HR TCGA-K6-A3WQ TCGA-KJ-A3U4 
        9.07        28.93        28.96         1.74        13.15         2.43 

$subtype2
TCGA-A5-A0GG TCGA-A5-A0GQ TCGA-A5-A1OJ TCGA-A5-A1OK TCGA-AJ-A2QK TCGA-AJ-A2QL 
       87.32        38.37         9.60         8.02         0.39        19.79 
TCGA-AJ-A3BI TCGA-AJ-A3BK TCGA-AJ-A3I9 TCGA-AJ-A3OK TCGA-AJ-A8CT TCGA-AP-A05O 
        2.24         1.68         1.28        15.95         2.70        12.20 
TCGA-AP-A1DP TCGA-AP-A5FX TCGA-AX-A06L TCGA-AX-A1C9 TCGA-AX-A1CE TCGA-AX-A1CJ 
       35.54        33.73        60.66        15.25        20.05        54.12 
TCGA-AX-A2H7 TCGA-AX-A2HJ TCGA-AX-A3FW TCGA-AX-A3FX TCGA-AX-A3G1 TCGA-AX-A3GB 
       33.53        27.32         0.33         0.13        20.52        14.47 
TCGA-B5-A0JR TCGA-B5-A0JT TCGA-B5-A0JX TCGA-B5-A0KB TCGA-B5-A11J TCGA-B5-A11M 
       56.91        43.13        44.71         4.11        54.44        44.78 
TCGA-B5-A11O TCGA-B5-A11P TCGA-B5-A11R TCGA-B5-A11S TCGA-B5-A11W TCGA-B5-A121 
       40.50        36.82        33.50        27.35        19.50        16.57 
TCGA-B5-A1MV TCGA-B5-A1MZ TCGA-BG-A0MA TCGA-BG-A0MH TCGA-BG-A0MK TCGA-BG-A0VV 
       14.40        15.29        10.72        44.09        43.30        26.66 
TCGA-BG-A0VW TCGA-BG-A0VX TCGA-BG-A187 TCGA-BG-A18A TCGA-BG-A18B TCGA-BK-A0CA 
       16.34        34.29        14.73        14.01        15.45        34.98 
TCGA-BK-A13C TCGA-BK-A56F TCGA-BS-A0UA TCGA-BS-A0V6 TCGA-BS-A0V7 TCGA-D1-A0ZO 
       24.99        13.18        88.34        62.79        63.58        19.79 
TCGA-D1-A102 TCGA-D1-A15W TCGA-D1-A161 TCGA-D1-A162 TCGA-D1-A165 TCGA-D1-A169 
        4.44        30.08        29.33        37.64         0.66        37.32 
TCGA-D1-A16B TCGA-D1-A16D TCGA-D1-A16E TCGA-D1-A16F TCGA-D1-A16O TCGA-D1-A16Q 
       36.36        37.51        36.79         2.63        33.63        10.65 
TCGA-D1-A16R TCGA-D1-A16X TCGA-D1-A174 TCGA-D1-A175 TCGA-D1-A17A TCGA-D1-A17B 
        0.69         3.65        19.53         6.64         1.58         7.00 
TCGA-D1-A17D TCGA-D1-A17F TCGA-D1-A17N TCGA-D1-A17S TCGA-D1-A17T TCGA-D1-A17U 
       30.44         1.28         1.51        24.30         2.33        22.92 
TCGA-D1-A1NS TCGA-D1-A1NX TCGA-D1-A1NZ TCGA-D1-A1O0 TCGA-D1-A1O5 TCGA-D1-A1O7 
        1.41        18.25        18.02         2.07        15.06         1.05 
TCGA-D1-A2G5 TCGA-DI-A1BY TCGA-DI-A1C3 TCGA-E6-A2P9 TCGA-EC-A1NJ TCGA-EC-A24G 
       41.42        36.62        24.30         6.67        16.01        16.80 
TCGA-EO-A1Y7 TCGA-EO-A22Y TCGA-EO-A2CH TCGA-EY-A1GE TCGA-EY-A1GF TCGA-EY-A1GH 
        7.99        24.79        19.40        24.36        27.16        23.34 
TCGA-EY-A1GK TCGA-EY-A1GW TCGA-EY-A1GX TCGA-EY-A1H0 TCGA-EY-A547 TCGA-EY-A549 
       22.78         8.55         6.48        19.33        17.92         6.97 
TCGA-QS-A5YQ TCGA-QS-A5YR 
        4.21         5.52 

$subtype3
TCGA-A5-A0GR TCGA-A5-A1OH TCGA-A5-A2K4 TCGA-A5-A2K7 TCGA-A5-A3LO TCGA-AJ-A23N 
       36.82        36.33        28.64         5.16         7.33         1.08 
TCGA-AJ-A23O TCGA-AJ-A3EK TCGA-AJ-A3EL TCGA-AJ-A3EM TCGA-AJ-A3IA TCGA-AJ-A3NE 
        1.97        14.66        22.49        22.26         0.92        20.65 
TCGA-AJ-A3NF TCGA-AJ-A3OJ TCGA-AJ-A3QS TCGA-AP-A059 TCGA-AP-A0LM TCGA-AP-A1DM 
        1.35         1.94        16.87         8.22        27.12        55.89 
TCGA-AP-A1DQ TCGA-AP-A1DR TCGA-AP-A1DV TCGA-AP-A1E0 TCGA-AP-A1E3 TCGA-AP-A1E4 
       41.95        49.15         6.71        30.90        27.85        16.24 
TCGA-AX-A064 TCGA-AX-A06H TCGA-AX-A0IZ TCGA-AX-A1C8 TCGA-AX-A1CC TCGA-AX-A1CI 
       34.98        27.39        43.82        13.55        12.43        72.56 
TCGA-AX-A1CP TCGA-AX-A2HF TCGA-AX-A2HG TCGA-AX-A2HH TCGA-AX-A2HK TCGA-AX-A2IN 
       36.39        19.36        26.33        17.75         2.96        31.13 
TCGA-AX-A2IO TCGA-AX-A3FT TCGA-AX-A3G4 TCGA-AX-A3G9 TCGA-B5-A11N TCGA-B5-A1MR 
       38.70         0.10         0.13         8.35        43.96       191.84 
TCGA-B5-A1MU TCGA-B5-A1MX TCGA-B5-A1MY TCGA-B5-A1N2 TCGA-B5-A5OC TCGA-BG-A3PP 
       50.89        11.70        11.87        12.79        41.06         6.81 
TCGA-BK-A0CC TCGA-BK-A26L TCGA-BK-A6W3 TCGA-BK-A6W4 TCGA-BS-A0V4 TCGA-BS-A0VI 
       10.22        24.13        10.03         9.86        59.51        63.16 
TCGA-D1-A0ZN TCGA-D1-A0ZQ TCGA-D1-A0ZS TCGA-D1-A160 TCGA-D1-A163 TCGA-D1-A167 
       16.83         8.55         4.87         3.68        32.58        15.72 
TCGA-D1-A168 TCGA-D1-A16G TCGA-D1-A16J TCGA-D1-A177 TCGA-D1-A17C TCGA-D1-A17H 
       36.10        27.42        29.92        18.02         0.99        28.01 
TCGA-D1-A17M TCGA-D1-A17R TCGA-D1-A1NW TCGA-D1-A1NY TCGA-D1-A2G6 TCGA-D1-A2G7 
       10.22        11.15         0.72        16.87         8.48        44.88 
TCGA-D1-A3DG TCGA-DI-A1BU TCGA-DI-A2QY TCGA-E6-A1LX TCGA-E6-A2P8 TCGA-EC-A1QX 
        4.27        39.29        91.96        23.38         2.37         7.36 
TCGA-EO-A22R TCGA-EO-A22T TCGA-EO-A22X TCGA-EO-A2CG TCGA-EO-A3AU TCGA-EO-A3AY 
       31.96        33.01        32.28        32.38        19.36        12.89 
TCGA-EO-A3AZ TCGA-EY-A1G7 TCGA-EY-A1GI TCGA-EY-A1GM TCGA-EY-A1GO TCGA-EY-A1GP 
       27.16         6.21        23.34         6.90        19.27        18.84 
TCGA-EY-A1GQ TCGA-EY-A1GT TCGA-EY-A210 TCGA-EY-A2OQ TCGA-EY-A3QX TCGA-EY-A54A 
       17.88        16.11        12.59        29.10        13.84         3.72 
TCGA-EY-A5W2 TCGA-FI-A2D0 TCGA-FI-A2D6 TCGA-FI-A2F8 TCGA-FI-A2F9 TCGA-FI-A3PV 
        5.29        33.99         8.98        25.02        26.01        41.06 
TCGA-PG-A5BC 
       10.82 

subtype1 subtype2 subtype3 
    0.03     0.13     0.10 
subtype1 subtype2 subtype3 
  113.36    88.34   191.84 
subtype1 subtype2 subtype3 
  16.685   19.365   18.020 
[1] "0.0 - 113.4 (16.7)" "0.1 - 88.3 (19.4)"  "0.1 - 191.8 (18.0)"
D12V2, continuous
          vv
clus       ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA
  subtype1                                      89
  subtype2                                      99
  subtype3                                      71
          vv
clus       MIXED SEROUS AND ENDOMETRIOID SEROUS ENDOMETRIAL ADENOCARCINOMA
  subtype1                            10                                52
  subtype2                             2                                 3
  subtype3                             6                                27
D12V3, multiclass
                                         clus
vv                                        subtype1 subtype2 subtype3
  ENDOMETRIOID ENDOMETRIAL ADENOCARCINOMA       89       99       71
  MIXED SEROUS AND ENDOMETRIOID                 10        2        6
  SEROUS ENDOMETRIAL ADENOCARCINOMA             52        3       27
[1] 3 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V4, binary
          cls
clus         0   1
  subtype1  31 120
  subtype2  23  81
  subtype3  31  73
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1   31  120
  subtype2   23   81
  subtype3   31   73
     clus
vv    subtype1 subtype2 subtype3
  NO        31       23       31
  YES      120       81       73
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       R0 R1 R2 RX
  subtype1 96  7  9  9
  subtype2 71  2  2 10
  subtype3 76  8  2  4
D12V5, multiclass
    clus
vv   subtype1 subtype2 subtype3
  R0       96       71       76
  R1        7        2        8
  R2        9        2        2
  RX        9       10        4
[1] 4 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
          vv
clus       AMERICAN INDIAN OR ALASKA NATIVE ASIAN BLACK OR AFRICAN AMERICAN
  subtype1                                1     1                        31
  subtype2                                0     3                        15
  subtype3                                1     2                        18
          vv
clus       NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER WHITE
  subtype1                                         2   105
  subtype2                                         1    81
  subtype3                                         2    75
D12V6, multiclass
                                           clus
vv                                          subtype1 subtype2 subtype3
  AMERICAN INDIAN OR ALASKA NATIVE                 1        0        1
  ASIAN                                            1        3        2
  BLACK OR AFRICAN AMERICAN                       31       15       18
  NATIVE HAWAIIAN OR OTHER PACIFIC ISLANDER        2        1        2
  WHITE                                          105       81       75
[1] 5 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V7, binary
          cls
clus         0   1
  subtype1   4 109
  subtype2   2  78
  subtype3   4  71
[1] "tbl2"
          cls
clus       [,1] [,2]
  subtype1    4  109
  subtype2    2   78
  subtype3    4   71
                        clus
vv                       subtype1 subtype2 subtype3
  HISPANIC OR LATINO            4        2        4
  NOT HISPANIC OR LATINO      109       78       71
[1] 2 3
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
