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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Cnvs_onlysig.48.4103/CNV2ClinicalAnalysis_nozzle_onlysig_focal.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Clinical_Cnvs_onlysig.48.4103/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/404073/all_lesions.conf_99.cnv.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/SKCM-Regional_Metastatic/3215668/SKCM-Regional_Metastatic.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=SKCM-Regional_Metastatic", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"                          "-oT=SKCM-Regional_Metastatic"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=152, in cluster file=147, common to both=147
[1]  46 147
[1] "Amp Peak  1(1p12) mutation analysis"
[1] 3
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                         44                         103 
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                         44                         103 
[1] "Amp Peak  2(1q31.2) mutation analysis"
[1] 3
  AMP PEAK  2(1Q31.2) MUTATED AMP PEAK  2(1Q31.2) WILD-TYPE 
                           74                            73 
  AMP PEAK  2(1Q31.2) MUTATED AMP PEAK  2(1Q31.2) WILD-TYPE 
                           74                            73 
[1] "Amp Peak  3(1q44) mutation analysis"
[1] 3
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                         76                          71 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                         76                          71 
[1] "Amp Peak  4(3p13) mutation analysis"
[1] 3
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                         34                         113 
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                         34                         113 
[1] "Amp Peak  5(5p15.33) mutation analysis"
[1] 3
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                            38                            109 
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                            38                            109 
[1] "Amp Peak  6(5q35.3) mutation analysis"
[1] 3
  AMP PEAK  6(5Q35.3) MUTATED AMP PEAK  6(5Q35.3) WILD-TYPE 
                           16                           131 
  AMP PEAK  6(5Q35.3) MUTATED AMP PEAK  6(5Q35.3) WILD-TYPE 
                           16                           131 
[1] "Amp Peak  7(6p25.3) mutation analysis"
[1] 3
  AMP PEAK  7(6P25.3) MUTATED AMP PEAK  7(6P25.3) WILD-TYPE 
                           84                            63 
  AMP PEAK  7(6P25.3) MUTATED AMP PEAK  7(6P25.3) WILD-TYPE 
                           84                            63 
[1] "Amp Peak  8(6q12) mutation analysis"
[1] 3
  AMP PEAK  8(6Q12) MUTATED AMP PEAK  8(6Q12) WILD-TYPE 
                         33                         114 
  AMP PEAK  8(6Q12) MUTATED AMP PEAK  8(6Q12) WILD-TYPE 
                         33                         114 
[1] "Amp Peak  9(7p22.1) mutation analysis"
[1] 3
  AMP PEAK  9(7P22.1) MUTATED AMP PEAK  9(7P22.1) WILD-TYPE 
                           81                            66 
  AMP PEAK  9(7P22.1) MUTATED AMP PEAK  9(7P22.1) WILD-TYPE 
                           81                            66 
[1] "Amp Peak 10(7q34) mutation analysis"
[1] 3
  AMP PEAK 10(7Q34) MUTATED AMP PEAK 10(7Q34) WILD-TYPE 
                         85                          62 
  AMP PEAK 10(7Q34) MUTATED AMP PEAK 10(7Q34) WILD-TYPE 
                         85                          62 
[1] "Amp Peak 11(8q24.21) mutation analysis"
[1] 3
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                            70                             77 
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                            70                             77 
[1] "Amp Peak 12(9p13.3) mutation analysis"
[1] 3
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                           16                           131 
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                           16                           131 
[1] "Amp Peak 13(11q13.3) mutation analysis"
[1] 3
  AMP PEAK 13(11Q13.3) MUTATED AMP PEAK 13(11Q13.3) WILD-TYPE 
                            23                            124 
  AMP PEAK 13(11Q13.3) MUTATED AMP PEAK 13(11Q13.3) WILD-TYPE 
                            23                            124 
[1] "Amp Peak 14(12q14.1) mutation analysis"
[1] 3
  AMP PEAK 14(12Q14.1) MUTATED AMP PEAK 14(12Q14.1) WILD-TYPE 
                            27                            120 
  AMP PEAK 14(12Q14.1) MUTATED AMP PEAK 14(12Q14.1) WILD-TYPE 
                            27                            120 
[1] "Amp Peak 15(15q24.3) mutation analysis"
[1] 3
  AMP PEAK 15(15Q24.3) MUTATED AMP PEAK 15(15Q24.3) WILD-TYPE 
                            48                             99 
  AMP PEAK 15(15Q24.3) MUTATED AMP PEAK 15(15Q24.3) WILD-TYPE 
                            48                             99 
[1] "Amp Peak 16(15q26.3) mutation analysis"
[1] 3
  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                            53                             94 
  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                            53                             94 
[1] "Amp Peak 17(17q25.3) mutation analysis"
[1] 3
  AMP PEAK 17(17Q25.3) MUTATED AMP PEAK 17(17Q25.3) WILD-TYPE 
                            57                             90 
  AMP PEAK 17(17Q25.3) MUTATED AMP PEAK 17(17Q25.3) WILD-TYPE 
                            57                             90 
[1] "Amp Peak 18(19p13.2) mutation analysis"
[1] 3
  AMP PEAK 18(19P13.2) MUTATED AMP PEAK 18(19P13.2) WILD-TYPE 
                            28                            119 
  AMP PEAK 18(19P13.2) MUTATED AMP PEAK 18(19P13.2) WILD-TYPE 
                            28                            119 
[1] "Amp Peak 19(22q13.2) mutation analysis"
[1] 3
  AMP PEAK 19(22Q13.2) MUTATED AMP PEAK 19(22Q13.2) WILD-TYPE 
                            64                             83 
  AMP PEAK 19(22Q13.2) MUTATED AMP PEAK 19(22Q13.2) WILD-TYPE 
                            64                             83 
[1] "Amp Peak 20(Xq28) mutation analysis"
[1] 3
  AMP PEAK 20(XQ28) MUTATED AMP PEAK 20(XQ28) WILD-TYPE 
                         24                         123 
  AMP PEAK 20(XQ28) MUTATED AMP PEAK 20(XQ28) WILD-TYPE 
                         24                         123 
[1] "Del Peak  1(1p36.31) mutation analysis"
[1] 3
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                            37                            110 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                            37                            110 
[1] "Del Peak  2(1p22.1) mutation analysis"
[1] 3
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                           42                           105 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                           42                           105 
[1] "Del Peak  3(2q37.3) mutation analysis"
[1] 3
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                           36                           111 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                           36                           111 
[1] "Del Peak  4(3p24.3) mutation analysis"
[1] 3
  DEL PEAK  4(3P24.3) MUTATED DEL PEAK  4(3P24.3) WILD-TYPE 
                           21                           126 
  DEL PEAK  4(3P24.3) MUTATED DEL PEAK  4(3P24.3) WILD-TYPE 
                           21                           126 
[1] "Del Peak  5(3q23) mutation analysis"
[1] 3
  DEL PEAK  5(3Q23) MUTATED DEL PEAK  5(3Q23) WILD-TYPE 
                         21                         126 
  DEL PEAK  5(3Q23) MUTATED DEL PEAK  5(3Q23) WILD-TYPE 
                         21                         126 
[1] "Del Peak  6(4p16.3) mutation analysis"
[1] 3
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                           31                           116 
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                           31                           116 
[1] "Del Peak  7(4q25) mutation analysis"
[1] 3
  DEL PEAK  7(4Q25) MUTATED DEL PEAK  7(4Q25) WILD-TYPE 
                         33                         114 
  DEL PEAK  7(4Q25) MUTATED DEL PEAK  7(4Q25) WILD-TYPE 
                         33                         114 
[1] "Del Peak  8(4q34.3) mutation analysis"
[1] 3
  DEL PEAK  8(4Q34.3) MUTATED DEL PEAK  8(4Q34.3) WILD-TYPE 
                           35                           112 
  DEL PEAK  8(4Q34.3) MUTATED DEL PEAK  8(4Q34.3) WILD-TYPE 
                           35                           112 
[1] "Del Peak  9(5q11.2) mutation analysis"
[1] 3
  DEL PEAK  9(5Q11.2) MUTATED DEL PEAK  9(5Q11.2) WILD-TYPE 
                           44                           103 
  DEL PEAK  9(5Q11.2) MUTATED DEL PEAK  9(5Q11.2) WILD-TYPE 
                           44                           103 
[1] "Del Peak 10(5q31.3) mutation analysis"
[1] 3
  DEL PEAK 10(5Q31.3) MUTATED DEL PEAK 10(5Q31.3) WILD-TYPE 
                           59                            88 
  DEL PEAK 10(5Q31.3) MUTATED DEL PEAK 10(5Q31.3) WILD-TYPE 
                           59                            88 
[1] "Del Peak 11(6q25.3) mutation analysis"
[1] 3
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           89                            58 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           89                            58 
[1] "Del Peak 12(6q26) mutation analysis"
[1] 3
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                         84                          63 
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                         84                          63 
[1] "Del Peak 13(9p23) mutation analysis"
[1] 3
  DEL PEAK 13(9P23) MUTATED DEL PEAK 13(9P23) WILD-TYPE 
                        103                          44 
  DEL PEAK 13(9P23) MUTATED DEL PEAK 13(9P23) WILD-TYPE 
                        103                          44 
[1] "Del Peak 14(9p21.3) mutation analysis"
[1] 3
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                          115                            32 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                          115                            32 
[1] "Del Peak 15(10p15.3) mutation analysis"
[1] 3
  DEL PEAK 15(10P15.3) MUTATED DEL PEAK 15(10P15.3) WILD-TYPE 
                            79                             68 
  DEL PEAK 15(10P15.3) MUTATED DEL PEAK 15(10P15.3) WILD-TYPE 
                            79                             68 
[1] "Del Peak 16(10q23.31) mutation analysis"
[1] 3
  DEL PEAK 16(10Q23.31) MUTATED DEL PEAK 16(10Q23.31) WILD-TYPE 
                             91                              56 
  DEL PEAK 16(10Q23.31) MUTATED DEL PEAK 16(10Q23.31) WILD-TYPE 
                             91                              56 
[1] "Del Peak 17(10q26.3) mutation analysis"
[1] 3
  DEL PEAK 17(10Q26.3) MUTATED DEL PEAK 17(10Q26.3) WILD-TYPE 
                            92                             55 
  DEL PEAK 17(10Q26.3) MUTATED DEL PEAK 17(10Q26.3) WILD-TYPE 
                            92                             55 
[1] "Del Peak 18(11p11.12) mutation analysis"
[1] 3
  DEL PEAK 18(11P11.12) MUTATED DEL PEAK 18(11P11.12) WILD-TYPE 
                             54                              93 
  DEL PEAK 18(11P11.12) MUTATED DEL PEAK 18(11P11.12) WILD-TYPE 
                             54                              93 
[1] "Del Peak 19(11q23.3) mutation analysis"
[1] 3
  DEL PEAK 19(11Q23.3) MUTATED DEL PEAK 19(11Q23.3) WILD-TYPE 
                            79                             68 
  DEL PEAK 19(11Q23.3) MUTATED DEL PEAK 19(11Q23.3) WILD-TYPE 
                            79                             68 
[1] "Del Peak 20(12q24.33) mutation analysis"
[1] 3
  DEL PEAK 20(12Q24.33) MUTATED DEL PEAK 20(12Q24.33) WILD-TYPE 
                             33                             114 
  DEL PEAK 20(12Q24.33) MUTATED DEL PEAK 20(12Q24.33) WILD-TYPE 
                             33                             114 
[1] "Del Peak 21(13q34) mutation analysis"
[1] 3
  DEL PEAK 21(13Q34) MUTATED DEL PEAK 21(13Q34) WILD-TYPE 
                          40                          107 
  DEL PEAK 21(13Q34) MUTATED DEL PEAK 21(13Q34) WILD-TYPE 
                          40                          107 
[1] "Del Peak 22(14q32.2) mutation analysis"
[1] 3
  DEL PEAK 22(14Q32.2) MUTATED DEL PEAK 22(14Q32.2) WILD-TYPE 
                            47                            100 
  DEL PEAK 22(14Q32.2) MUTATED DEL PEAK 22(14Q32.2) WILD-TYPE 
                            47                            100 
[1] "Del Peak 23(15q13.3) mutation analysis"
[1] 3
  DEL PEAK 23(15Q13.3) MUTATED DEL PEAK 23(15Q13.3) WILD-TYPE 
                            35                            112 
  DEL PEAK 23(15Q13.3) MUTATED DEL PEAK 23(15Q13.3) WILD-TYPE 
                            35                            112 
[1] "Del Peak 24(15q15.2) mutation analysis"
[1] 3
  DEL PEAK 24(15Q15.2) MUTATED DEL PEAK 24(15Q15.2) WILD-TYPE 
                            37                            110 
  DEL PEAK 24(15Q15.2) MUTATED DEL PEAK 24(15Q15.2) WILD-TYPE 
                            37                            110 
[1] "Del Peak 25(16p13.3) mutation analysis"
[1] 3
  DEL PEAK 25(16P13.3) MUTATED DEL PEAK 25(16P13.3) WILD-TYPE 
                            26                            121 
  DEL PEAK 25(16P13.3) MUTATED DEL PEAK 25(16P13.3) WILD-TYPE 
                            26                            121 
[1] "Del Peak 26(16q24.2) mutation analysis"
[1] 3
  DEL PEAK 26(16Q24.2) MUTATED DEL PEAK 26(16Q24.2) WILD-TYPE 
                            52                             95 
  DEL PEAK 26(16Q24.2) MUTATED DEL PEAK 26(16Q24.2) WILD-TYPE 
                            52                             95 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                          
 [2] "DAYSTODEATH"                           
 [3] "DAYSTOLASTFOLLOWUP"                    
 [4] "DAYSTOSUBMITTEDSPECIMENDX"             
 [5] "VITALSTATUS"                           
 [6] "DCCUPLOADDATE"                         
 [7] "PRIMARYSITEOFDESEASE"                  
 [8] "GENDER"                                
 [9] "DATEOFINITIALPATHOLOGICDIAGNOSIS"      
[10] "RADIATIONTHERAPY"                      
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "DISTANT.METASTASIS"                    
[13] "LYMPH.NODE.METASTASIS"                 
[14] "TUMOR.STAGECODE"                       
[15] "NEOPLASM.DISEASESTAGE"                 
[16] "BATCHNUMBER"                           

Input Data has 16 rows and 147 columns.

[1] "Batch" "16"   
[1] "Last Follow UP"
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
          NA           NA           NA         3004           NA           NA 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
          NA           NA           NA           NA           NA           NA 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A148 
        1390           NA           NA           NA          164           NA 
TCGA-D9-A149 TCGA-D9-A1JW TCGA-D9-A1JX TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV 
          NA           NA           NA          122           87         1484 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
          NA         1555           NA         1192           NA           NA 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
        1116           NA          680           NA          589           NA 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
         534          451           NA           NA           NA           NA 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
          NA         1097          156         1155           NA         1175 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
         134           NA           NA          366          247          269 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
         304          197           NA           NA          769          727 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-EE-A2GB TCGA-EE-A2GC TCGA-EE-A2GD TCGA-EE-A2GE 
          NA          272           NA           NA           NA           NA 
TCGA-EE-A2GH TCGA-EE-A2GI TCGA-EE-A2GJ TCGA-EE-A2GK TCGA-EE-A2GL TCGA-EE-A2GM 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2GN TCGA-EE-A2GO TCGA-EE-A2GP TCGA-EE-A2GR TCGA-EE-A2GS TCGA-EE-A2GT 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2GU TCGA-EE-A2M5 TCGA-EE-A2M6 TCGA-EE-A2M7 TCGA-EE-A2M8 TCGA-EE-A2MC 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2MD TCGA-EE-A2ME TCGA-EE-A2MG TCGA-EE-A2MH TCGA-EE-A2MI TCGA-EE-A2MJ 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2MK TCGA-EE-A2ML TCGA-EE-A2MM TCGA-EE-A2MN TCGA-EE-A2MP TCGA-EE-A2MQ 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A2MR TCGA-EE-A2MS TCGA-EE-A2MT TCGA-EE-A2MU TCGA-EE-A3AA TCGA-EE-A3AB 
          NA           NA           NA           NA           NA           NA 
TCGA-EE-A3AC TCGA-EE-A3AD TCGA-EE-A3AE TCGA-EE-A3AF TCGA-EE-A3AG TCGA-EE-A3AH 
          NA           NA           NA           NA           NA           NA 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
          NA           NA           NA           NA           NA         1303 
TCGA-ER-A19O TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
          NA         2386          200           52          181         2195 
TCGA-FS-A1YW TCGA-FS-A1YX TCGA-FS-A1Z4 TCGA-FS-A1Z7 TCGA-FS-A1ZD TCGA-FS-A1ZG 
          NA           NA           NA           NA           NA           NA 
TCGA-FS-A1ZH TCGA-FS-A1ZJ TCGA-FS-A1ZM TCGA-FS-A1ZP TCGA-FS-A1ZR TCGA-FS-A1ZS 
          NA           NA           NA           NA           NA           NA 
TCGA-FS-A1ZW TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-FW-A3TV 
          NA         1637          328          195           31           NA 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 
          NA          756           NA         2577           NA           NA 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
          NA           NA          447 
Variable 1:'AGE':	nDistinctValues=59,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=44,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=40,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOSUBMITTEDSPECIMENDX':	nDistinctValues=77,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 6:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=25,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 10:'RADIATION.THERAPY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'DISTANT.METASTASIS':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'LYMPH.NODE.METASTASIS':	nDistinctValues=10,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'TUMOR.STAGECODE':	nDistinctValues=15,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'NEOPLASM.DISEASESTAGE':	nDistinctValues=13,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'BATCH.NUMBER':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                     "PRIMARY.SITE.OF.DISEASE"
[3] "GENDER"                  "DISTANT.METASTASIS"     
[5] "LYMPH.NODE.METASTASIS"   "TUMOR.STAGECODE"        
[7] "NEOPLASM.DISEASESTAGE"  
[1] "TUMOR.?STAGE" "6"           
[1] "stage2"
vv
 T0  T1 T1A T1B  T2 T2A T2B  T3 T3A T3B  T4 T4A T4B TIS  TX 
  6   4  11   3  15  14   6   4  19  10   4   7  20   1  10 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 147 columns, 1 survival variables, and 7 non-survival variables.
AGE, nv=59, binary=FALSE, numeric=TRUE
PRIMARY.SITE.OF.DISEASE, nv=2, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
DISTANT.METASTASIS, nv=5, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=10, binary=FALSE, numeric=FALSE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=13, binary=FALSE, numeric=FALSE

Clustering(1) Variable = Amp Peak  1(1p12) mutation analysis
D1V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  1(1P12) MUTATED    9 17
  AMP PEAK  1(1P12) WILD-TYPE 30 27
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                         26                          57 
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                         17                          27 
$`AMP PEAK  1(1P12) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       16.47        10.26        11.41         9.30         4.01         2.86 
TCGA-DA-A3F3 TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29C 
        7.00         1.12        12.20         4.27        36.07        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29X TCGA-ER-A19D TCGA-ER-A19L 
       11.15        38.63         1.08         8.09         3.52        12.99 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-GN-A264 TCGA-GN-A266 
        6.58         1.71         5.95        72.16        31.33        10.09 
TCGA-GN-A267 TCGA-GN-A26A 
       16.21        12.16 

$`AMP PEAK  1(1P12) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 
       32.55        70.16        98.76        28.08        22.55         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14         6.35        15.25        45.70        13.32        24.00 
TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        5.39        48.79        35.80        51.12        10.03        39.19 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC 
       13.68         9.99        36.69        25.15        22.36         6.64 
TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A20F 
       19.36        17.56        14.83        11.57         6.31         5.13 
TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
        4.41         9.47        12.03         8.12         8.84         9.99 
TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
        6.48        11.31        25.28        23.90         9.67         8.94 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FS-A1ZR 
       11.11         4.18        28.64        42.84        78.44         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       53.82        10.78         6.41         1.02        15.35        24.85 
TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        15.39        14.70 

  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                       1.08                        1.02 
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                      72.16                       98.76 
  AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE 
                     10.175                      14.830 
[1] "1.1 - 72.2 (10.2)" "1.0 - 98.8 (14.8)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A26D 
"AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A26D 
"AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  1(1P12) WILD-TYPE" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK  1(1P12) MUTATED" "AMP PEAK  1(1P12) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  1(1P12) MUTATED"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
"AMP PEAK  1(1P12) WILD-TYPE"   "AMP PEAK  1(1P12) MUTATED" 
                 TCGA-GN-A26D 
"AMP PEAK  1(1P12) WILD-TYPE" 
[1] "hr=" "2"  
D1V2, continuous
D1V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  1(1P12) MUTATED     12   32
  AMP PEAK  1(1P12) WILD-TYPE   23   80
                                                                                          clus
vv                                                                                         AMP PEAK  1(1P12) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        12
  REGIONAL LYMPH NODE                                                                                             32
                                                                                          clus
vv                                                                                         AMP PEAK  1(1P12) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          23
  REGIONAL LYMPH NODE                                                                                               80
D1V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  1(1P12) MUTATED     14   30
  AMP PEAK  1(1P12) WILD-TYPE   38   65
        clus
vv       AMP PEAK  1(1P12) MUTATED AMP PEAK  1(1P12) WILD-TYPE
  FEMALE                        14                          38
  MALE                          30                          65
                             vv
clus                          M0 M1 M1A M1B M1C
  AMP PEAK  1(1P12) MUTATED   36  0   1   0   1
  AMP PEAK  1(1P12) WILD-TYPE 92  1   1   2   0
D1V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  1(1P12) MUTATED   21  0   5   4  0   1   1   2  4  0
  AMP PEAK  1(1P12) WILD-TYPE 56  2   1   8  1   3  10   2 12  2
D1V6, multiclass
D1V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  1(1P12) MUTATED             0       4        3        4        6
  AMP PEAK  1(1P12) WILD-TYPE           1      12        5        9       11
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  1(1P12) MUTATED           1         2         0         1
  AMP PEAK  1(1P12) WILD-TYPE         6         6         4         7
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  1(1P12) MUTATED            5          4          6        2
  AMP PEAK  1(1P12) WILD-TYPE          0         12         15        2
D1V8, multiclass

Clustering(2) Variable = Amp Peak  2(1q31.2) mutation analysis
D2V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  2(1Q31.2) MUTATED   21 22
  AMP PEAK  2(1Q31.2) WILD-TYPE 18 22
  AMP PEAK  2(1Q31.2) MUTATED AMP PEAK  2(1Q31.2) WILD-TYPE 
                           43                            40 
  AMP PEAK  2(1Q31.2) MUTATED AMP PEAK  2(1Q31.2) WILD-TYPE 
                           22                            22 
$`AMP PEAK  2(1Q31.2) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       16.47        98.76        28.08         8.38        21.14        11.41 
TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       15.25        13.32         9.30         5.39         4.01         2.86 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1IC TCGA-DA-A3F3 
       10.03        39.19         9.99        36.69         6.64         7.00 
TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
       17.56         6.31         1.12         4.27        36.07         5.13 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
       11.15        38.63         1.08         8.84         9.99         6.48 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A3ET 
       25.28        23.90         8.94         3.52        11.11         6.58 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26A 
        1.71         5.95        72.16        10.09        16.21        12.16 
TCGA-GN-A26D 
       14.70 

$`AMP PEAK  2(1Q31.2) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JK TCGA-D3-A3CC 
       32.55        70.16        22.55        10.26         6.35        45.70 
TCGA-D3-A3CF TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I2 TCGA-DA-A1I8 
       24.00        48.79        35.80        51.12        13.68        25.15 
TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A183 TCGA-EE-A29C 
       22.36        19.36        14.83        11.57        12.20        37.97 
TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29X TCGA-EE-A2A0 
        4.41         9.47        12.03         8.12         8.09        11.31 
TCGA-EE-A2A5 TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
        9.67         4.18        12.99        28.64        42.84        78.44 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
        8.81        53.82        10.78         6.41         1.02        15.35 
TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 
       24.85        31.33        84.72        15.39 

  AMP PEAK  2(1Q31.2) MUTATED AMP PEAK  2(1Q31.2) WILD-TYPE 
                         1.08                          1.02 
  AMP PEAK  2(1Q31.2) MUTATED AMP PEAK  2(1Q31.2) WILD-TYPE 
                        98.76                         84.72 
  AMP PEAK  2(1Q31.2) MUTATED AMP PEAK  2(1Q31.2) WILD-TYPE 
                        10.03                         15.37 
[1] "1.1 - 98.8 (10.0)" "1.0 - 84.7 (15.4)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-GN-A26D 
  "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-GN-A26D 
  "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  2(1Q31.2) MUTATED" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"AMP PEAK  2(1Q31.2) WILD-TYPE" "AMP PEAK  2(1Q31.2) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "AMP PEAK  2(1Q31.2) MUTATED"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"AMP PEAK  2(1Q31.2) WILD-TYPE"   "AMP PEAK  2(1Q31.2) MUTATED" 
                   TCGA-GN-A26D 
  "AMP PEAK  2(1Q31.2) MUTATED" 
[1] "hr=" "1.4"
D2V2, continuous
D2V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q31.2) MUTATED     20   54
  AMP PEAK  2(1Q31.2) WILD-TYPE   15   58
                                                                                          clus
vv                                                                                         AMP PEAK  2(1Q31.2) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          20
  REGIONAL LYMPH NODE                                                                                               54
                                                                                          clus
vv                                                                                         AMP PEAK  2(1Q31.2) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            15
  REGIONAL LYMPH NODE                                                                                                 58
D2V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q31.2) MUTATED     27   47
  AMP PEAK  2(1Q31.2) WILD-TYPE   25   48
        clus
vv       AMP PEAK  2(1Q31.2) MUTATED AMP PEAK  2(1Q31.2) WILD-TYPE
  FEMALE                          27                            25
  MALE                            47                            48
                               vv
clus                            M0 M1 M1A M1B M1C
  AMP PEAK  2(1Q31.2) MUTATED   64  0   2   1   1
  AMP PEAK  2(1Q31.2) WILD-TYPE 64  1   0   1   0
D2V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  2(1Q31.2) MUTATED   39  0   3   7  0   3   3   3  9  2
  AMP PEAK  2(1Q31.2) WILD-TYPE 38  2   3   5  1   1   8   1  7  0
D2V6, multiclass
D2V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  2(1Q31.2) MUTATED             0       7        5        8       10
  AMP PEAK  2(1Q31.2) WILD-TYPE           1       9        3        5        7
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  2(1Q31.2) MUTATED           3         2         2         2
  AMP PEAK  2(1Q31.2) WILD-TYPE         4         6         2         6
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  2(1Q31.2) MUTATED            4          8         11        3
  AMP PEAK  2(1Q31.2) WILD-TYPE          1          8         10        1
D2V8, multiclass

Clustering(3) Variable = Amp Peak  3(1q44) mutation analysis
D3V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  3(1Q44) MUTATED   23 21
  AMP PEAK  3(1Q44) WILD-TYPE 16 23
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                         44                          39 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                         21                          23 
$`AMP PEAK  3(1Q44) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       16.47        98.76        28.08         8.38        21.14        11.41 
TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HY 
       13.32         9.30         5.39         4.01         2.86        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1IC TCGA-DA-A3F3 
       10.03        39.19         9.99        36.69         6.64         7.00 
TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29D 
       17.56         6.31         1.12         4.27        36.07        11.15 
TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A1 
       38.63         1.08        12.03         8.84         6.48        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A3ET TCGA-ER-A3PL 
       23.90         8.94         3.52        11.11         6.58         1.71 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-GN-A266 TCGA-GN-A267 
        5.95        72.16        53.82         6.41        10.09        16.21 
TCGA-GN-A26A TCGA-GN-A26D 
       12.16        14.70 

$`AMP PEAK  3(1Q44) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JK TCGA-D3-A3C6 
       32.55        70.16        22.55        10.26         6.35        15.25 
TCGA-D3-A3CC TCGA-D3-A3CF TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1I8 
       45.70        24.00        48.79        35.80        13.68        25.15 
TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A183 TCGA-EE-A20F 
       22.36        19.36        14.83        11.57        12.20         5.13 
TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X 
       37.97         4.41         9.47         8.12         9.99         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
       11.31         9.67         4.18        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-FS-A1ZR TCGA-FS-A4F9 TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       78.44         8.81        10.78         1.02        15.35        24.85 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 
       31.33        84.72        15.39 

  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                       1.08                        1.02 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                      98.76                       84.72 
  AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE 
                      10.60                       15.25 
[1] "1.1 - 98.8 (10.6)" "1.0 - 84.7 (15.2)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-GN-A26D 
  "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-GN-A26D 
  "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
  "AMP PEAK  3(1Q44) MUTATED" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
"AMP PEAK  3(1Q44) WILD-TYPE" "AMP PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  3(1Q44) MUTATED"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
"AMP PEAK  3(1Q44) WILD-TYPE"   "AMP PEAK  3(1Q44) MUTATED" 
                 TCGA-GN-A26D 
  "AMP PEAK  3(1Q44) MUTATED" 
[1] "hr=" "1.1"
D3V2, continuous
D3V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  3(1Q44) MUTATED     22   54
  AMP PEAK  3(1Q44) WILD-TYPE   13   58
                                                                                          clus
vv                                                                                         AMP PEAK  3(1Q44) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        22
  REGIONAL LYMPH NODE                                                                                             54
                                                                                          clus
vv                                                                                         AMP PEAK  3(1Q44) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          13
  REGIONAL LYMPH NODE                                                                                               58
D3V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  3(1Q44) MUTATED     28   48
  AMP PEAK  3(1Q44) WILD-TYPE   24   47
        clus
vv       AMP PEAK  3(1Q44) MUTATED AMP PEAK  3(1Q44) WILD-TYPE
  FEMALE                        28                          24
  MALE                          48                          47
                             vv
clus                          M0 M1 M1A M1B M1C
  AMP PEAK  3(1Q44) MUTATED   66  0   2   1   1
  AMP PEAK  3(1Q44) WILD-TYPE 62  1   0   1   0
D3V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  3(1Q44) MUTATED   39  0   4   7  0   3   3   3 10  2
  AMP PEAK  3(1Q44) WILD-TYPE 38  2   2   5  1   1   8   1  6  0
D3V6, multiclass
D3V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  3(1Q44) MUTATED             0       7        5        7       10
  AMP PEAK  3(1Q44) WILD-TYPE           1       9        3        6        7
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  3(1Q44) MUTATED           2         3         3         2
  AMP PEAK  3(1Q44) WILD-TYPE         5         5         1         6
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  3(1Q44) MUTATED            5          8         12        3
  AMP PEAK  3(1Q44) WILD-TYPE          0          8          9        1
D3V8, multiclass

Clustering(4) Variable = Amp Peak  4(3p13) mutation analysis
D4V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  4(3P13) MUTATED   13 12
  AMP PEAK  4(3P13) WILD-TYPE 26 32
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                         25                          58 
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                         12                          32 
$`AMP PEAK  4(3P13) MUTATED`
TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2JD TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MV 
       22.55         8.38        11.41        45.70        13.32         5.39 
TCGA-DA-A1HW TCGA-DA-A1I4 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A20B TCGA-EE-A20F 
       35.80         9.99        17.56        14.83        36.07         5.13 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29R TCGA-EE-A29T TCGA-ER-A19L TCGA-ER-A19M 
        4.41         1.08         8.84         6.48        12.99        28.64 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A44A TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
        6.58         1.71        72.16        31.33        84.72        10.09 
TCGA-GN-A268 
       15.39 

$`AMP PEAK  4(3P13) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.47        32.55        70.16        98.76        28.08        10.26 
TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 
       21.14         6.35        15.25        24.00         9.30         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
        2.86        48.79        51.12        10.03        39.19        13.68 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       36.69        25.15        22.36         6.64        19.36         7.00 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29C 
       11.57         6.31         1.12        12.20         4.27        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S 
       11.15        38.63         9.47        12.03         8.12         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
        8.09        11.31        25.28        23.90         9.67         8.94 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A3YN 
        3.52        11.11         4.18        42.84        78.44         5.95 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
        8.81        53.82        10.78         6.41         1.02        15.35 
TCGA-GN-A262 TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
       24.85        16.21        12.16        14.70 

  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                       1.08                        1.02 
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                      84.72                       98.76 
  AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE 
                     12.990                      12.095 
[1] "1.1 - 84.7 (13.0)" "1.0 - 98.8 (12.1)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A26D 
"AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A26D 
"AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  4(3P13) WILD-TYPE"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  4(3P13) WILD-TYPE" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK  4(3P13) MUTATED"   "AMP PEAK  4(3P13) MUTATED" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK  4(3P13) MUTATED" "AMP PEAK  4(3P13) WILD-TYPE" 
                 TCGA-GN-A26D 
"AMP PEAK  4(3P13) WILD-TYPE" 
[1] "hr=" "1.2"
D4V2, continuous
D4V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  4(3P13) MUTATED     10   24
  AMP PEAK  4(3P13) WILD-TYPE   25   88
                                                                                          clus
vv                                                                                         AMP PEAK  4(3P13) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        10
  REGIONAL LYMPH NODE                                                                                             24
                                                                                          clus
vv                                                                                         AMP PEAK  4(3P13) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          25
  REGIONAL LYMPH NODE                                                                                               88
D4V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  4(3P13) MUTATED     13   21
  AMP PEAK  4(3P13) WILD-TYPE   39   74
        clus
vv       AMP PEAK  4(3P13) MUTATED AMP PEAK  4(3P13) WILD-TYPE
  FEMALE                        13                          39
  MALE                          21                          74
                             vv
clus                          M0 M1 M1A M1B M1C
  AMP PEAK  4(3P13) MUTATED   29  0   1   0   0
  AMP PEAK  4(3P13) WILD-TYPE 99  1   1   2   1
D4V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  4(3P13) MUTATED   17  0   2   4  0   2   2   0  2  1
  AMP PEAK  4(3P13) WILD-TYPE 60  2   4   8  1   2   9   4 14  1
D4V6, multiclass
D4V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  4(3P13) MUTATED             0       4        4        2        3
  AMP PEAK  4(3P13) WILD-TYPE           1      12        4       11       14
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  4(3P13) MUTATED           1         1         1         1
  AMP PEAK  4(3P13) WILD-TYPE         6         7         3         7
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  4(3P13) MUTATED            1          6          4        1
  AMP PEAK  4(3P13) WILD-TYPE          4         10         17        3
D4V8, multiclass

Clustering(5) Variable = Amp Peak  5(5p15.33) mutation analysis
D5V1, survival
                                sevent
clus2                             0  1
  AMP PEAK  5(5P15.33) MUTATED   11 11
  AMP PEAK  5(5P15.33) WILD-TYPE 28 33
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                            22                             61 
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                            11                             33 
$`AMP PEAK  5(5P15.33) MUTATED`
TCGA-D3-A1Q9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-DA-A1HV 
       22.55         6.35        15.25        45.70        24.00        48.79 
TCGA-DA-A1I2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A181 TCGA-EE-A20B TCGA-EE-A29D 
       13.68         7.00        17.56         1.12        36.07        11.15 
TCGA-EE-A29E TCGA-EE-A29T TCGA-EE-A2A0 TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3PL 
       38.63         6.48        11.31        28.64        42.84         1.71 
TCGA-FR-A44A TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A26D 
       72.16        31.33        84.72        14.70 

$`AMP PEAK  5(5P15.33) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.47        32.55        70.16        98.76        28.08        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV 
        8.38        21.14        11.41        13.32         9.30         5.39 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        4.01         2.86        35.80        51.12        10.03        39.19 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
        9.99        36.69        25.15        22.36         6.64        19.36 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F 
       14.83        11.57         6.31        12.20         4.27         5.13 
TCGA-EE-A29C TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       37.97         4.41         1.08         9.47        12.03         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        8.84         9.99         8.09        25.28        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A1A1 
        8.94         3.52        11.11         4.18        12.99        78.44 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
        6.58         5.95         8.81        53.82        10.78         6.41 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
        1.02        15.35        24.85        10.09        16.21        15.39 
TCGA-GN-A26A 
       12.16 

  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                          1.12                           1.02 
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                        20.055                         11.110 
[1] "1.1 - 84.7 (20.1)" "1.0 - 98.8 (11.1)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A26D 
  "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A26D 
  "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-GN-A26D 
  "AMP PEAK  5(5P15.33) MUTATED" 
[1] "hr=" "1.6"
D5V2, continuous
D5V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  5(5P15.33) MUTATED      6   32
  AMP PEAK  5(5P15.33) WILD-TYPE   29   80
                                                                                          clus
vv                                                                                         AMP PEAK  5(5P15.33) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            6
  REGIONAL LYMPH NODE                                                                                                32
                                                                                          clus
vv                                                                                         AMP PEAK  5(5P15.33) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             29
  REGIONAL LYMPH NODE                                                                                                  80
D5V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  5(5P15.33) MUTATED     15   23
  AMP PEAK  5(5P15.33) WILD-TYPE   37   72
        clus
vv       AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE
  FEMALE                           15                             37
  MALE                             23                             72
                                vv
clus                              M0  M1 M1A M1B M1C
  AMP PEAK  5(5P15.33) MUTATED    28   0   1   1   0
  AMP PEAK  5(5P15.33) WILD-TYPE 100   1   1   1   1
D5V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  5(5P15.33) MUTATED   17  0   0   3  0   2   5   0  3  1
  AMP PEAK  5(5P15.33) WILD-TYPE 60  2   6   9  1   2   6   4 13  1
D5V6, multiclass
D5V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  5(5P15.33) MUTATED             0       3        1        2        6
  AMP PEAK  5(5P15.33) WILD-TYPE           1      13        7       11       11
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  5(5P15.33) MUTATED           1         0         3         0
  AMP PEAK  5(5P15.33) WILD-TYPE         6         8         1         8
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  5(5P15.33) MUTATED            0          5          6        1
  AMP PEAK  5(5P15.33) WILD-TYPE          5         11         15        3
D5V8, multiclass

Clustering(6) Variable = Amp Peak  6(5q35.3) mutation analysis
D6V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  6(5Q35.3) MUTATED    5  2
  AMP PEAK  6(5Q35.3) WILD-TYPE 34 42
  AMP PEAK  6(5Q35.3) MUTATED AMP PEAK  6(5Q35.3) WILD-TYPE 
                            7                            76 
  AMP PEAK  6(5Q35.3) MUTATED AMP PEAK  6(5Q35.3) WILD-TYPE 
                            2                            42 
$`AMP PEAK  6(5Q35.3) MUTATED`
TCGA-D3-A3CF TCGA-EE-A29H TCGA-EE-A29R TCGA-EE-A29T TCGA-ER-A19F TCGA-ER-A3ET 
       24.00         4.41         8.84         6.48        11.11         6.58 
TCGA-ER-A3PL 
        1.71 

$`AMP PEAK  6(5Q35.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       10.26         8.38        21.14        11.41         6.35        15.25 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       45.70        13.32         9.30         5.39         4.01         2.86 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
       48.79        35.80        51.12        10.03        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
        9.99        36.69        25.15        22.36         6.64        19.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        7.00        17.56        14.83        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
       12.20         4.27        36.07         5.13        37.97        11.15 
TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S 
       38.63         1.08         9.47        12.03         8.12         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
        8.09        11.31        25.28        23.90         9.67         8.94 
TCGA-ER-A19D TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
        3.52         4.18        12.99        28.64        42.84        78.44 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
        5.95        72.16         8.81        53.82        10.78         6.41 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
        1.02        15.35        24.85        31.33        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       16.21        15.39        12.16        14.70 

  AMP PEAK  6(5Q35.3) MUTATED AMP PEAK  6(5Q35.3) WILD-TYPE 
                         1.71                          1.02 
  AMP PEAK  6(5Q35.3) MUTATED AMP PEAK  6(5Q35.3) WILD-TYPE 
                        24.00                         98.76 
  AMP PEAK  6(5Q35.3) MUTATED AMP PEAK  6(5Q35.3) WILD-TYPE 
                        6.580                        13.155 
[1] "1.7 - 24.0 (6.6)"  "1.0 - 98.8 (13.2)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "AMP PEAK  6(5Q35.3) MUTATED" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "AMP PEAK  6(5Q35.3) MUTATED" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  6(5Q35.3) MUTATED" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "AMP PEAK  6(5Q35.3) MUTATED" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "AMP PEAK  6(5Q35.3) MUTATED" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  6(5Q35.3) MUTATED" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "AMP PEAK  6(5Q35.3) MUTATED" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "AMP PEAK  6(5Q35.3) MUTATED" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  6(5Q35.3) WILD-TYPE"   "AMP PEAK  6(5Q35.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  6(5Q35.3) MUTATED" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"AMP PEAK  6(5Q35.3) WILD-TYPE" "AMP PEAK  6(5Q35.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"AMP PEAK  6(5Q35.3) WILD-TYPE" 
[1] "hr=" "1.3"
D6V2, continuous
D6V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(5Q35.3) MUTATED      3   13
  AMP PEAK  6(5Q35.3) WILD-TYPE   32   99
                                                                                          clus
vv                                                                                         AMP PEAK  6(5Q35.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           3
  REGIONAL LYMPH NODE                                                                                               13
                                                                                          clus
vv                                                                                         AMP PEAK  6(5Q35.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            32
  REGIONAL LYMPH NODE                                                                                                 99
D6V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(5Q35.3) MUTATED      7    9
  AMP PEAK  6(5Q35.3) WILD-TYPE   45   86
        clus
vv       AMP PEAK  6(5Q35.3) MUTATED AMP PEAK  6(5Q35.3) WILD-TYPE
  FEMALE                           7                            45
  MALE                             9                            86
                               vv
clus                             M0  M1 M1A M1B M1C
  AMP PEAK  6(5Q35.3) MUTATED    14   0   1   1   0
  AMP PEAK  6(5Q35.3) WILD-TYPE 114   1   1   1   1
D6V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  6(5Q35.3) MUTATED   10  0   1   1  0   1   0   0  2  1
  AMP PEAK  6(5Q35.3) WILD-TYPE 67  2   5  11  1   3  11   4 14  1
D6V6, multiclass
D6V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  6(5Q35.3) MUTATED             0       2        2        1        2
  AMP PEAK  6(5Q35.3) WILD-TYPE           1      14        6       12       15
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  6(5Q35.3) MUTATED           1         0         0         0
  AMP PEAK  6(5Q35.3) WILD-TYPE         6         8         4         8
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  6(5Q35.3) MUTATED            1          0          2        1
  AMP PEAK  6(5Q35.3) WILD-TYPE          4         16         19        3
D6V8, multiclass

Clustering(7) Variable = Amp Peak  7(6p25.3) mutation analysis
D7V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  7(6P25.3) MUTATED   14 28
  AMP PEAK  7(6P25.3) WILD-TYPE 25 16
  AMP PEAK  7(6P25.3) MUTATED AMP PEAK  7(6P25.3) WILD-TYPE 
                           42                            41 
  AMP PEAK  7(6P25.3) MUTATED AMP PEAK  7(6P25.3) WILD-TYPE 
                           28                            16 
$`AMP PEAK  7(6P25.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A3C6 
       16.47        98.76        22.55         8.38        21.14        15.25 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1I0 TCGA-DA-A1I1 
       45.70        13.32         5.39        48.79        10.03        39.19 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1IC TCGA-DA-A3F3 TCGA-EE-A17Z TCGA-EE-A181 
       13.68         9.99         6.64         7.00         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29D TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R 
       12.20         4.27        11.15         1.08        12.03         8.84 
TCGA-EE-A29S TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M 
        9.99         9.67         3.52        11.11         4.18        28.64 
TCGA-ER-A19N TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F9 
       42.84         6.58         1.71        72.16         8.81        10.78 
TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       31.33        10.09        16.21        15.39        12.16        14.70 

$`AMP PEAK  7(6P25.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A2JK 
       32.55        70.16        28.08        10.26        11.41         6.35 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         9.30         4.01         2.86        35.80        51.12 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 
       36.69        25.15        22.36        19.36        17.56        14.83 
TCGA-EE-A17X TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H 
       11.57        36.07         5.13        37.97        38.63         4.41 
TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        9.47         8.12         6.48         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19L TCGA-ER-A1A1 TCGA-FR-A3YN TCGA-FS-A4F0 
       23.90         8.94        12.99        78.44         5.95        53.82 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
        6.41         1.02        15.35        24.85        84.72 

  AMP PEAK  7(6P25.3) MUTATED AMP PEAK  7(6P25.3) WILD-TYPE 
                         1.08                          1.02 
  AMP PEAK  7(6P25.3) MUTATED AMP PEAK  7(6P25.3) WILD-TYPE 
                        98.76                         84.72 
  AMP PEAK  7(6P25.3) MUTATED AMP PEAK  7(6P25.3) WILD-TYPE 
                        11.13                         15.35 
[1] "1.1 - 98.8 (11.1)" "1.0 - 84.7 (15.3)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-GN-A26D 
  "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-GN-A26D 
  "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  7(6P25.3) WILD-TYPE"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  7(6P25.3) WILD-TYPE" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "AMP PEAK  7(6P25.3) MUTATED" "AMP PEAK  7(6P25.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "AMP PEAK  7(6P25.3) MUTATED"   "AMP PEAK  7(6P25.3) MUTATED" 
                   TCGA-GN-A26D 
  "AMP PEAK  7(6P25.3) MUTATED" 
[1] "hr=" "2.2"
D7V2, continuous
D7V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(6P25.3) MUTATED     22   62
  AMP PEAK  7(6P25.3) WILD-TYPE   13   50
                                                                                          clus
vv                                                                                         AMP PEAK  7(6P25.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          22
  REGIONAL LYMPH NODE                                                                                               62
                                                                                          clus
vv                                                                                         AMP PEAK  7(6P25.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            13
  REGIONAL LYMPH NODE                                                                                                 50
D7V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(6P25.3) MUTATED     32   52
  AMP PEAK  7(6P25.3) WILD-TYPE   20   43
        clus
vv       AMP PEAK  7(6P25.3) MUTATED AMP PEAK  7(6P25.3) WILD-TYPE
  FEMALE                          32                            20
  MALE                            52                            43
                               vv
clus                            M0 M1 M1A M1B M1C
  AMP PEAK  7(6P25.3) MUTATED   71  1   2   1   1
  AMP PEAK  7(6P25.3) WILD-TYPE 57  0   0   1   0
D7V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  7(6P25.3) MUTATED   45  0   6   5  0   4   5   3  9  0
  AMP PEAK  7(6P25.3) WILD-TYPE 32  2   0   7  1   0   6   1  7  2
D7V6, multiclass
D7V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  7(6P25.3) MUTATED             0      10        4        8       10
  AMP PEAK  7(6P25.3) WILD-TYPE           1       6        4        5        7
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  7(6P25.3) MUTATED           4         4         3         2
  AMP PEAK  7(6P25.3) WILD-TYPE         3         4         1         6
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  7(6P25.3) MUTATED            5          9         11        3
  AMP PEAK  7(6P25.3) WILD-TYPE          0          7         10        1
D7V8, multiclass

Clustering(8) Variable = Amp Peak  8(6q12) mutation analysis
D8V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  8(6Q12) MUTATED    7  9
  AMP PEAK  8(6Q12) WILD-TYPE 32 35
  AMP PEAK  8(6Q12) MUTATED AMP PEAK  8(6Q12) WILD-TYPE 
                         16                          67 
  AMP PEAK  8(6Q12) MUTATED AMP PEAK  8(6Q12) WILD-TYPE 
                          9                          35 
$`AMP PEAK  8(6Q12) MUTATED`
TCGA-D3-A1Q7 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A3CC TCGA-DA-A1HV TCGA-DA-A1I1 
       98.76         8.38        21.14        45.70        48.79        39.19 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20B TCGA-ER-A19D TCGA-ER-A19M TCGA-ER-A19N 
        1.12        12.20        36.07         3.52        28.64        42.84 
TCGA-ER-A3ET TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
        6.58        10.09        16.21        15.39 

$`AMP PEAK  8(6Q12) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       16.47        32.55        70.16        28.08        22.55        10.26 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
       11.41         6.35        15.25        13.32        24.00         9.30 
TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
        5.39         4.01         2.86        35.80        51.12        10.03 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC 
       13.68         9.99        36.69        25.15        22.36         6.64 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       19.36         7.00        17.56        14.83        11.57         6.31 
TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
        4.27         5.13        37.97        11.15        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
        1.08         9.47        12.03         8.12         8.84         9.99 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        6.48         8.09        11.31        25.28        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A1A1 TCGA-ER-A3PL 
        8.94        11.11         4.18        12.99        78.44         1.71 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
        5.95        72.16         8.81        53.82        10.78         6.41 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A26A 
        1.02        15.35        24.85        31.33        84.72        12.16 
TCGA-GN-A26D 
       14.70 

  AMP PEAK  8(6Q12) MUTATED AMP PEAK  8(6Q12) WILD-TYPE 
                       1.12                        1.02 
  AMP PEAK  8(6Q12) MUTATED AMP PEAK  8(6Q12) WILD-TYPE 
                      98.76                       84.72 
  AMP PEAK  8(6Q12) MUTATED AMP PEAK  8(6Q12) WILD-TYPE 
                     18.675                      11.410 
[1] "1.1 - 98.8 (18.7)" "1.0 - 84.7 (11.4)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK  8(6Q12) MUTATED"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  8(6Q12) MUTATED"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  8(6Q12) MUTATED"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A26D 
"AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK  8(6Q12) MUTATED"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  8(6Q12) MUTATED"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  8(6Q12) MUTATED"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A26D 
"AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK  8(6Q12) MUTATED"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK  8(6Q12) MUTATED"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK  8(6Q12) WILD-TYPE"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
"AMP PEAK  8(6Q12) WILD-TYPE" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK  8(6Q12) MUTATED"   "AMP PEAK  8(6Q12) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK  8(6Q12) MUTATED" "AMP PEAK  8(6Q12) WILD-TYPE" 
                 TCGA-GN-A26D 
"AMP PEAK  8(6Q12) WILD-TYPE" 
[1] "hr=" "1.3"
D8V2, continuous
D8V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  8(6Q12) MUTATED     10   23
  AMP PEAK  8(6Q12) WILD-TYPE   25   89
                                                                                          clus
vv                                                                                         AMP PEAK  8(6Q12) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        10
  REGIONAL LYMPH NODE                                                                                             23
                                                                                          clus
vv                                                                                         AMP PEAK  8(6Q12) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          25
  REGIONAL LYMPH NODE                                                                                               89
D8V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  8(6Q12) MUTATED     10   23
  AMP PEAK  8(6Q12) WILD-TYPE   42   72
        clus
vv       AMP PEAK  8(6Q12) MUTATED AMP PEAK  8(6Q12) WILD-TYPE
  FEMALE                        10                          42
  MALE                          23                          72
                             vv
clus                          M0 M1 M1A M1B M1C
  AMP PEAK  8(6Q12) MUTATED   29  0   0   0   0
  AMP PEAK  8(6Q12) WILD-TYPE 99  1   2   2   1
D8V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  8(6Q12) MUTATED   19  0   4   1  0   1   1   1  2  0
  AMP PEAK  8(6Q12) WILD-TYPE 58  2   2  11  1   3  10   3 14  2
D8V6, multiclass
D8V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  8(6Q12) MUTATED             0       4        2        5        3
  AMP PEAK  8(6Q12) WILD-TYPE           1      12        6        8       14
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  8(6Q12) MUTATED           2         2         1         1
  AMP PEAK  8(6Q12) WILD-TYPE         5         6         3         7
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  8(6Q12) MUTATED            3          2          2        0
  AMP PEAK  8(6Q12) WILD-TYPE          2         14         19        4
D8V8, multiclass

Clustering(9) Variable = Amp Peak  9(7p22.1) mutation analysis
D9V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  9(7P22.1) MUTATED   15 27
  AMP PEAK  9(7P22.1) WILD-TYPE 24 17
  AMP PEAK  9(7P22.1) MUTATED AMP PEAK  9(7P22.1) WILD-TYPE 
                           42                            41 
  AMP PEAK  9(7P22.1) MUTATED AMP PEAK  9(7P22.1) WILD-TYPE 
                           27                            17 
$`AMP PEAK  9(7P22.1) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J9 TCGA-D3-A2JD 
       16.47        32.55        70.16        22.55        21.14        11.41 
TCGA-D3-A3CC TCGA-D3-A3MO TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       45.70         9.30         2.86        48.79        35.80        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IC 
       10.03        13.68         9.99        36.69        25.15         6.64 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L 
        6.31         1.12        37.97        11.15        38.63         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A6 
        9.47        12.03         8.12         6.48        11.31         8.94 
TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR 
        4.18        28.64         1.71         5.95        72.16         8.81 
TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       31.33        10.09        16.21        15.39        12.16        14.70 

$`AMP PEAK  9(7P22.1) WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2JK TCGA-D3-A3C6 
       98.76        28.08        10.26         8.38         6.35        15.25 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1I1 TCGA-DA-A1IB 
       13.32        24.00         5.39         4.01        39.19        22.36 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A183 
       19.36         7.00        17.56        14.83        11.57        12.20 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29H TCGA-EE-A29R TCGA-EE-A29S 
        4.27        36.07         5.13         4.41         8.84         9.99 
TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F 
        8.09        25.28        23.90         9.67         3.52        11.11 
TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FS-A4F0 TCGA-FS-A4F9 
       12.99        42.84        78.44         6.58        53.82        10.78 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
        6.41         1.02        15.35        24.85        84.72 

  AMP PEAK  9(7P22.1) MUTATED AMP PEAK  9(7P22.1) WILD-TYPE 
                         1.08                          1.02 
  AMP PEAK  9(7P22.1) MUTATED AMP PEAK  9(7P22.1) WILD-TYPE 
                        72.16                         98.76 
  AMP PEAK  9(7P22.1) MUTATED AMP PEAK  9(7P22.1) WILD-TYPE 
                       12.095                        12.200 
[1] "1.1 - 72.2 (12.1)" "1.0 - 98.8 (12.2)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-GN-A26D 
  "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-GN-A26D 
  "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK  9(7P22.1) WILD-TYPE"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK  9(7P22.1) WILD-TYPE" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "AMP PEAK  9(7P22.1) MUTATED" "AMP PEAK  9(7P22.1) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "AMP PEAK  9(7P22.1) MUTATED"   "AMP PEAK  9(7P22.1) MUTATED" 
                   TCGA-GN-A26D 
  "AMP PEAK  9(7P22.1) MUTATED" 
[1] "hr=" "1.4"
D9V2, continuous
D9V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7P22.1) MUTATED     21   60
  AMP PEAK  9(7P22.1) WILD-TYPE   14   52
                                                                                          clus
vv                                                                                         AMP PEAK  9(7P22.1) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          21
  REGIONAL LYMPH NODE                                                                                               60
                                                                                          clus
vv                                                                                         AMP PEAK  9(7P22.1) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            14
  REGIONAL LYMPH NODE                                                                                                 52
D9V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7P22.1) MUTATED     26   55
  AMP PEAK  9(7P22.1) WILD-TYPE   26   40
        clus
vv       AMP PEAK  9(7P22.1) MUTATED AMP PEAK  9(7P22.1) WILD-TYPE
  FEMALE                          26                            26
  MALE                            55                            40
                               vv
clus                            M0 M1 M1A M1B M1C
  AMP PEAK  9(7P22.1) MUTATED   68  1   2   1   1
  AMP PEAK  9(7P22.1) WILD-TYPE 60  0   0   1   0
D9V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK  9(7P22.1) MUTATED   41  0   4   9  0   2   4   4  8  2
  AMP PEAK  9(7P22.1) WILD-TYPE 36  2   2   3  1   2   7   0  8  0
D9V6, multiclass
D9V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK  9(7P22.1) MUTATED             1       9        5        4        9
  AMP PEAK  9(7P22.1) WILD-TYPE           0       7        3        9        8
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK  9(7P22.1) MUTATED           4         3         4         3
  AMP PEAK  9(7P22.1) WILD-TYPE         3         5         0         5
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK  9(7P22.1) MUTATED            4         10         10        3
  AMP PEAK  9(7P22.1) WILD-TYPE          1          6         11        1
D9V8, multiclass

Clustering(10) Variable = Amp Peak 10(7q34) mutation analysis
D10V1, survival
                             sevent
clus2                          0  1
  AMP PEAK 10(7Q34) MUTATED   21 27
  AMP PEAK 10(7Q34) WILD-TYPE 18 17
  AMP PEAK 10(7Q34) MUTATED AMP PEAK 10(7Q34) WILD-TYPE 
                         48                          35 
  AMP PEAK 10(7Q34) MUTATED AMP PEAK 10(7Q34) WILD-TYPE 
                         27                          17 
$`AMP PEAK 10(7Q34) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J9 TCGA-D3-A2JD 
       16.47        32.55        70.16        22.55        21.14        11.41 
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z3 TCGA-DA-A1HV 
       45.70        13.32         9.30         5.39         2.86        48.79 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
       35.80        51.12        10.03        13.68         9.99        36.69 
TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A183 
       25.15         6.64        17.56        14.83         1.12        12.20 
TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       36.07        37.97        38.63         4.41         1.08         9.47 
TCGA-EE-A29P TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A6 TCGA-ER-A19J TCGA-ER-A19M 
       12.03         6.48        11.31         8.94         4.18        28.64 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-GN-A264 
        6.58         1.71         5.95        72.16         8.81        31.33 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        10.09        16.21        15.39        12.16        14.70 

$`AMP PEAK 10(7Q34) WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2JK TCGA-D3-A3C6 
       98.76        28.08        10.26         8.38         6.35        15.25 
TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-DA-A1I1 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 
       24.00         4.01        39.19        22.36        19.36         7.00 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29Q 
       11.57         6.31         4.27         5.13        11.15         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        8.84         9.99         8.09        25.28        23.90         9.67 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FS-A4F0 
        3.52        11.11        12.99        42.84        78.44        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       10.78         6.41         1.02        15.35        24.85 

  AMP PEAK 10(7Q34) MUTATED AMP PEAK 10(7Q34) WILD-TYPE 
                       1.08                        1.02 
  AMP PEAK 10(7Q34) MUTATED AMP PEAK 10(7Q34) WILD-TYPE 
                      84.72                       98.76 
  AMP PEAK 10(7Q34) MUTATED AMP PEAK 10(7Q34) WILD-TYPE 
                      13.50                       11.11 
[1] "1.1 - 84.7 (13.5)" "1.0 - 98.8 (11.1)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-GN-A26D 
  "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-GN-A26D 
  "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 10(7Q34) MUTATED" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 10(7Q34) WILD-TYPE"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK 10(7Q34) WILD-TYPE" "AMP PEAK 10(7Q34) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK 10(7Q34) MUTATED"   "AMP PEAK 10(7Q34) MUTATED" 
                 TCGA-GN-A26D 
  "AMP PEAK 10(7Q34) MUTATED" 
[1] "hr=" "1"  
D10V2, continuous
D10V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 10(7Q34) MUTATED     23   62
  AMP PEAK 10(7Q34) WILD-TYPE   12   50
                                                                                          clus
vv                                                                                         AMP PEAK 10(7Q34) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        23
  REGIONAL LYMPH NODE                                                                                             62
                                                                                          clus
vv                                                                                         AMP PEAK 10(7Q34) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          12
  REGIONAL LYMPH NODE                                                                                               50
D10V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 10(7Q34) MUTATED     31   54
  AMP PEAK 10(7Q34) WILD-TYPE   21   41
        clus
vv       AMP PEAK 10(7Q34) MUTATED AMP PEAK 10(7Q34) WILD-TYPE
  FEMALE                        31                          21
  MALE                          54                          41
                             vv
clus                          M0 M1 M1A M1B M1C
  AMP PEAK 10(7Q34) MUTATED   72  1   2   1   1
  AMP PEAK 10(7Q34) WILD-TYPE 56  0   0   1   0
D10V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 10(7Q34) MUTATED   38  1   5   9  0   4   6   4  9  2
  AMP PEAK 10(7Q34) WILD-TYPE 39  1   1   3  1   0   5   0  7  0
D10V6, multiclass
D10V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 10(7Q34) MUTATED             1       6        5        3       12
  AMP PEAK 10(7Q34) WILD-TYPE           0      10        3       10        5
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 10(7Q34) MUTATED           4         1         4         5
  AMP PEAK 10(7Q34) WILD-TYPE         3         7         0         3
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 10(7Q34) MUTATED            5         12         11        3
  AMP PEAK 10(7Q34) WILD-TYPE          0          4         10        1
D10V8, multiclass

Clustering(11) Variable = Amp Peak 11(8q24.21) mutation analysis
D11V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 11(8Q24.21) MUTATED   16 22
  AMP PEAK 11(8Q24.21) WILD-TYPE 23 22
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                            38                             45 
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                            22                             22 
$`AMP PEAK 11(8Q24.21) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3C6 TCGA-D3-A3CC 
       16.47        70.16        22.55        10.26        15.25        45.70 
TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
       13.32         9.30         5.39        35.80        51.12        10.03 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17Z 
       39.19        13.68         9.99         7.00        17.56         6.31 
TCGA-EE-A181 TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
        1.12        36.07        37.97        38.63         4.41         1.08 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A5 TCGA-ER-A19J TCGA-ER-A19L 
        8.84         9.99         6.48         9.67         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3ET TCGA-FR-A44A TCGA-FS-A1ZR TCGA-GN-A267 
       28.64        42.84         6.58        72.16         8.81        16.21 
TCGA-GN-A26A TCGA-GN-A26D 
       12.16        14.70 

$`AMP PEAK 11(8Q24.21) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       32.55        98.76        28.08         8.38        21.14        11.41 
TCGA-D3-A2JK TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1I7 
        6.35        24.00         4.01         2.86        48.79        36.69 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X 
       25.15        22.36         6.64        19.36        14.83        11.57 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29N TCGA-EE-A29P 
       12.20         4.27         5.13        11.15         9.47        12.03 
TCGA-EE-A29Q TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 
        8.12         8.09        11.31        25.28        23.90         8.94 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A4F0 
        3.52        11.11        78.44         1.71         5.95        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
       10.78         6.41         1.02        15.35        24.85        31.33 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 
       84.72        10.09        15.39 

  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                          1.08                           1.02 
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                         72.16                          98.76 
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                        13.155                         11.570 
[1] "1.1 - 72.2 (13.2)" "1.0 - 98.8 (11.6)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-GN-A26D 
  "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-GN-A26D 
  "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-GN-A26D 
  "AMP PEAK 11(8Q24.21) MUTATED" 
[1] "hr=" "1.1"
D11V2, continuous
D11V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8Q24.21) MUTATED     20   50
  AMP PEAK 11(8Q24.21) WILD-TYPE   15   62
                                                                                          clus
vv                                                                                         AMP PEAK 11(8Q24.21) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           20
  REGIONAL LYMPH NODE                                                                                                50
                                                                                          clus
vv                                                                                         AMP PEAK 11(8Q24.21) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             15
  REGIONAL LYMPH NODE                                                                                                  62
D11V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8Q24.21) MUTATED     25   45
  AMP PEAK 11(8Q24.21) WILD-TYPE   27   50
        clus
vv       AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  FEMALE                           25                             27
  MALE                             45                             50
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 11(8Q24.21) MUTATED   62  1   1   0   0
  AMP PEAK 11(8Q24.21) WILD-TYPE 66  0   1   2   1
D11V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 11(8Q24.21) MUTATED   36  1   4   7  0   3   4   2  7  1
  AMP PEAK 11(8Q24.21) WILD-TYPE 41  1   2   5  1   1   7   2  9  1
D11V6, multiclass
D11V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 11(8Q24.21) MUTATED             0       8        2        6       10
  AMP PEAK 11(8Q24.21) WILD-TYPE           1       8        6        7        7
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 11(8Q24.21) MUTATED           4         3         3         6
  AMP PEAK 11(8Q24.21) WILD-TYPE         3         5         1         2
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 11(8Q24.21) MUTATED            3          8          9        1
  AMP PEAK 11(8Q24.21) WILD-TYPE          2          8         12        3
D11V8, multiclass

Clustering(12) Variable = Amp Peak 12(9p13.3) mutation analysis
D12V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 12(9P13.3) MUTATED    4  3
  AMP PEAK 12(9P13.3) WILD-TYPE 35 41
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                            7                            76 
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                            3                            41 
$`AMP PEAK 12(9P13.3) MUTATED`
TCGA-D3-A1Q9 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A20F TCGA-EE-A29L TCGA-ER-A3ET 
       22.55         7.00        17.56         5.13         1.08         6.58 
TCGA-GN-A262 
       24.85 

$`AMP PEAK 12(9P13.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.47        32.55        70.16        98.76        28.08        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
        8.38        21.14        11.41         6.35        15.25        45.70 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 
       13.32        24.00         9.30         5.39         4.01         2.86 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
       48.79        35.80        51.12        10.03        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
        9.99        36.69        25.15        22.36         6.64        19.36 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       14.83        11.57         6.31         1.12        12.20         4.27 
TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N 
       36.07        37.97        11.15        38.63         4.41         9.47 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X 
       12.03         8.12         8.84         9.99         6.48         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D 
       11.31        25.28        23.90         9.67         8.94         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 
        1.71         5.95        72.16         8.81        53.82        10.78 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
        6.41         1.02        15.35        31.33        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       16.21        15.39        12.16        14.70 

  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                         1.08                          1.02 
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                        24.85                         98.76 
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                         7.00                         12.18 
[1] "1.1 - 24.9 (7.0)"  "1.0 - 98.8 (12.2)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"AMP PEAK 12(9P13.3) WILD-TYPE" 
[1] "hr=" "1.2"
D12V2, continuous
D12V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 12(9P13.3) MUTATED      2   14
  AMP PEAK 12(9P13.3) WILD-TYPE   33   98
                                                                                          clus
vv                                                                                         AMP PEAK 12(9P13.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           2
  REGIONAL LYMPH NODE                                                                                               14
                                                                                          clus
vv                                                                                         AMP PEAK 12(9P13.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            33
  REGIONAL LYMPH NODE                                                                                                 98
D12V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 12(9P13.3) MUTATED      4   12
  AMP PEAK 12(9P13.3) WILD-TYPE   48   83
        clus
vv       AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE
  FEMALE                           4                            48
  MALE                            12                            83
                               vv
clus                             M0  M1 M1A M1B M1C
  AMP PEAK 12(9P13.3) MUTATED    14   0   0   0   0
  AMP PEAK 12(9P13.3) WILD-TYPE 114   1   2   2   1
D12V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 12(9P13.3) MUTATED    9  0   1   0  0   1   1   0  2  0
  AMP PEAK 12(9P13.3) WILD-TYPE 68  2   5  12  1   3  10   4 14  2
D12V6, multiclass
D12V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 12(9P13.3) MUTATED             0       4        2        1        1
  AMP PEAK 12(9P13.3) WILD-TYPE           1      12        6       12       16
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 12(9P13.3) MUTATED           0         1         0         0
  AMP PEAK 12(9P13.3) WILD-TYPE         7         7         4         8
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 12(9P13.3) MUTATED            1          2          2        0
  AMP PEAK 12(9P13.3) WILD-TYPE          4         14         19        4
D12V8, multiclass

Clustering(13) Variable = Amp Peak 13(11q13.3) mutation analysis
D13V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 13(11Q13.3) MUTATED    5  8
  AMP PEAK 13(11Q13.3) WILD-TYPE 34 36
  AMP PEAK 13(11Q13.3) MUTATED AMP PEAK 13(11Q13.3) WILD-TYPE 
                            13                             70 
  AMP PEAK 13(11Q13.3) MUTATED AMP PEAK 13(11Q13.3) WILD-TYPE 
                             8                             36 
$`AMP PEAK 13(11Q13.3) MUTATED`
TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A3F3 
       22.55        10.26        13.32        24.00         2.86         7.00 
TCGA-EE-A20F TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3ET TCGA-GN-A266 TCGA-GN-A268 
        5.13        28.64        42.84         6.58        10.09        15.39 
TCGA-GN-A26D 
       14.70 

$`AMP PEAK 13(11Q13.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 
       16.47        32.55        70.16        98.76        28.08         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3MO 
       21.14        11.41         6.35        15.25        45.70         9.30 
TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 
        5.39         4.01        48.79        35.80        51.12        10.03 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       39.19        13.68         9.99        36.69        25.15        22.36 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
        6.64        19.36        17.56        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29D 
        1.12        12.20         4.27        36.07        37.97        11.15 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       38.63         4.41         1.08         9.47        12.03         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        8.84         9.99         6.48         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       23.90         9.67         8.94         3.52        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR 
       12.99        78.44         1.71         5.95        72.16         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 
       53.82        10.78         6.41         1.02        15.35        24.85 
TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A 
       31.33        84.72        16.21        12.16 

  AMP PEAK 13(11Q13.3) MUTATED AMP PEAK 13(11Q13.3) WILD-TYPE 
                          2.86                           1.02 
  AMP PEAK 13(11Q13.3) MUTATED AMP PEAK 13(11Q13.3) WILD-TYPE 
                         42.84                          98.76 
  AMP PEAK 13(11Q13.3) MUTATED AMP PEAK 13(11Q13.3) WILD-TYPE 
                        13.320                         12.095 
[1] "2.9 - 42.8 (13.3)" "1.0 - 98.8 (12.1)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 13(11Q13.3) MUTATED"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 13(11Q13.3) MUTATED"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 13(11Q13.3) MUTATED"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 13(11Q13.3) WILD-TYPE"   "AMP PEAK 13(11Q13.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 13(11Q13.3) WILD-TYPE" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 13(11Q13.3) MUTATED" "AMP PEAK 13(11Q13.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "AMP PEAK 13(11Q13.3) MUTATED" 
[1] "hr=" "1.4"
D13V2, continuous
D13V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(11Q13.3) MUTATED      4   19
  AMP PEAK 13(11Q13.3) WILD-TYPE   31   93
                                                                                          clus
vv                                                                                         AMP PEAK 13(11Q13.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            4
  REGIONAL LYMPH NODE                                                                                                19
                                                                                          clus
vv                                                                                         AMP PEAK 13(11Q13.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             31
  REGIONAL LYMPH NODE                                                                                                  93
D13V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 13(11Q13.3) MUTATED      6   17
  AMP PEAK 13(11Q13.3) WILD-TYPE   46   78
        clus
vv       AMP PEAK 13(11Q13.3) MUTATED AMP PEAK 13(11Q13.3) WILD-TYPE
  FEMALE                            6                             46
  MALE                             17                             78
                                vv
clus                              M0  M1 M1A M1B M1C
  AMP PEAK 13(11Q13.3) MUTATED    20   0   0   0   0
  AMP PEAK 13(11Q13.3) WILD-TYPE 108   1   2   2   1
D13V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 13(11Q13.3) MUTATED   13  0   3   2  0   1   1   0  1  0
  AMP PEAK 13(11Q13.3) WILD-TYPE 64  2   3  10  1   3  10   4 15  2
D13V6, multiclass
D13V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 13(11Q13.3) MUTATED             0       4        0        2        3
  AMP PEAK 13(11Q13.3) WILD-TYPE           1      12        8       11       14
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 13(11Q13.3) MUTATED           1         2         1         1
  AMP PEAK 13(11Q13.3) WILD-TYPE         6         6         3         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 13(11Q13.3) MUTATED            2          4          1        0
  AMP PEAK 13(11Q13.3) WILD-TYPE          3         12         20        4
D13V8, multiclass

Clustering(14) Variable = Amp Peak 14(12q14.1) mutation analysis
D14V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 14(12Q14.1) MUTATED    8 14
  AMP PEAK 14(12Q14.1) WILD-TYPE 31 30
  AMP PEAK 14(12Q14.1) MUTATED AMP PEAK 14(12Q14.1) WILD-TYPE 
                            22                             61 
  AMP PEAK 14(12Q14.1) MUTATED AMP PEAK 14(12Q14.1) WILD-TYPE 
                            14                             30 
$`AMP PEAK 14(12Q14.1) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3C6 TCGA-D3-A3CC 
       16.47        70.16        22.55        10.26        15.25        45.70 
TCGA-D3-A3CF TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A3F5 TCGA-EE-A17Z 
       24.00         5.39        48.79        35.80        17.56         6.31 
TCGA-EE-A29D TCGA-EE-A2A6 TCGA-ER-A19M TCGA-ER-A3ET TCGA-ER-A3PL TCGA-GN-A264 
       11.15         8.94        28.64         6.58         1.71        31.33 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       16.21        15.39        12.16        14.70 

$`AMP PEAK 14(12Q14.1) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       32.55        98.76        28.08         8.38        21.14        11.41 
TCGA-D3-A2JK TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HY 
        6.35        13.32         9.30         4.01         2.86        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       10.03        39.19        13.68         9.99        36.69        25.15 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X 
       22.36         6.64        19.36         7.00        14.83        11.57 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
        1.12        12.20         4.27        36.07         5.13        37.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       38.63         4.41         1.08         9.47        12.03         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        8.84         9.99         6.48         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       23.90         9.67         3.52        11.11         4.18        12.99 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 
       42.84        78.44         5.95        72.16         8.81        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
       10.78         6.41         1.02        15.35        24.85        84.72 
TCGA-GN-A266 
       10.09 

  AMP PEAK 14(12Q14.1) MUTATED AMP PEAK 14(12Q14.1) WILD-TYPE 
                          1.71                           1.02 
  AMP PEAK 14(12Q14.1) MUTATED AMP PEAK 14(12Q14.1) WILD-TYPE 
                         70.16                          98.76 
  AMP PEAK 14(12Q14.1) MUTATED AMP PEAK 14(12Q14.1) WILD-TYPE 
                         15.80                          11.31 
[1] "1.7 - 70.2 (15.8)" "1.0 - 98.8 (11.3)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 14(12Q14.1) MUTATED"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-GN-A26D 
  "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 14(12Q14.1) MUTATED"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-GN-A26D 
  "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 14(12Q14.1) WILD-TYPE" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK 14(12Q14.1) MUTATED" "AMP PEAK 14(12Q14.1) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 14(12Q14.1) WILD-TYPE"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 14(12Q14.1) MUTATED"   "AMP PEAK 14(12Q14.1) MUTATED" 
                    TCGA-GN-A26D 
  "AMP PEAK 14(12Q14.1) MUTATED" 
[1] "hr=" "1.1"
D14V2, continuous
D14V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(12Q14.1) MUTATED      7   20
  AMP PEAK 14(12Q14.1) WILD-TYPE   28   92
                                                                                          clus
vv                                                                                         AMP PEAK 14(12Q14.1) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            7
  REGIONAL LYMPH NODE                                                                                                20
                                                                                          clus
vv                                                                                         AMP PEAK 14(12Q14.1) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             28
  REGIONAL LYMPH NODE                                                                                                  92
D14V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(12Q14.1) MUTATED     11   16
  AMP PEAK 14(12Q14.1) WILD-TYPE   41   79
        clus
vv       AMP PEAK 14(12Q14.1) MUTATED AMP PEAK 14(12Q14.1) WILD-TYPE
  FEMALE                           11                             41
  MALE                             16                             79
                                vv
clus                              M0  M1 M1A M1B M1C
  AMP PEAK 14(12Q14.1) MUTATED    24   0   1   0   0
  AMP PEAK 14(12Q14.1) WILD-TYPE 104   1   1   2   1
D14V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 14(12Q14.1) MUTATED   12  0   4   3  0   2   1   1  3  0
  AMP PEAK 14(12Q14.1) WILD-TYPE 65  2   2   9  1   2  10   3 13  2
D14V6, multiclass
D14V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 14(12Q14.1) MUTATED             0       2        1        2        1
  AMP PEAK 14(12Q14.1) WILD-TYPE           1      14        7       11       16
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 14(12Q14.1) MUTATED           0         3         2         2
  AMP PEAK 14(12Q14.1) WILD-TYPE         7         5         2         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 14(12Q14.1) MUTATED            4          4          4        1
  AMP PEAK 14(12Q14.1) WILD-TYPE          1         12         17        3
D14V8, multiclass

Clustering(15) Variable = Amp Peak 15(15q24.3) mutation analysis
D15V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 15(15Q24.3) MUTATED   11 16
  AMP PEAK 15(15Q24.3) WILD-TYPE 28 28
  AMP PEAK 15(15Q24.3) MUTATED AMP PEAK 15(15Q24.3) WILD-TYPE 
                            27                             56 
  AMP PEAK 15(15Q24.3) MUTATED AMP PEAK 15(15Q24.3) WILD-TYPE 
                            16                             28 
$`AMP PEAK 15(15Q24.3) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3CE TCGA-D3-A3MV 
       32.55        22.55        21.14        11.41        13.32         5.39 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I7 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A181 
       48.79        35.80        36.69         7.00        17.56         1.12 
TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A1 
       12.20         5.13        11.15         6.48         8.09        25.28 
TCGA-ER-A19D TCGA-ER-A19M TCGA-ER-A3ET TCGA-FR-A44A TCGA-FW-A3R5 TCGA-GN-A264 
        3.52        28.64         6.58        72.16         1.02        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A 
       84.72        16.21        12.16 

$`AMP PEAK 15(15Q24.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        70.16        98.76        28.08        10.26         8.38 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 
        6.35        15.25        45.70        24.00         9.30         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
        2.86        51.12        10.03        39.19        13.68         9.99 
TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X 
       25.15        22.36         6.64        19.36        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H 
        6.31         4.27        36.07        37.97        38.63         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
        1.08         9.47        12.03         8.12         8.84         9.99 
TCGA-EE-A2A0 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J 
       11.31        23.90         9.67         8.94        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1ZR 
       12.99        42.84        78.44         1.71         5.95         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A266 
       53.82        10.78         6.41        15.35        24.85        10.09 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

  AMP PEAK 15(15Q24.3) MUTATED AMP PEAK 15(15Q24.3) WILD-TYPE 
                          1.02                           1.08 
  AMP PEAK 15(15Q24.3) MUTATED AMP PEAK 15(15Q24.3) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK 15(15Q24.3) MUTATED AMP PEAK 15(15Q24.3) WILD-TYPE 
                         13.32                          11.44 
[1] "1.0 - 84.7 (13.3)" "1.1 - 98.8 (11.4)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
  "AMP PEAK 15(15Q24.3) MUTATED"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 15(15Q24.3) MUTATED"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK 15(15Q24.3) MUTATED"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A26D 
"AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
  "AMP PEAK 15(15Q24.3) MUTATED"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 15(15Q24.3) MUTATED"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK 15(15Q24.3) MUTATED"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A26D 
"AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
  "AMP PEAK 15(15Q24.3) MUTATED"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 15(15Q24.3) MUTATED"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 15(15Q24.3) MUTATED" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 15(15Q24.3) WILD-TYPE" "AMP PEAK 15(15Q24.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK 15(15Q24.3) MUTATED"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 15(15Q24.3) WILD-TYPE"   "AMP PEAK 15(15Q24.3) MUTATED" 
                    TCGA-GN-A26D 
"AMP PEAK 15(15Q24.3) WILD-TYPE" 
[1] "hr=" "1"  
D15V2, continuous
D15V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 15(15Q24.3) MUTATED     10   38
  AMP PEAK 15(15Q24.3) WILD-TYPE   25   74
                                                                                          clus
vv                                                                                         AMP PEAK 15(15Q24.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           10
  REGIONAL LYMPH NODE                                                                                                38
                                                                                          clus
vv                                                                                         AMP PEAK 15(15Q24.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             25
  REGIONAL LYMPH NODE                                                                                                  74
D15V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 15(15Q24.3) MUTATED     18   30
  AMP PEAK 15(15Q24.3) WILD-TYPE   34   65
        clus
vv       AMP PEAK 15(15Q24.3) MUTATED AMP PEAK 15(15Q24.3) WILD-TYPE
  FEMALE                           18                             34
  MALE                             30                             65
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 15(15Q24.3) MUTATED   42  0   0   1   0
  AMP PEAK 15(15Q24.3) WILD-TYPE 86  1   2   1   1
D15V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 15(15Q24.3) MUTATED   24  0   3   6  1   2   3   0  3  1
  AMP PEAK 15(15Q24.3) WILD-TYPE 53  2   3   6  0   2   8   4 13  1
D15V6, multiclass
D15V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 15(15Q24.3) MUTATED             1       5        3        4        8
  AMP PEAK 15(15Q24.3) WILD-TYPE           0      11        5        9        9
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 15(15Q24.3) MUTATED           2         0         1         2
  AMP PEAK 15(15Q24.3) WILD-TYPE         5         8         3         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 15(15Q24.3) MUTATED            3          6          5        0
  AMP PEAK 15(15Q24.3) WILD-TYPE          2         10         16        4
D15V8, multiclass

Clustering(16) Variable = Amp Peak 16(15q26.3) mutation analysis
D16V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 16(15Q26.3) MUTATED   12 15
  AMP PEAK 16(15Q26.3) WILD-TYPE 27 29
  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                            27                             56 
  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                            15                             29 
$`AMP PEAK 16(15Q26.3) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3CE TCGA-D3-A3MV 
       32.55        22.55        21.14        11.41        13.32         5.39 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I7 TCGA-DA-A3F3 TCGA-DA-A3F5 
        2.86        48.79        35.80        36.69         7.00        17.56 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29T TCGA-EE-A29X 
        1.12        12.20         5.13        11.15         6.48         8.09 
TCGA-EE-A2A1 TCGA-ER-A19D TCGA-ER-A19M TCGA-ER-A3PL TCGA-FR-A44A TCGA-FW-A3R5 
       25.28         3.52        28.64         1.71        72.16         1.02 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A 
       84.72        16.21        12.16 

$`AMP PEAK 16(15Q26.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        70.16        98.76        28.08        10.26         8.38 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 
        6.35        15.25        45.70        24.00         9.30         4.01 
TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 
       51.12        10.03        39.19        13.68         9.99        25.15 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         6.64        19.36        14.83        11.57         6.31 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L 
        4.27        36.07        37.97        38.63         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A2A0 
        9.47        12.03         8.12         8.84         9.99        11.31 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       23.90         9.67         8.94        11.11         4.18        12.99 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FS-A1ZR TCGA-FS-A4F0 
       42.84        78.44         6.58         5.95         8.81        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A266 
       10.78         6.41        15.35        24.85        31.33        10.09 
TCGA-GN-A268 TCGA-GN-A26D 
       15.39        14.70 

  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                          1.02                           1.08 
  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE 
                          12.2                           11.8 
[1] "1.0 - 84.7 (12.2)" "1.1 - 98.8 (11.8)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A26D 
"AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A26D 
"AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 16(15Q26.3) MUTATED"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 16(15Q26.3) MUTATED" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 16(15Q26.3) WILD-TYPE" "AMP PEAK 16(15Q26.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 16(15Q26.3) WILD-TYPE"   "AMP PEAK 16(15Q26.3) MUTATED" 
                    TCGA-GN-A26D 
"AMP PEAK 16(15Q26.3) WILD-TYPE" 
[1] "hr=" "1.1"
D16V2, continuous
D16V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(15Q26.3) MUTATED     10   43
  AMP PEAK 16(15Q26.3) WILD-TYPE   25   69
                                                                                          clus
vv                                                                                         AMP PEAK 16(15Q26.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           10
  REGIONAL LYMPH NODE                                                                                                43
                                                                                          clus
vv                                                                                         AMP PEAK 16(15Q26.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             25
  REGIONAL LYMPH NODE                                                                                                  69
D16V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(15Q26.3) MUTATED     19   34
  AMP PEAK 16(15Q26.3) WILD-TYPE   33   61
        clus
vv       AMP PEAK 16(15Q26.3) MUTATED AMP PEAK 16(15Q26.3) WILD-TYPE
  FEMALE                           19                             33
  MALE                             34                             61
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 16(15Q26.3) MUTATED   46  0   1   1   0
  AMP PEAK 16(15Q26.3) WILD-TYPE 82  1   1   1   1
D16V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 16(15Q26.3) MUTATED   28  0   2   7  1   3   3   0  3  1
  AMP PEAK 16(15Q26.3) WILD-TYPE 49  2   4   5  0   1   8   4 13  1
D16V6, multiclass
D16V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 16(15Q26.3) MUTATED             1       7        3        4        9
  AMP PEAK 16(15Q26.3) WILD-TYPE           0       9        5        9        8
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 16(15Q26.3) MUTATED           2         0         1         2
  AMP PEAK 16(15Q26.3) WILD-TYPE         5         8         3         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 16(15Q26.3) MUTATED            3          7          5        1
  AMP PEAK 16(15Q26.3) WILD-TYPE          2          9         16        3
D16V8, multiclass

Clustering(17) Variable = Amp Peak 17(17q25.3) mutation analysis
D17V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 17(17Q25.3) MUTATED   18 15
  AMP PEAK 17(17Q25.3) WILD-TYPE 21 29
  AMP PEAK 17(17Q25.3) MUTATED AMP PEAK 17(17Q25.3) WILD-TYPE 
                            33                             50 
  AMP PEAK 17(17Q25.3) MUTATED AMP PEAK 17(17Q25.3) WILD-TYPE 
                            15                             29 
$`AMP PEAK 17(17Q25.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       16.47        22.55        11.41        45.70        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I7 
        9.30         5.39        48.79        51.12        39.19        36.69 
TCGA-DA-A1IC TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20F 
        6.64         7.00        17.56         1.12         4.27         5.13 
TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29R 
       11.15         4.41         1.08         9.47        12.03         8.84 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19N TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN 
        8.94        11.11        42.84         6.58         1.71         5.95 
TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        15.39        14.70 

$`AMP PEAK 17(17Q25.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       32.55        70.16        98.76        28.08        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HW 
       21.14         6.35        15.25         4.01         2.86        35.80 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A3F2 
       10.03        13.68         9.99        25.15        22.36        19.36 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A20B TCGA-EE-A29C 
       14.83        11.57         6.31        12.20        36.07        37.97 
TCGA-EE-A29E TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
       38.63         8.12         9.99         6.48         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19J TCGA-ER-A19L 
       25.28        23.90         9.67         3.52         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A1A1 TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 
       28.64        78.44        72.16         8.81        53.82        10.78 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A266 
        6.41         1.02        15.35        24.85        31.33        10.09 
TCGA-GN-A267 TCGA-GN-A26A 
       16.21        12.16 

  AMP PEAK 17(17Q25.3) MUTATED AMP PEAK 17(17Q25.3) WILD-TYPE 
                          1.08                           1.02 
  AMP PEAK 17(17Q25.3) MUTATED AMP PEAK 17(17Q25.3) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK 17(17Q25.3) MUTATED AMP PEAK 17(17Q25.3) WILD-TYPE 
                        11.150                         13.335 
[1] "1.1 - 84.7 (11.2)" "1.0 - 98.8 (13.3)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 17(17Q25.3) MUTATED"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 17(17Q25.3) WILD-TYPE"   "AMP PEAK 17(17Q25.3) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 17(17Q25.3) WILD-TYPE" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 17(17Q25.3) MUTATED" "AMP PEAK 17(17Q25.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "AMP PEAK 17(17Q25.3) MUTATED" 
[1] "hr=" "1.1"
D17V2, continuous
D17V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(17Q25.3) MUTATED     13   44
  AMP PEAK 17(17Q25.3) WILD-TYPE   22   68
                                                                                          clus
vv                                                                                         AMP PEAK 17(17Q25.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           13
  REGIONAL LYMPH NODE                                                                                                44
                                                                                          clus
vv                                                                                         AMP PEAK 17(17Q25.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             22
  REGIONAL LYMPH NODE                                                                                                  68
D17V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(17Q25.3) MUTATED     18   39
  AMP PEAK 17(17Q25.3) WILD-TYPE   34   56
        clus
vv       AMP PEAK 17(17Q25.3) MUTATED AMP PEAK 17(17Q25.3) WILD-TYPE
  FEMALE                           18                             34
  MALE                             39                             56
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 17(17Q25.3) MUTATED   51  0   1   1   0
  AMP PEAK 17(17Q25.3) WILD-TYPE 77  1   1   1   1
D17V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 17(17Q25.3) MUTATED   30  0   3   4  0   3   3   3  8  0
  AMP PEAK 17(17Q25.3) WILD-TYPE 47  2   3   8  1   1   8   1  8  2
D17V6, multiclass
D17V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 17(17Q25.3) MUTATED             0       5        4        3        7
  AMP PEAK 17(17Q25.3) WILD-TYPE           1      11        4       10       10
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 17(17Q25.3) MUTATED           1         3         4         3
  AMP PEAK 17(17Q25.3) WILD-TYPE         6         5         0         5
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 17(17Q25.3) MUTATED            2          7         10        1
  AMP PEAK 17(17Q25.3) WILD-TYPE          3          9         11        3
D17V8, multiclass

Clustering(18) Variable = Amp Peak 18(19p13.2) mutation analysis
D18V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 18(19P13.2) MUTATED    8  8
  AMP PEAK 18(19P13.2) WILD-TYPE 31 36
  AMP PEAK 18(19P13.2) MUTATED AMP PEAK 18(19P13.2) WILD-TYPE 
                            16                             67 
  AMP PEAK 18(19P13.2) MUTATED AMP PEAK 18(19P13.2) WILD-TYPE 
                             8                             36 
$`AMP PEAK 18(19P13.2) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A3MV TCGA-DA-A1I0 TCGA-DA-A1IC TCGA-DA-A3F5 
       32.55        70.16         5.39        10.03         6.64        17.56 
TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R TCGA-ER-A19J TCGA-ER-A3ET 
       38.63         1.08        12.03         8.84         4.18         6.58 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-GN-A266 TCGA-GN-A267 
        1.71         5.95        10.09        16.21 

$`AMP PEAK 18(19P13.2) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        98.76        28.08        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE 
       21.14        11.41         6.35        15.25        45.70        13.32 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       24.00         9.30         4.01         2.86        48.79        35.80 
TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       51.12        39.19        13.68         9.99        36.69        25.15 
TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36        19.36         7.00        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
        1.12        12.20         4.27        36.07         5.13        37.97 
TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T 
       11.15         4.41         9.47         8.12         9.99         6.48 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
        8.09        11.31        25.28        23.90         9.67         8.94 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
        3.52        11.11        12.99        28.64        42.84        78.44 
TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 
       72.16         8.81        53.82        10.78         6.41         1.02 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26A 
       15.35        24.85        31.33        84.72        15.39        12.16 
TCGA-GN-A26D 
       14.70 

  AMP PEAK 18(19P13.2) MUTATED AMP PEAK 18(19P13.2) WILD-TYPE 
                          1.08                           1.02 
  AMP PEAK 18(19P13.2) MUTATED AMP PEAK 18(19P13.2) WILD-TYPE 
                         70.16                          98.76 
  AMP PEAK 18(19P13.2) MUTATED AMP PEAK 18(19P13.2) WILD-TYPE 
                         9.435                         13.320 
[1] "1.1 - 70.2 (9.4)"  "1.0 - 98.8 (13.3)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 18(19P13.2) MUTATED"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "AMP PEAK 18(19P13.2) MUTATED"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A26D 
"AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 18(19P13.2) MUTATED"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "AMP PEAK 18(19P13.2) MUTATED"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A26D 
"AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "AMP PEAK 18(19P13.2) MUTATED" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 18(19P13.2) WILD-TYPE"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "AMP PEAK 18(19P13.2) MUTATED"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "AMP PEAK 18(19P13.2) MUTATED"   "AMP PEAK 18(19P13.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"AMP PEAK 18(19P13.2) WILD-TYPE" "AMP PEAK 18(19P13.2) WILD-TYPE" 
                    TCGA-GN-A26D 
"AMP PEAK 18(19P13.2) WILD-TYPE" 
[1] "hr=" "1.3"
D18V2, continuous
D18V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(19P13.2) MUTATED      9   19
  AMP PEAK 18(19P13.2) WILD-TYPE   26   93
                                                                                          clus
vv                                                                                         AMP PEAK 18(19P13.2) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            9
  REGIONAL LYMPH NODE                                                                                                19
                                                                                          clus
vv                                                                                         AMP PEAK 18(19P13.2) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             26
  REGIONAL LYMPH NODE                                                                                                  93
D18V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(19P13.2) MUTATED      7   21
  AMP PEAK 18(19P13.2) WILD-TYPE   45   74
        clus
vv       AMP PEAK 18(19P13.2) MUTATED AMP PEAK 18(19P13.2) WILD-TYPE
  FEMALE                            7                             45
  MALE                             21                             74
                                vv
clus                              M0  M1 M1A M1B M1C
  AMP PEAK 18(19P13.2) MUTATED    24   1   2   0   0
  AMP PEAK 18(19P13.2) WILD-TYPE 104   0   0   2   1
D18V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 18(19P13.2) MUTATED   14  0   2   4  0   1   0   2  4  0
  AMP PEAK 18(19P13.2) WILD-TYPE 63  2   4   8  1   3  11   2 12  2
D18V6, multiclass
D18V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 18(19P13.2) MUTATED             1       6        0        1        3
  AMP PEAK 18(19P13.2) WILD-TYPE           0      10        8       12       14
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 18(19P13.2) MUTATED           1         0         1         2
  AMP PEAK 18(19P13.2) WILD-TYPE         6         8         3         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 18(19P13.2) MUTATED            2          3          5        2
  AMP PEAK 18(19P13.2) WILD-TYPE          3         13         16        2
D18V8, multiclass

Clustering(19) Variable = Amp Peak 19(22q13.2) mutation analysis
D19V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 19(22Q13.2) MUTATED   17 18
  AMP PEAK 19(22Q13.2) WILD-TYPE 22 26
  AMP PEAK 19(22Q13.2) MUTATED AMP PEAK 19(22Q13.2) WILD-TYPE 
                            35                             48 
  AMP PEAK 19(22Q13.2) MUTATED AMP PEAK 19(22Q13.2) WILD-TYPE 
                            18                             26 
$`AMP PEAK 19(22Q13.2) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q9 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D3-A3MV 
       16.47        22.55        45.70        13.32         9.30         5.39 
TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        4.01        48.79        35.80        51.12        10.03        39.19 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A29L 
       36.69        25.15        22.36        17.56         6.31         1.08 
TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
        9.47         8.84         8.09        23.90         9.67         8.94 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-GN-A264 
       12.99        28.64         6.58         5.95        72.16        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        16.21        15.39        12.16        14.70 

$`AMP PEAK 19(22Q13.2) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       32.55        70.16        98.76        28.08        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A3Z3 
       21.14        11.41         6.35        15.25        24.00         2.86 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 
       13.68         9.99         6.64        19.36         7.00        14.83 
TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
       11.57         1.12        12.20         4.27        36.07         5.13 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29P TCGA-EE-A29Q 
       37.97        11.15        38.63         4.41        12.03         8.12 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-ER-A19D TCGA-ER-A19F 
        9.99         6.48        11.31        25.28         3.52        11.11 
TCGA-ER-A19J TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FS-A1ZR TCGA-FS-A4F0 
        4.18        42.84        78.44         1.71         8.81        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A266 
       10.78         6.41         1.02        15.35        24.85        10.09 

  AMP PEAK 19(22Q13.2) MUTATED AMP PEAK 19(22Q13.2) WILD-TYPE 
                          1.08                           1.02 
  AMP PEAK 19(22Q13.2) MUTATED AMP PEAK 19(22Q13.2) WILD-TYPE 
                         84.72                          98.76 
  AMP PEAK 19(22Q13.2) MUTATED AMP PEAK 19(22Q13.2) WILD-TYPE 
                         15.39                          11.23 
[1] "1.1 - 84.7 (15.4)" "1.0 - 98.8 (11.2)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-GN-A26D 
  "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-GN-A26D 
  "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "AMP PEAK 19(22Q13.2) MUTATED" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"AMP PEAK 19(22Q13.2) WILD-TYPE" "AMP PEAK 19(22Q13.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"AMP PEAK 19(22Q13.2) WILD-TYPE"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "AMP PEAK 19(22Q13.2) MUTATED"   "AMP PEAK 19(22Q13.2) MUTATED" 
                    TCGA-GN-A26D 
  "AMP PEAK 19(22Q13.2) MUTATED" 
[1] "hr=" "1.3"
D19V2, continuous
D19V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 19(22Q13.2) MUTATED     16   48
  AMP PEAK 19(22Q13.2) WILD-TYPE   19   64
                                                                                          clus
vv                                                                                         AMP PEAK 19(22Q13.2) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           16
  REGIONAL LYMPH NODE                                                                                                48
                                                                                          clus
vv                                                                                         AMP PEAK 19(22Q13.2) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             19
  REGIONAL LYMPH NODE                                                                                                  64
D19V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 19(22Q13.2) MUTATED     22   42
  AMP PEAK 19(22Q13.2) WILD-TYPE   30   53
        clus
vv       AMP PEAK 19(22Q13.2) MUTATED AMP PEAK 19(22Q13.2) WILD-TYPE
  FEMALE                           22                             30
  MALE                             42                             53
                                vv
clus                             M0 M1 M1A M1B M1C
  AMP PEAK 19(22Q13.2) MUTATED   53  0   1   1   1
  AMP PEAK 19(22Q13.2) WILD-TYPE 75  1   1   1   0
D19V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 19(22Q13.2) MUTATED   27  0   5   5  0   3   4   3  9  1
  AMP PEAK 19(22Q13.2) WILD-TYPE 50  2   1   7  1   1   7   1  7  1
D19V6, multiclass
D19V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 19(22Q13.2) MUTATED             0       5        4        4        6
  AMP PEAK 19(22Q13.2) WILD-TYPE           1      11        4        9       11
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 19(22Q13.2) MUTATED           2         2         3         3
  AMP PEAK 19(22Q13.2) WILD-TYPE         5         6         1         5
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 19(22Q13.2) MUTATED            5          7         12        1
  AMP PEAK 19(22Q13.2) WILD-TYPE          0          9          9        3
D19V8, multiclass

Clustering(20) Variable = Amp Peak 20(Xq28) mutation analysis
D20V1, survival
                             sevent
clus2                          0  1
  AMP PEAK 20(XQ28) MUTATED   10  7
  AMP PEAK 20(XQ28) WILD-TYPE 29 37
  AMP PEAK 20(XQ28) MUTATED AMP PEAK 20(XQ28) WILD-TYPE 
                         17                          66 
  AMP PEAK 20(XQ28) MUTATED AMP PEAK 20(XQ28) WILD-TYPE 
                          7                          37 
$`AMP PEAK 20(XQ28) MUTATED`
TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MV TCGA-DA-A1I0 TCGA-DA-A3F3 TCGA-DA-A3F5 
       45.70        13.32         5.39        10.03         7.00        17.56 
TCGA-EE-A29D TCGA-EE-A29R TCGA-EE-A29T TCGA-ER-A19M TCGA-ER-A3ET TCGA-FR-A3YN 
       11.15         8.84         6.48        28.64         6.58         5.95 
TCGA-FS-A4F0 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A268 TCGA-GN-A26D 
       53.82        24.85        31.33        15.39        14.70 

$`AMP PEAK 20(XQ28) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 
       10.26         8.38        21.14        11.41         6.35        15.25 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       24.00         9.30         4.01         2.86        48.79        35.80 
TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       51.12        39.19        13.68         9.99        36.69        25.15 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         6.64        19.36        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
        1.12        12.20         4.27        36.07         5.13        37.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       38.63         4.41         1.08         9.47        12.03         8.12 
TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        9.99         8.09        11.31        25.28        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19N 
        8.94         3.52        11.11         4.18        12.99        42.84 
TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F9 TCGA-FS-A4FC 
       78.44         1.71        72.16         8.81        10.78         6.41 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26A 
        1.02        15.35        84.72        10.09        16.21        12.16 

  AMP PEAK 20(XQ28) MUTATED AMP PEAK 20(XQ28) WILD-TYPE 
                       5.39                        1.02 
  AMP PEAK 20(XQ28) MUTATED AMP PEAK 20(XQ28) WILD-TYPE 
                      53.82                       98.76 
  AMP PEAK 20(XQ28) MUTATED AMP PEAK 20(XQ28) WILD-TYPE 
                     13.320                      12.095 
[1] "5.4 - 53.8 (13.3)" "1.0 - 98.8 (12.1)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK 20(XQ28) MUTATED"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A26D 
  "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK 20(XQ28) MUTATED"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A26D 
  "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "AMP PEAK 20(XQ28) MUTATED"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"AMP PEAK 20(XQ28) WILD-TYPE"   "AMP PEAK 20(XQ28) MUTATED" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
"AMP PEAK 20(XQ28) WILD-TYPE" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "AMP PEAK 20(XQ28) MUTATED" "AMP PEAK 20(XQ28) WILD-TYPE" 
                 TCGA-GN-A26D 
  "AMP PEAK 20(XQ28) MUTATED" 
[1] "hr=" "1.3"
D20V2, continuous
D20V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 20(XQ28) MUTATED      7   17
  AMP PEAK 20(XQ28) WILD-TYPE   28   95
                                                                                          clus
vv                                                                                         AMP PEAK 20(XQ28) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                         7
  REGIONAL LYMPH NODE                                                                                             17
                                                                                          clus
vv                                                                                         AMP PEAK 20(XQ28) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          28
  REGIONAL LYMPH NODE                                                                                               95
D20V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 20(XQ28) MUTATED     13   11
  AMP PEAK 20(XQ28) WILD-TYPE   39   84
        clus
vv       AMP PEAK 20(XQ28) MUTATED AMP PEAK 20(XQ28) WILD-TYPE
  FEMALE                        13                          39
  MALE                          11                          84
                             vv
clus                           M0  M1 M1A M1B M1C
  AMP PEAK 20(XQ28) MUTATED    20   0   1   0   0
  AMP PEAK 20(XQ28) WILD-TYPE 108   1   1   2   1
D20V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  AMP PEAK 20(XQ28) MUTATED   11  0   1   3  0   1   3   0  2  1
  AMP PEAK 20(XQ28) WILD-TYPE 66  2   5   9  1   3   8   4 14  1
D20V6, multiclass
D20V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  AMP PEAK 20(XQ28) MUTATED             0       1        1        2        1
  AMP PEAK 20(XQ28) WILD-TYPE           1      15        7       11       16
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  AMP PEAK 20(XQ28) MUTATED           2         2         2         2
  AMP PEAK 20(XQ28) WILD-TYPE         5         6         2         6
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  AMP PEAK 20(XQ28) MUTATED            1          2          5        0
  AMP PEAK 20(XQ28) WILD-TYPE          4         14         16        4
D20V8, multiclass

Clustering(21) Variable = Del Peak  1(1p36.31) mutation analysis
D21V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  1(1P36.31) MUTATED   10  8
  DEL PEAK  1(1P36.31) WILD-TYPE 29 36
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                            18                             65 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                             8                             36 
$`DEL PEAK  1(1P36.31) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3MV TCGA-DA-A1I0 
       16.47         6.35        15.25        13.32         5.39        10.03 
TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A20F TCGA-EE-A29D 
       13.68        36.69        17.56        14.83         5.13        11.15 
TCGA-EE-A29R TCGA-ER-A19D TCGA-ER-A3PL TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-GN-A26D 
        8.84         3.52         1.71        53.82         6.41        14.70 

$`DEL PEAK  1(1P36.31) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       32.55        70.16        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO 
        8.38        21.14        11.41        45.70        24.00         9.30 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 
        4.01         2.86        48.79        35.80        51.12        39.19 
TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
        9.99        25.15        22.36         6.64        19.36         7.00 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
       11.57         6.31         1.12        12.20         4.27        36.07 
TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       37.97        38.63         4.41         1.08         9.47        12.03 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        8.12         9.99         6.48         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       23.90         9.67         8.94        11.11         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A 
       28.64        42.84        78.44         6.58         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F9 TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 
        8.81        10.78         1.02        15.35        24.85        31.33 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       84.72        10.09        16.21        15.39        12.16 

  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                          1.71                           1.02 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                         53.82                          98.76 
  DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE 
                        12.235                         12.160 
[1] "1.7 - 53.8 (12.2)" "1.0 - 98.8 (12.2)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "DEL PEAK  1(1P36.31) MUTATED"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK  1(1P36.31) MUTATED"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "DEL PEAK  1(1P36.31) MUTATED"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK  1(1P36.31) MUTATED"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "DEL PEAK  1(1P36.31) MUTATED"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK  1(1P36.31) MUTATED"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK  1(1P36.31) WILD-TYPE"   "DEL PEAK  1(1P36.31) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
  "DEL PEAK  1(1P36.31) MUTATED" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK  1(1P36.31) WILD-TYPE" "DEL PEAK  1(1P36.31) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK  1(1P36.31) MUTATED" 
[1] "hr=" "1.1"
D21V2, continuous
D21V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.31) MUTATED     10   27
  DEL PEAK  1(1P36.31) WILD-TYPE   25   85
                                                                                          clus
vv                                                                                         DEL PEAK  1(1P36.31) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           10
  REGIONAL LYMPH NODE                                                                                                27
                                                                                          clus
vv                                                                                         DEL PEAK  1(1P36.31) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             25
  REGIONAL LYMPH NODE                                                                                                  85
D21V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.31) MUTATED     16   21
  DEL PEAK  1(1P36.31) WILD-TYPE   36   74
        clus
vv       DEL PEAK  1(1P36.31) MUTATED DEL PEAK  1(1P36.31) WILD-TYPE
  FEMALE                           16                             36
  MALE                             21                             74
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK  1(1P36.31) MUTATED   31  0   2   0   0
  DEL PEAK  1(1P36.31) WILD-TYPE 97  1   0   2   1
D21V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  1(1P36.31) MUTATED   19  0   1   4  0   1   5   0  3  1
  DEL PEAK  1(1P36.31) WILD-TYPE 58  2   5   8  1   3   6   4 13  1
D21V6, multiclass
D21V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  1(1P36.31) MUTATED             0       4        1        3        7
  DEL PEAK  1(1P36.31) WILD-TYPE           1      12        7       10       10
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  1(1P36.31) MUTATED           1         1         1         2
  DEL PEAK  1(1P36.31) WILD-TYPE         6         7         3         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  1(1P36.31) MUTATED            0          4          8        1
  DEL PEAK  1(1P36.31) WILD-TYPE          5         12         13        3
D21V8, multiclass

Clustering(22) Variable = Del Peak  2(1p22.1) mutation analysis
D22V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  2(1P22.1) MUTATED   13 13
  DEL PEAK  2(1P22.1) WILD-TYPE 26 31
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                           26                            57 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                           13                            31 
$`DEL PEAK  2(1P22.1) MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A3CC TCGA-D3-A3CE 
       28.08        22.55        10.26        11.41        45.70        13.32 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z3 TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I7 
        9.30         5.39         2.86        10.03        13.68        36.69 
TCGA-DA-A1I8 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29D 
       25.15        17.56        14.83        36.07        37.97        11.15 
TCGA-EE-A29R TCGA-EE-A29T TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A3PL 
        8.84         6.48         3.52        12.99        28.64         1.71 
TCGA-GN-A262 TCGA-GN-A26D 
       24.85        14.70 

$`DEL PEAK  2(1P22.1) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A2J8 TCGA-D3-A2J9 
       16.47        32.55        70.16        98.76         8.38        21.14 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW 
        6.35        15.25        24.00         4.01        48.79        35.80 
TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
       51.12        39.19         9.99        22.36         6.64        19.36 
TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
        7.00        11.57         6.31         1.12        12.20         4.27 
TCGA-EE-A20F TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
        5.13        38.63         4.41         1.08         9.47        12.03 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.12         9.99         8.09        11.31        25.28        23.90 
TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19N TCGA-ER-A1A1 
        9.67         8.94        11.11         4.18        42.84        78.44 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 
        6.58         5.95        72.16         8.81        53.82        10.78 
TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A266 
        6.41         1.02        15.35        31.33        84.72        10.09 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       16.21        15.39        12.16 

  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                         1.71                          1.02 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                        45.70                         98.76 
  DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE 
                        13.50                         11.57 
[1] "1.7 - 45.7 (13.5)" "1.0 - 98.8 (11.6)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A26D 
  "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A26D 
  "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK  2(1P22.1) MUTATED"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  2(1P22.1) MUTATED" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  2(1P22.1) WILD-TYPE"   "DEL PEAK  2(1P22.1) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  2(1P22.1) WILD-TYPE" "DEL PEAK  2(1P22.1) WILD-TYPE" 
                   TCGA-GN-A26D 
  "DEL PEAK  2(1P22.1) MUTATED" 
[1] "hr=" "1.1"
D22V2, continuous
D22V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P22.1) MUTATED     13   29
  DEL PEAK  2(1P22.1) WILD-TYPE   22   83
                                                                                          clus
vv                                                                                         DEL PEAK  2(1P22.1) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          13
  REGIONAL LYMPH NODE                                                                                               29
                                                                                          clus
vv                                                                                         DEL PEAK  2(1P22.1) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            22
  REGIONAL LYMPH NODE                                                                                                 83
D22V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P22.1) MUTATED     16   26
  DEL PEAK  2(1P22.1) WILD-TYPE   36   69
        clus
vv       DEL PEAK  2(1P22.1) MUTATED DEL PEAK  2(1P22.1) WILD-TYPE
  FEMALE                          16                            36
  MALE                            26                            69
                               vv
clus                            M0 M1 M1A M1B M1C
  DEL PEAK  2(1P22.1) MUTATED   34  0   2   1   0
  DEL PEAK  2(1P22.1) WILD-TYPE 94  1   0   1   1
D22V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  2(1P22.1) MUTATED   19  0   1   6  0   2   4   1  4  1
  DEL PEAK  2(1P22.1) WILD-TYPE 58  2   5   6  1   2   7   3 12  1
D22V6, multiclass
D22V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  2(1P22.1) MUTATED             0       4        0        3        7
  DEL PEAK  2(1P22.1) WILD-TYPE           1      12        8       10       10
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  2(1P22.1) MUTATED           0         2         2         3
  DEL PEAK  2(1P22.1) WILD-TYPE         7         6         2         5
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  2(1P22.1) MUTATED            0          6          8        2
  DEL PEAK  2(1P22.1) WILD-TYPE          5         10         13        2
D22V8, multiclass

Clustering(23) Variable = Del Peak  3(2q37.3) mutation analysis
D23V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  3(2Q37.3) MUTATED   13  8
  DEL PEAK  3(2Q37.3) WILD-TYPE 26 36
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                           21                            62 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                            8                            36 
$`DEL PEAK  3(2Q37.3) MUTATED`
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-DA-A1I0 TCGA-EE-A20B TCGA-EE-A20F 
       11.41         6.35        15.25        10.03        36.07         5.13 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A2A6 
       37.97        11.15        38.63        12.03         8.12         8.94 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A4F0 TCGA-GN-A262 TCGA-GN-A264 
        6.58         1.71        72.16        53.82        24.85        31.33 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26D 
       10.09        16.21        14.70 

$`DEL PEAK  3(2Q37.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       10.26         8.38        21.14        45.70        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
        9.30         5.39         4.01         2.86        48.79        35.80 
TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 
       51.12        39.19        13.68         9.99        36.69        25.15 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       22.36         6.64        19.36         7.00        17.56        14.83 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29H 
       11.57         6.31         1.12        12.20         4.27         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X 
        1.08         9.47         8.84         9.99         6.48         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F 
       11.31        25.28        23.90         9.67         3.52        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A3YN 
        4.18        12.99        28.64        42.84        78.44         5.95 
TCGA-FS-A1ZR TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A265 
        8.81        10.78         6.41         1.02        15.35        84.72 
TCGA-GN-A268 TCGA-GN-A26A 
       15.39        12.16 

  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                         1.71                          1.02 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                        72.16                         98.76 
  DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE 
                        12.03                         12.18 
[1] "1.7 - 72.2 (12.0)" "1.0 - 98.8 (12.2)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A26D 
  "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A26D 
  "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  3(2Q37.3) WILD-TYPE"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "DEL PEAK  3(2Q37.3) MUTATED" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  3(2Q37.3) MUTATED"   "DEL PEAK  3(2Q37.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  3(2Q37.3) WILD-TYPE" "DEL PEAK  3(2Q37.3) WILD-TYPE" 
                   TCGA-GN-A26D 
  "DEL PEAK  3(2Q37.3) MUTATED" 
[1] "hr=" "1.6"
D23V2, continuous
D23V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q37.3) MUTATED     13   23
  DEL PEAK  3(2Q37.3) WILD-TYPE   22   89
                                                                                          clus
vv                                                                                         DEL PEAK  3(2Q37.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          13
  REGIONAL LYMPH NODE                                                                                               23
                                                                                          clus
vv                                                                                         DEL PEAK  3(2Q37.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            22
  REGIONAL LYMPH NODE                                                                                                 89
D23V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q37.3) MUTATED     14   22
  DEL PEAK  3(2Q37.3) WILD-TYPE   38   73
        clus
vv       DEL PEAK  3(2Q37.3) MUTATED DEL PEAK  3(2Q37.3) WILD-TYPE
  FEMALE                          14                            38
  MALE                            22                            73
                               vv
clus                             M0  M1 M1A M1B M1C
  DEL PEAK  3(2Q37.3) MUTATED    27   0   2   1   0
  DEL PEAK  3(2Q37.3) WILD-TYPE 101   1   0   1   1
D23V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  3(2Q37.3) MUTATED   21  0   2   4  0   0   1   1  2  0
  DEL PEAK  3(2Q37.3) WILD-TYPE 56  2   4   8  1   4  10   3 14  2
D23V6, multiclass
D23V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  3(2Q37.3) MUTATED             0       2        1        3        9
  DEL PEAK  3(2Q37.3) WILD-TYPE           1      14        7       10        8
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  3(2Q37.3) MUTATED           0         3         2         1
  DEL PEAK  3(2Q37.3) WILD-TYPE         7         5         2         7
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  3(2Q37.3) MUTATED            2          1          4        1
  DEL PEAK  3(2Q37.3) WILD-TYPE          3         15         17        3
D23V8, multiclass

Clustering(24) Variable = Del Peak  4(3p24.3) mutation analysis
D24V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  4(3P24.3) MUTATED    7  5
  DEL PEAK  4(3P24.3) WILD-TYPE 32 39
  DEL PEAK  4(3P24.3) MUTATED DEL PEAK  4(3P24.3) WILD-TYPE 
                           12                            71 
  DEL PEAK  4(3P24.3) MUTATED DEL PEAK  4(3P24.3) WILD-TYPE 
                            5                            39 
$`DEL PEAK  4(3P24.3) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A3C6 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I2 
       32.55        98.76        15.25        48.79        35.80        13.68 
TCGA-DA-A1I7 TCGA-EE-A20F TCGA-EE-A29P TCGA-FR-A44A TCGA-GN-A262 TCGA-GN-A267 
       36.69         5.13        12.03        72.16        24.85        16.21 

$`DEL PEAK  4(3P24.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        70.16        28.08        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        45.70        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HY TCGA-DA-A1I0 
        9.30         5.39         4.01         2.86        51.12        10.03 
TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 
       39.19         9.99        25.15        22.36         6.64        19.36 
TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
        7.00        17.56        14.83        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
       12.20         4.27        36.07        37.97        11.15        38.63 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S 
        4.41         1.08         9.47         8.12         8.84         9.99 
TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        6.48         8.09        11.31        25.28        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
        8.94         3.52        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1ZR 
       42.84        78.44         6.58         1.71         5.95         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 
       53.82        10.78         6.41         1.02        15.35        31.33 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        10.09        15.39        12.16        14.70 

  DEL PEAK  4(3P24.3) MUTATED DEL PEAK  4(3P24.3) WILD-TYPE 
                         5.13                          1.02 
  DEL PEAK  4(3P24.3) MUTATED DEL PEAK  4(3P24.3) WILD-TYPE 
                        98.76                         84.72 
  DEL PEAK  4(3P24.3) MUTATED DEL PEAK  4(3P24.3) WILD-TYPE 
                        28.70                         11.15 
[1] "5.1 - 98.8 (28.7)" "1.0 - 84.7 (11.2)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  4(3P24.3) MUTATED" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"DEL PEAK  4(3P24.3) WILD-TYPE"   "DEL PEAK  4(3P24.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  4(3P24.3) WILD-TYPE" "DEL PEAK  4(3P24.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  4(3P24.3) WILD-TYPE" 
[1] "hr=" "2.4"
D24V2, continuous
D24V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(3P24.3) MUTATED      4   17
  DEL PEAK  4(3P24.3) WILD-TYPE   31   95
                                                                                          clus
vv                                                                                         DEL PEAK  4(3P24.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           4
  REGIONAL LYMPH NODE                                                                                               17
                                                                                          clus
vv                                                                                         DEL PEAK  4(3P24.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            31
  REGIONAL LYMPH NODE                                                                                                 95
D24V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(3P24.3) MUTATED     10   11
  DEL PEAK  4(3P24.3) WILD-TYPE   42   84
        clus
vv       DEL PEAK  4(3P24.3) MUTATED DEL PEAK  4(3P24.3) WILD-TYPE
  FEMALE                          10                            42
  MALE                            11                            84
                               vv
clus                             M0  M1 M1A M1B M1C
  DEL PEAK  4(3P24.3) MUTATED    19   0   0   0   0
  DEL PEAK  4(3P24.3) WILD-TYPE 109   1   2   2   1
D24V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  4(3P24.3) MUTATED   11  1   1   1  0   0   4   1  0  0
  DEL PEAK  4(3P24.3) WILD-TYPE 66  1   5  11  1   4   7   3 16  2
D24V6, multiclass
D24V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  4(3P24.3) MUTATED             1       2        0        2        5
  DEL PEAK  4(3P24.3) WILD-TYPE           0      14        8       11       12
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  4(3P24.3) MUTATED           0         0         1         3
  DEL PEAK  4(3P24.3) WILD-TYPE         7         8         3         5
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  4(3P24.3) MUTATED            1          3          1        0
  DEL PEAK  4(3P24.3) WILD-TYPE          4         13         20        4
D24V8, multiclass

Clustering(25) Variable = Del Peak  5(3q23) mutation analysis
D25V1, survival
                             sevent
clus2                          0  1
  DEL PEAK  5(3Q23) MUTATED    5  8
  DEL PEAK  5(3Q23) WILD-TYPE 34 36
  DEL PEAK  5(3Q23) MUTATED DEL PEAK  5(3Q23) WILD-TYPE 
                         13                          70 
  DEL PEAK  5(3Q23) MUTATED DEL PEAK  5(3Q23) WILD-TYPE 
                          8                          36 
$`DEL PEAK  5(3Q23) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-DA-A1I2 TCGA-DA-A1I7 TCGA-EE-A29H TCGA-EE-A29P 
       32.55        98.76        13.68        36.69         4.41        12.03 
TCGA-EE-A29X TCGA-ER-A19F TCGA-ER-A19J TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A267 
        8.09        11.11         4.18        24.85        31.33        16.21 
TCGA-GN-A268 
       15.39 

$`DEL PEAK  5(3Q23) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        70.16        28.08        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE 
       21.14        11.41         6.35        15.25        45.70        13.32 
TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV 
       24.00         9.30         5.39         4.01         2.86        48.79 
TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I8 
       35.80        51.12        10.03        39.19         9.99        25.15 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 
       22.36         6.64        19.36         7.00        17.56        14.83 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B 
       11.57         6.31         1.12        12.20         4.27        36.07 
TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N 
        5.13        37.97        11.15        38.63         1.08         9.47 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 
        8.12         8.84         9.99         6.48        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A19M 
       23.90         9.67         8.94         3.52        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       42.84        78.44         6.58         1.71         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
        8.81        53.82        10.78         6.41         1.02        15.35 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        10.09        12.16        14.70 

  DEL PEAK  5(3Q23) MUTATED DEL PEAK  5(3Q23) WILD-TYPE 
                       4.18                        1.02 
  DEL PEAK  5(3Q23) MUTATED DEL PEAK  5(3Q23) WILD-TYPE 
                      98.76                       84.72 
  DEL PEAK  5(3Q23) MUTATED DEL PEAK  5(3Q23) WILD-TYPE 
                      15.39                       11.49 
[1] "4.2 - 98.8 (15.4)" "1.0 - 84.7 (11.5)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-GN-A26D 
"DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-GN-A26D 
"DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"DEL PEAK  5(3Q23) WILD-TYPE" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
"DEL PEAK  5(3Q23) WILD-TYPE"   "DEL PEAK  5(3Q23) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "DEL PEAK  5(3Q23) MUTATED" "DEL PEAK  5(3Q23) WILD-TYPE" 
                 TCGA-GN-A26D 
"DEL PEAK  5(3Q23) WILD-TYPE" 
[1] "hr=" "1"  
D25V2, continuous
D25V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  5(3Q23) MUTATED      5   16
  DEL PEAK  5(3Q23) WILD-TYPE   30   96
                                                                                          clus
vv                                                                                         DEL PEAK  5(3Q23) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                         5
  REGIONAL LYMPH NODE                                                                                             16
                                                                                          clus
vv                                                                                         DEL PEAK  5(3Q23) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          30
  REGIONAL LYMPH NODE                                                                                               96
D25V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  5(3Q23) MUTATED      9   12
  DEL PEAK  5(3Q23) WILD-TYPE   43   83
        clus
vv       DEL PEAK  5(3Q23) MUTATED DEL PEAK  5(3Q23) WILD-TYPE
  FEMALE                         9                          43
  MALE                          12                          83
                             vv
clus                           M0  M1 M1A M1B M1C
  DEL PEAK  5(3Q23) MUTATED    18   1   0   0   0
  DEL PEAK  5(3Q23) WILD-TYPE 110   0   2   2   1
D25V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  5(3Q23) MUTATED   13  1   1   0  0   0   2   1  1  0
  DEL PEAK  5(3Q23) WILD-TYPE 64  1   5  12  1   4   9   3 15  2
D25V6, multiclass
D25V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  5(3Q23) MUTATED             1       3        2        2        0
  DEL PEAK  5(3Q23) WILD-TYPE           0      13        6       11       17
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  5(3Q23) MUTATED           1         2         1         2
  DEL PEAK  5(3Q23) WILD-TYPE         6         6         3         6
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  5(3Q23) MUTATED            1          1          1        1
  DEL PEAK  5(3Q23) WILD-TYPE          4         15         20        3
D25V8, multiclass

Clustering(26) Variable = Del Peak  6(4p16.3) mutation analysis
D26V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  6(4P16.3) MUTATED    8 11
  DEL PEAK  6(4P16.3) WILD-TYPE 31 33
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                           19                            64 
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                           11                            33 
$`DEL PEAK  6(4P16.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2J6 TCGA-D3-A3CC TCGA-D3-A3MO TCGA-D3-A3MV TCGA-DA-A1HW 
       16.47        10.26        45.70         9.30         5.39        35.80 
TCGA-DA-A3F8 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H 
       14.83        36.07         5.13        37.97        11.15         4.41 
TCGA-EE-A29L TCGA-EE-A2A5 TCGA-ER-A19D TCGA-FS-A1ZR TCGA-GN-A262 TCGA-GN-A266 
        1.08         9.67         3.52         8.81        24.85        10.09 
TCGA-GN-A268 
       15.39 

$`DEL PEAK  6(4P16.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 
       32.55        70.16        98.76        28.08        22.55         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        4.01         2.86        48.79        51.12        10.03        39.19 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC 
       13.68         9.99        36.69        25.15        22.36         6.64 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 
       19.36         7.00        17.56        11.57         6.31         1.12 
TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       12.20         4.27        38.63         9.47        12.03         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        8.84         9.99         6.48         8.09        11.31        25.28 
TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
       23.90         8.94        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       42.84        78.44         6.58         1.71         5.95        72.16 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 
       53.82        10.78         6.41         1.02        15.35        31.33 
TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        16.21        12.16        14.70 

  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                         1.08                          1.02 
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                        45.70                         98.76 
  DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE 
                       10.260                        12.595 
[1] "1.1 - 45.7 (10.3)" "1.0 - 98.8 (12.6)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK  6(4P16.3) MUTATED"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK  6(4P16.3) MUTATED"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK  6(4P16.3) MUTATED"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK  6(4P16.3) MUTATED"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK  6(4P16.3) MUTATED"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK  6(4P16.3) MUTATED"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  6(4P16.3) WILD-TYPE"   "DEL PEAK  6(4P16.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  6(4P16.3) WILD-TYPE" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK  6(4P16.3) MUTATED" "DEL PEAK  6(4P16.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  6(4P16.3) WILD-TYPE" 
[1] "hr=" "1.3"
D26V2, continuous
D26V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4P16.3) MUTATED     13   18
  DEL PEAK  6(4P16.3) WILD-TYPE   22   94
                                                                                          clus
vv                                                                                         DEL PEAK  6(4P16.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          13
  REGIONAL LYMPH NODE                                                                                               18
                                                                                          clus
vv                                                                                         DEL PEAK  6(4P16.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            22
  REGIONAL LYMPH NODE                                                                                                 94
D26V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(4P16.3) MUTATED     14   17
  DEL PEAK  6(4P16.3) WILD-TYPE   38   78
        clus
vv       DEL PEAK  6(4P16.3) MUTATED DEL PEAK  6(4P16.3) WILD-TYPE
  FEMALE                          14                            38
  MALE                            17                            78
                               vv
clus                             M0  M1 M1A M1B M1C
  DEL PEAK  6(4P16.3) MUTATED    26   0   0   1   0
  DEL PEAK  6(4P16.3) WILD-TYPE 102   1   2   1   1
D26V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  6(4P16.3) MUTATED   17  0   0   3  0   2   1   1  3  0
  DEL PEAK  6(4P16.3) WILD-TYPE 60  2   6   9  1   2  10   3 13  2
D26V6, multiclass
D26V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  6(4P16.3) MUTATED             0       4        1        3        5
  DEL PEAK  6(4P16.3) WILD-TYPE           1      12        7       10       12
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  6(4P16.3) MUTATED           0         2         2         1
  DEL PEAK  6(4P16.3) WILD-TYPE         7         6         2         7
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  6(4P16.3) MUTATED            1          3          3        0
  DEL PEAK  6(4P16.3) WILD-TYPE          4         13         18        4
D26V8, multiclass

Clustering(27) Variable = Del Peak  7(4q25) mutation analysis
D27V1, survival
                             sevent
clus2                          0  1
  DEL PEAK  7(4Q25) MUTATED    9 10
  DEL PEAK  7(4Q25) WILD-TYPE 30 34
  DEL PEAK  7(4Q25) MUTATED DEL PEAK  7(4Q25) WILD-TYPE 
                         19                          64 
  DEL PEAK  7(4Q25) MUTATED DEL PEAK  7(4Q25) WILD-TYPE 
                         10                          34 
$`DEL PEAK  7(4Q25) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3CC TCGA-D3-A3MV 
       16.47        28.08        22.55        10.26        45.70         5.39 
TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A20B 
        2.86        35.80        17.56        14.83         1.12        36.07 
TCGA-EE-A29C TCGA-EE-A29T TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19L TCGA-GN-A262 
       37.97         6.48         9.67         3.52        12.99        24.85 
TCGA-GN-A266 
       10.09 

$`DEL PEAK  7(4Q25) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       32.55        70.16        98.76         8.38        21.14        11.41 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 
        6.35        15.25        13.32        24.00         9.30         4.01 
TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
       48.79        51.12        10.03        39.19        13.68         9.99 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       36.69        25.15        22.36         6.64        19.36         7.00 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29D 
       11.57         6.31        12.20         4.27         5.13        11.15 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       38.63         4.41         1.08         9.47        12.03         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.84         9.99         8.09        11.31        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
        8.94        11.11         4.18        28.64        42.84        78.44 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 
        6.58         1.71         5.95        72.16         8.81        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 
       10.78         6.41         1.02        15.35        31.33        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       16.21        15.39        12.16        14.70 

  DEL PEAK  7(4Q25) MUTATED DEL PEAK  7(4Q25) WILD-TYPE 
                       1.12                        1.02 
  DEL PEAK  7(4Q25) MUTATED DEL PEAK  7(4Q25) WILD-TYPE 
                      45.70                       98.76 
  DEL PEAK  7(4Q25) MUTATED DEL PEAK  7(4Q25) WILD-TYPE 
                      14.83                       11.80 
[1] "1.1 - 45.7 (14.8)" "1.0 - 98.8 (11.8)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "DEL PEAK  7(4Q25) MUTATED"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "DEL PEAK  7(4Q25) MUTATED"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-GN-A264                  TCGA-GN-A265 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A26D 
"DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "DEL PEAK  7(4Q25) MUTATED"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "DEL PEAK  7(4Q25) MUTATED"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-GN-A264                  TCGA-GN-A265 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A26D 
"DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "DEL PEAK  7(4Q25) MUTATED"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "DEL PEAK  7(4Q25) MUTATED"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK  7(4Q25) WILD-TYPE"   "DEL PEAK  7(4Q25) MUTATED" 
                 TCGA-GN-A264                  TCGA-GN-A265 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "DEL PEAK  7(4Q25) MUTATED" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
"DEL PEAK  7(4Q25) WILD-TYPE" "DEL PEAK  7(4Q25) WILD-TYPE" 
                 TCGA-GN-A26D 
"DEL PEAK  7(4Q25) WILD-TYPE" 
[1] "hr=" "1.1"
D27V2, continuous
D27V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  7(4Q25) MUTATED     11   22
  DEL PEAK  7(4Q25) WILD-TYPE   24   90
                                                                                          clus
vv                                                                                         DEL PEAK  7(4Q25) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        11
  REGIONAL LYMPH NODE                                                                                             22
                                                                                          clus
vv                                                                                         DEL PEAK  7(4Q25) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          24
  REGIONAL LYMPH NODE                                                                                               90
D27V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  7(4Q25) MUTATED     16   17
  DEL PEAK  7(4Q25) WILD-TYPE   36   78
        clus
vv       DEL PEAK  7(4Q25) MUTATED DEL PEAK  7(4Q25) WILD-TYPE
  FEMALE                        16                          36
  MALE                          17                          78
                             vv
clus                           M0  M1 M1A M1B M1C
  DEL PEAK  7(4Q25) MUTATED    27   0   0   2   0
  DEL PEAK  7(4Q25) WILD-TYPE 101   1   2   0   1
D27V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  7(4Q25) MUTATED   17  0   0   3  0   3   1   0  4  1
  DEL PEAK  7(4Q25) WILD-TYPE 60  2   6   9  1   1  10   4 12  1
D27V6, multiclass
D27V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  7(4Q25) MUTATED             0       5        2        3        4
  DEL PEAK  7(4Q25) WILD-TYPE           1      11        6       10       13
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  7(4Q25) MUTATED           0         1         2         0
  DEL PEAK  7(4Q25) WILD-TYPE         7         7         2         8
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  7(4Q25) MUTATED            1          5          2        1
  DEL PEAK  7(4Q25) WILD-TYPE          4         11         19        3
D27V8, multiclass

Clustering(28) Variable = Del Peak  8(4q34.3) mutation analysis
D28V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  8(4Q34.3) MUTATED   11  9
  DEL PEAK  8(4Q34.3) WILD-TYPE 28 35
  DEL PEAK  8(4Q34.3) MUTATED DEL PEAK  8(4Q34.3) WILD-TYPE 
                           20                            63 
  DEL PEAK  8(4Q34.3) MUTATED DEL PEAK  8(4Q34.3) WILD-TYPE 
                            9                            35 
$`DEL PEAK  8(4Q34.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q8 TCGA-D3-A2JD TCGA-D3-A3CC TCGA-D3-A3MV TCGA-DA-A1HW 
       16.47        28.08        11.41        45.70         5.39        35.80 
TCGA-DA-A1HY TCGA-DA-A1I7 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A181 TCGA-EE-A20B 
       51.12        36.69        17.56        14.83         1.12        36.07 
TCGA-EE-A29C TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D 
       37.97         6.48         8.09         9.67         8.94         3.52 
TCGA-ER-A3ET TCGA-GN-A266 
        6.58        10.09 

$`DEL PEAK  8(4Q34.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2J8 
       32.55        70.16        98.76        22.55        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
       21.14         6.35        15.25        13.32        24.00         9.30 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I2 
        4.01         2.86        48.79        10.03        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
        9.99        25.15        22.36         6.64        19.36         7.00 
TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29D 
       11.57         6.31        12.20         4.27         5.13        11.15 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       38.63         4.41         1.08         9.47        12.03         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-ER-A19F 
        8.84         9.99        11.31        25.28        23.90        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3PL 
        4.18        12.99        28.64        42.84        78.44         1.71 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
        5.95        72.16         8.81        53.82        10.78         6.41 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 
        1.02        15.35        24.85        31.33        84.72        16.21 
TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       15.39        12.16        14.70 

  DEL PEAK  8(4Q34.3) MUTATED DEL PEAK  8(4Q34.3) WILD-TYPE 
                         1.12                          1.02 
  DEL PEAK  8(4Q34.3) MUTATED DEL PEAK  8(4Q34.3) WILD-TYPE 
                        51.12                         98.76 
  DEL PEAK  8(4Q34.3) MUTATED DEL PEAK  8(4Q34.3) WILD-TYPE 
                        13.12                         12.16 
[1] "1.1 - 51.1 (13.1)" "1.0 - 98.8 (12.2)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  8(4Q34.3) MUTATED"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK  8(4Q34.3) MUTATED"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  8(4Q34.3) MUTATED"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  8(4Q34.3) MUTATED"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK  8(4Q34.3) MUTATED"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  8(4Q34.3) MUTATED"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  8(4Q34.3) MUTATED"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK  8(4Q34.3) MUTATED"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK  8(4Q34.3) MUTATED"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  8(4Q34.3) WILD-TYPE"   "DEL PEAK  8(4Q34.3) MUTATED" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  8(4Q34.3) MUTATED" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
"DEL PEAK  8(4Q34.3) WILD-TYPE" "DEL PEAK  8(4Q34.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  8(4Q34.3) WILD-TYPE" 
[1] "hr=" "1.3"
D28V2, continuous
D28V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(4Q34.3) MUTATED     12   23
  DEL PEAK  8(4Q34.3) WILD-TYPE   23   89
                                                                                          clus
vv                                                                                         DEL PEAK  8(4Q34.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          12
  REGIONAL LYMPH NODE                                                                                               23
                                                                                          clus
vv                                                                                         DEL PEAK  8(4Q34.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            23
  REGIONAL LYMPH NODE                                                                                                 89
D28V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(4Q34.3) MUTATED     18   17
  DEL PEAK  8(4Q34.3) WILD-TYPE   34   78
        clus
vv       DEL PEAK  8(4Q34.3) MUTATED DEL PEAK  8(4Q34.3) WILD-TYPE
  FEMALE                          18                            34
  MALE                            17                            78
                               vv
clus                            M0 M1 M1A M1B M1C
  DEL PEAK  8(4Q34.3) MUTATED   31  0   0   2   0
  DEL PEAK  8(4Q34.3) WILD-TYPE 97  1   2   0   1
D28V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  8(4Q34.3) MUTATED   18  0   1   3  0   2   3   0  5  1
  DEL PEAK  8(4Q34.3) WILD-TYPE 59  2   5   9  1   2   8   4 11  1
D28V6, multiclass
D28V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  8(4Q34.3) MUTATED             0       5        3        5        3
  DEL PEAK  8(4Q34.3) WILD-TYPE           1      11        5        8       14
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  8(4Q34.3) MUTATED           0         0         2         0
  DEL PEAK  8(4Q34.3) WILD-TYPE         7         8         2         8
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  8(4Q34.3) MUTATED            2          4          5        1
  DEL PEAK  8(4Q34.3) WILD-TYPE          3         12         16        3
D28V8, multiclass

Clustering(29) Variable = Del Peak  9(5q11.2) mutation analysis
D29V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  9(5Q11.2) MUTATED   13 13
  DEL PEAK  9(5Q11.2) WILD-TYPE 26 31
  DEL PEAK  9(5Q11.2) MUTATED DEL PEAK  9(5Q11.2) WILD-TYPE 
                           26                            57 
  DEL PEAK  9(5Q11.2) MUTATED DEL PEAK  9(5Q11.2) WILD-TYPE 
                           13                            31 
$`DEL PEAK  9(5Q11.2) MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       28.08        22.55        11.41         6.35        15.25        45.70 
TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I7 
        5.39         4.01        48.79        35.80        10.03        36.69 
TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
       17.56        11.57         4.27        37.97        11.15        38.63 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A2A2 TCGA-FR-A44A TCGA-GN-A262 TCGA-GN-A266 
       12.03         8.12        23.90        72.16        24.85        10.09 
TCGA-GN-A267 TCGA-GN-A268 
       16.21        15.39 

$`DEL PEAK  9(5Q11.2) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        32.55        70.16        98.76        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z3 TCGA-DA-A1HY 
       21.14        13.32        24.00         9.30         2.86        51.12 
TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IB TCGA-DA-A1IC 
       39.19        13.68         9.99        25.15        22.36         6.64 
TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 
       19.36         7.00        14.83         6.31         1.12        12.20 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29R 
       36.07         5.13         4.41         1.08         9.47         8.84 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A5 
        9.99         6.48         8.09        11.31        25.28         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
        8.94         3.52        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1ZR 
       42.84        78.44         6.58         1.71         5.95         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 
       53.82        10.78         6.41         1.02        15.35        31.33 
TCGA-GN-A265 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        12.16        14.70 

  DEL PEAK  9(5Q11.2) MUTATED DEL PEAK  9(5Q11.2) WILD-TYPE 
                         4.01                          1.02 
  DEL PEAK  9(5Q11.2) MUTATED DEL PEAK  9(5Q11.2) WILD-TYPE 
                        72.16                         98.76 
  DEL PEAK  9(5Q11.2) MUTATED DEL PEAK  9(5Q11.2) WILD-TYPE 
                        15.80                         11.11 
[1] "4.0 - 72.2 (15.8)" "1.0 - 98.8 (11.1)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK  9(5Q11.2) WILD-TYPE"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK  9(5Q11.2) WILD-TYPE" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK  9(5Q11.2) MUTATED"   "DEL PEAK  9(5Q11.2) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK  9(5Q11.2) MUTATED" "DEL PEAK  9(5Q11.2) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK  9(5Q11.2) WILD-TYPE" 
[1] "hr=" "1.4"
D29V2, continuous
D29V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(5Q11.2) MUTATED     11   33
  DEL PEAK  9(5Q11.2) WILD-TYPE   24   79
                                                                                          clus
vv                                                                                         DEL PEAK  9(5Q11.2) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          11
  REGIONAL LYMPH NODE                                                                                               33
                                                                                          clus
vv                                                                                         DEL PEAK  9(5Q11.2) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            24
  REGIONAL LYMPH NODE                                                                                                 79
D29V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  9(5Q11.2) MUTATED     18   26
  DEL PEAK  9(5Q11.2) WILD-TYPE   34   69
        clus
vv       DEL PEAK  9(5Q11.2) MUTATED DEL PEAK  9(5Q11.2) WILD-TYPE
  FEMALE                          18                            34
  MALE                            26                            69
                               vv
clus                            M0 M1 M1A M1B M1C
  DEL PEAK  9(5Q11.2) MUTATED   37  0   1   2   0
  DEL PEAK  9(5Q11.2) WILD-TYPE 91  1   1   0   1
D29V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK  9(5Q11.2) MUTATED   20  0   3   5  0   2   3   0  6  1
  DEL PEAK  9(5Q11.2) WILD-TYPE 57  2   3   7  1   2   8   4 10  1
D29V6, multiclass
D29V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK  9(5Q11.2) MUTATED             0       4        3        2        4
  DEL PEAK  9(5Q11.2) WILD-TYPE           1      12        5       11       13
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK  9(5Q11.2) MUTATED           0         4         3         0
  DEL PEAK  9(5Q11.2) WILD-TYPE         7         4         1         8
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK  9(5Q11.2) MUTATED            2          8          7        1
  DEL PEAK  9(5Q11.2) WILD-TYPE          3          8         14        3
D29V8, multiclass

Clustering(30) Variable = Del Peak 10(5q31.3) mutation analysis
D30V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 10(5Q31.3) MUTATED   16 17
  DEL PEAK 10(5Q31.3) WILD-TYPE 23 27
  DEL PEAK 10(5Q31.3) MUTATED DEL PEAK 10(5Q31.3) WILD-TYPE 
                           33                            50 
  DEL PEAK 10(5Q31.3) MUTATED DEL PEAK 10(5Q31.3) WILD-TYPE 
                           17                            27 
$`DEL PEAK 10(5Q31.3) MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC 
       28.08        22.55        11.41         6.35        15.25        45.70 
TCGA-D3-A3CF TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       24.00         5.39         4.01        48.79        35.80        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A17Z 
       10.03        36.69        25.15        17.56        11.57         6.31 
TCGA-EE-A185 TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S 
        4.27        37.97        38.63        12.03         8.12         9.99 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A2 TCGA-FR-A44A TCGA-FS-A4F0 TCGA-GN-A262 
        8.09        11.31        23.90        72.16        53.82        24.85 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
       10.09        16.21        15.39 

$`DEL PEAK 10(5Q31.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        32.55        70.16        98.76        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A3CE TCGA-D3-A3MO TCGA-D9-A3Z3 TCGA-DA-A1I1 TCGA-DA-A1I2 
       21.14        13.32         9.30         2.86        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 
        9.99        22.36         6.64        19.36         7.00        14.83 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29H 
        1.12        12.20        36.07         5.13        11.15         4.41 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2A5 
        1.08         9.47         8.84         6.48        25.28         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M 
        8.94         3.52        11.11         4.18        12.99        28.64 
TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1ZR 
       42.84        78.44         6.58         1.71         5.95         8.81 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 
       10.78         6.41         1.02        15.35        31.33        84.72 
TCGA-GN-A26A TCGA-GN-A26D 
       12.16        14.70 

  DEL PEAK 10(5Q31.3) MUTATED DEL PEAK 10(5Q31.3) WILD-TYPE 
                         4.01                          1.02 
  DEL PEAK 10(5Q31.3) MUTATED DEL PEAK 10(5Q31.3) WILD-TYPE 
                        72.16                         98.76 
  DEL PEAK 10(5Q31.3) MUTATED DEL PEAK 10(5Q31.3) WILD-TYPE 
                       16.210                        10.945 
[1] "4.0 - 72.2 (16.2)" "1.0 - 98.8 (10.9)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A181                    TCGA-EE-A183 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK 10(5Q31.3) WILD-TYPE"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-GN-A264                    TCGA-GN-A265 
"DEL PEAK 10(5Q31.3) WILD-TYPE" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK 10(5Q31.3) MUTATED"   "DEL PEAK 10(5Q31.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK 10(5Q31.3) MUTATED" "DEL PEAK 10(5Q31.3) WILD-TYPE" 
                   TCGA-GN-A26D 
"DEL PEAK 10(5Q31.3) WILD-TYPE" 
[1] "hr=" "1.4"
D30V2, continuous
D30V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(5Q31.3) MUTATED     14   45
  DEL PEAK 10(5Q31.3) WILD-TYPE   21   67
                                                                                          clus
vv                                                                                         DEL PEAK 10(5Q31.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          14
  REGIONAL LYMPH NODE                                                                                               45
                                                                                          clus
vv                                                                                         DEL PEAK 10(5Q31.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            21
  REGIONAL LYMPH NODE                                                                                                 67
D30V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(5Q31.3) MUTATED     24   35
  DEL PEAK 10(5Q31.3) WILD-TYPE   28   60
        clus
vv       DEL PEAK 10(5Q31.3) MUTATED DEL PEAK 10(5Q31.3) WILD-TYPE
  FEMALE                          24                            28
  MALE                            35                            60
                               vv
clus                            M0 M1 M1A M1B M1C
  DEL PEAK 10(5Q31.3) MUTATED   52  0   1   2   0
  DEL PEAK 10(5Q31.3) WILD-TYPE 76  1   1   0   1
D30V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 10(5Q31.3) MUTATED   31  0   3   4  0   3   3   1  9  1
  DEL PEAK 10(5Q31.3) WILD-TYPE 46  2   3   8  1   1   8   3  7  1
D30V6, multiclass
D30V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 10(5Q31.3) MUTATED             0       7        4        3        5
  DEL PEAK 10(5Q31.3) WILD-TYPE           1       9        4       10       12
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 10(5Q31.3) MUTATED           3         6         3         1
  DEL PEAK 10(5Q31.3) WILD-TYPE         4         2         1         7
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 10(5Q31.3) MUTATED            3          8          9        1
  DEL PEAK 10(5Q31.3) WILD-TYPE          2          8         12        3
D30V8, multiclass

Clustering(31) Variable = Del Peak 11(6q25.3) mutation analysis
D31V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 11(6Q25.3) MUTATED   21 28
  DEL PEAK 11(6Q25.3) WILD-TYPE 18 16
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           49                            34 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                           28                            16 
$`DEL PEAK 11(6Q25.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JD 
       16.47        32.55        70.16        22.55        10.26        11.41 
TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY 
       15.25        13.32        24.00         2.86        48.79        51.12 
TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-DA-A3F3 
       39.19         9.99        36.69        25.15         6.64         7.00 
TCGA-DA-A3F5 TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
       17.56         1.12        12.20         4.27        36.07         5.13 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29Q TCGA-EE-A29R 
       37.97        11.15         4.41         1.08         8.12         8.84 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 
        9.99         6.48         8.09        25.28        23.90         9.67 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19N TCGA-ER-A3PL 
        8.94         3.52        11.11         4.18        42.84         1.71 
TCGA-FS-A1ZR TCGA-FS-A4F9 TCGA-FW-A3R5 TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 
        8.81        10.78         1.02        31.33        16.21        15.39 
TCGA-GN-A26A 
       12.16 

$`DEL PEAK 11(6Q25.3) WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3CC 
       98.76        28.08         8.38        21.14         6.35        45.70 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I2 
        9.30         5.39         4.01        35.80        10.03        13.68 
TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A29E 
       22.36        19.36        14.83        11.57         6.31        38.63 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A2A0 TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 
        9.47        12.03        11.31        12.99        28.64        78.44 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-GN-A261 
        6.58         5.95        72.16        53.82         6.41        15.35 
TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A26D 
       24.85        84.72        10.09        14.70 

  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                         1.02                          4.01 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                        70.16                         98.76 
  DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE 
                        11.15                         14.19 
[1] "1.0 - 70.2 (11.2)" "4.0 - 98.8 (14.2)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-GN-A26D 
"DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-GN-A26D 
"DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK 11(6Q25.3) WILD-TYPE" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "DEL PEAK 11(6Q25.3) MUTATED" "DEL PEAK 11(6Q25.3) WILD-TYPE" 
                   TCGA-GN-A266                    TCGA-GN-A267 
"DEL PEAK 11(6Q25.3) WILD-TYPE"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK 11(6Q25.3) MUTATED"   "DEL PEAK 11(6Q25.3) MUTATED" 
                   TCGA-GN-A26D 
"DEL PEAK 11(6Q25.3) WILD-TYPE" 
[1] "hr=" "1.5"
D31V2, continuous
D31V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(6Q25.3) MUTATED     22   67
  DEL PEAK 11(6Q25.3) WILD-TYPE   13   45
                                                                                          clus
vv                                                                                         DEL PEAK 11(6Q25.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          22
  REGIONAL LYMPH NODE                                                                                               67
                                                                                          clus
vv                                                                                         DEL PEAK 11(6Q25.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            13
  REGIONAL LYMPH NODE                                                                                                 45
D31V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(6Q25.3) MUTATED     31   58
  DEL PEAK 11(6Q25.3) WILD-TYPE   21   37
        clus
vv       DEL PEAK 11(6Q25.3) MUTATED DEL PEAK 11(6Q25.3) WILD-TYPE
  FEMALE                          31                            21
  MALE                            58                            37
                               vv
clus                            M0 M1 M1A M1B M1C
  DEL PEAK 11(6Q25.3) MUTATED   78  1   1   1   1
  DEL PEAK 11(6Q25.3) WILD-TYPE 50  0   1   1   0
D31V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 11(6Q25.3) MUTATED   44  0   5   9  1   2   5   3 11  2
  DEL PEAK 11(6Q25.3) WILD-TYPE 33  2   1   3  0   2   6   1  5  0
D31V6, multiclass
D31V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 11(6Q25.3) MUTATED             1       8        4        9       12
  DEL PEAK 11(6Q25.3) WILD-TYPE           0       8        4        4        5
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 11(6Q25.3) MUTATED           4         4         0         4
  DEL PEAK 11(6Q25.3) WILD-TYPE         3         4         4         4
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 11(6Q25.3) MUTATED            3         11         13        3
  DEL PEAK 11(6Q25.3) WILD-TYPE          2          5          8        1
D31V8, multiclass

Clustering(32) Variable = Del Peak 12(6q26) mutation analysis
D32V1, survival
                             sevent
clus2                          0  1
  DEL PEAK 12(6Q26) MUTATED   19 27
  DEL PEAK 12(6Q26) WILD-TYPE 20 17
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                         46                          37 
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                         27                          17 
$`DEL PEAK 12(6Q26) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A3C6 
       16.47        32.55        22.55        10.26        11.41        15.25 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I1 
       13.32        24.00         2.86        48.79        51.12        39.19 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-DA-A3F3 TCGA-DA-A3F5 
        9.99        36.69        25.15         6.64         7.00        17.56 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29D 
        1.12        12.20         4.27        36.07        37.97        11.15 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T 
        4.41         1.08         8.12         8.84         9.99         6.48 
TCGA-EE-A29X TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D 
        8.09        25.28        23.90         9.67         8.94         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19N TCGA-ER-A3PL TCGA-FS-A1ZR TCGA-FW-A3R5 
       11.11         4.18        42.84         1.71         8.81         1.02 
TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       31.33        16.21        15.39        12.16 

$`DEL PEAK 12(6Q26) WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK 
       70.16        98.76        28.08         8.38        21.14         6.35 
TCGA-D3-A3CC TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HW TCGA-DA-A1I0 
       45.70         9.30         5.39         4.01        35.80        10.03 
TCGA-DA-A1I2 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       13.68        22.36        19.36        14.83        11.57         6.31 
TCGA-EE-A20F TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A2A0 TCGA-ER-A19L 
        5.13        38.63         9.47        12.03        11.31        12.99 
TCGA-ER-A19M TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A4F0 
       28.64        78.44         6.58         5.95        72.16        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 
       10.78         6.41        15.35        24.85        84.72        10.09 
TCGA-GN-A26D 
       14.70 

  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                       1.02                        4.01 
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                      51.12                       98.76 
  DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE 
                      11.28                       13.68 
[1] "1.0 - 51.1 (11.3)" "4.0 - 98.8 (13.7)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-GN-A26D 
"DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-GN-A26D 
"DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK 12(6Q26) WILD-TYPE" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "DEL PEAK 12(6Q26) MUTATED" "DEL PEAK 12(6Q26) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
"DEL PEAK 12(6Q26) WILD-TYPE"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "DEL PEAK 12(6Q26) MUTATED"   "DEL PEAK 12(6Q26) MUTATED" 
                 TCGA-GN-A26D 
"DEL PEAK 12(6Q26) WILD-TYPE" 
[1] "hr=" "1.6"
D32V2, continuous
D32V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 12(6Q26) MUTATED     21   63
  DEL PEAK 12(6Q26) WILD-TYPE   14   49
                                                                                          clus
vv                                                                                         DEL PEAK 12(6Q26) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        21
  REGIONAL LYMPH NODE                                                                                             63
                                                                                          clus
vv                                                                                         DEL PEAK 12(6Q26) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          14
  REGIONAL LYMPH NODE                                                                                               49
D32V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 12(6Q26) MUTATED     31   53
  DEL PEAK 12(6Q26) WILD-TYPE   21   42
        clus
vv       DEL PEAK 12(6Q26) MUTATED DEL PEAK 12(6Q26) WILD-TYPE
  FEMALE                        31                          21
  MALE                          53                          42
                             vv
clus                          M0 M1 M1A M1B M1C
  DEL PEAK 12(6Q26) MUTATED   73  1   1   1   1
  DEL PEAK 12(6Q26) WILD-TYPE 55  0   1   1   0
D32V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 12(6Q26) MUTATED   41  0   5   8  1   2   5   3 10  2
  DEL PEAK 12(6Q26) WILD-TYPE 36  2   1   4  0   2   6   1  6  0
D32V6, multiclass
D32V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 12(6Q26) MUTATED             1       8        4        9        9
  DEL PEAK 12(6Q26) WILD-TYPE           0       8        4        4        8
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 12(6Q26) MUTATED           4         4         0         3
  DEL PEAK 12(6Q26) WILD-TYPE         3         4         4         5
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 12(6Q26) MUTATED            3         11         12        3
  DEL PEAK 12(6Q26) WILD-TYPE          2          5          9        1
D32V8, multiclass

Clustering(33) Variable = Del Peak 13(9p23) mutation analysis
D33V1, survival
                             sevent
clus2                          0  1
  DEL PEAK 13(9P23) MUTATED   25 33
  DEL PEAK 13(9P23) WILD-TYPE 14 11
  DEL PEAK 13(9P23) MUTATED DEL PEAK 13(9P23) WILD-TYPE 
                         58                          25 
  DEL PEAK 13(9P23) MUTATED DEL PEAK 13(9P23) WILD-TYPE 
                         33                          11 
$`DEL PEAK 13(9P23) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2JK 
       16.47        32.55        70.16        28.08        10.26         6.35 
TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 
       15.25        45.70        24.00         9.30         5.39         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 
        2.86        48.79        35.80        51.12        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A181 
        9.99        25.15         6.64         7.00        11.57         1.12 
TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E 
        4.27        36.07         5.13        37.97        11.15        38.63 
TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29T 
        1.08         9.47        12.03         8.12         9.99         6.48 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F 
        8.09        11.31         9.67         8.94         3.52        11.11 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       12.99        28.64        42.84         1.71         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A264 
        8.81        53.82        10.78         6.41         1.02        31.33 
TCGA-GN-A266 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       10.09        15.39        12.16        14.70 

$`DEL PEAK 13(9P23) WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A3CE 
       98.76        22.55         8.38        21.14        11.41        13.32 
TCGA-DA-A1I0 TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F5 TCGA-DA-A3F8 
       10.03        36.69        22.36        19.36        17.56        14.83 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A29H TCGA-EE-A29R TCGA-EE-A2A1 TCGA-EE-A2A2 
        6.31        12.20         4.41         8.84        25.28        23.90 
TCGA-ER-A19J TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
        4.18        78.44         6.58        15.35        24.85        84.72 
TCGA-GN-A267 
       16.21 

  DEL PEAK 13(9P23) MUTATED DEL PEAK 13(9P23) WILD-TYPE 
                       1.02                        4.18 
  DEL PEAK 13(9P23) MUTATED DEL PEAK 13(9P23) WILD-TYPE 
                      72.16                       98.76 
  DEL PEAK 13(9P23) MUTATED DEL PEAK 13(9P23) WILD-TYPE 
                      11.13                       16.21 
[1] "1.0 - 72.2 (11.1)" "4.2 - 98.8 (16.2)"
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-GN-A26D 
  "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-GN-A26D 
  "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A1Q1                  TCGA-D3-A1Q5 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A1Q6                  TCGA-D3-A1Q7 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A1Q8                  TCGA-D3-A1Q9 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A2J6                  TCGA-D3-A2J8 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A2J9                  TCGA-D3-A2JD 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A2JK                  TCGA-D3-A3C6 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A3CC                  TCGA-D3-A3CE 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-D3-A3CF                  TCGA-D3-A3MO 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D3-A3MV                  TCGA-D9-A3Z1 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-D9-A3Z3                  TCGA-DA-A1HV 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1HW                  TCGA-DA-A1HY 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1I0                  TCGA-DA-A1I1 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1I2                  TCGA-DA-A1I4 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1I7                  TCGA-DA-A1I8 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A1IB                  TCGA-DA-A1IC 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A3F2                  TCGA-DA-A3F3 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-DA-A3F5                  TCGA-DA-A3F8 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A17X                  TCGA-EE-A17Z 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A181                  TCGA-EE-A183 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A185                  TCGA-EE-A20B 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A20F                  TCGA-EE-A29C 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29D                  TCGA-EE-A29E 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29H                  TCGA-EE-A29L 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29N                  TCGA-EE-A29P 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29Q                  TCGA-EE-A29R 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A29S                  TCGA-EE-A29T 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A29X                  TCGA-EE-A2A0 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-EE-A2A1                  TCGA-EE-A2A2 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-EE-A2A5                  TCGA-EE-A2A6 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A19D                  TCGA-ER-A19F 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A19J                  TCGA-ER-A19L 
"DEL PEAK 13(9P23) WILD-TYPE"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A19M                  TCGA-ER-A19N 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-ER-A1A1                  TCGA-ER-A3ET 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-ER-A3PL                  TCGA-FR-A3YN 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-FR-A44A                  TCGA-FS-A1ZR 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-FS-A4F0                  TCGA-FS-A4F9 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-FS-A4FC                  TCGA-FW-A3R5 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-GN-A261                  TCGA-GN-A262 
"DEL PEAK 13(9P23) WILD-TYPE" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-GN-A264                  TCGA-GN-A265 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-GN-A266                  TCGA-GN-A267 
  "DEL PEAK 13(9P23) MUTATED" "DEL PEAK 13(9P23) WILD-TYPE" 
                 TCGA-GN-A268                  TCGA-GN-A26A 
  "DEL PEAK 13(9P23) MUTATED"   "DEL PEAK 13(9P23) MUTATED" 
                 TCGA-GN-A26D 
  "DEL PEAK 13(9P23) MUTATED" 
[1] "hr=" "1.6"
D33V2, continuous
D33V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 13(9P23) MUTATED     28   75
  DEL PEAK 13(9P23) WILD-TYPE    7   37
                                                                                          clus
vv                                                                                         DEL PEAK 13(9P23) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                        28
  REGIONAL LYMPH NODE                                                                                             75
                                                                                          clus
vv                                                                                         DEL PEAK 13(9P23) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           7
  REGIONAL LYMPH NODE                                                                                               37
D33V4, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 13(9P23) MUTATED     40   63
  DEL PEAK 13(9P23) WILD-TYPE   12   32
        clus
vv       DEL PEAK 13(9P23) MUTATED DEL PEAK 13(9P23) WILD-TYPE
  FEMALE                        40                          12
  MALE                          63                          32
                             vv
clus                          M0 M1 M1A M1B M1C
  DEL PEAK 13(9P23) MUTATED   90  0   1   1   1
  DEL PEAK 13(9P23) WILD-TYPE 38  1   1   1   0
D33V5, multiclass
                             vv
clus                          N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 13(9P23) MUTATED   57  1   4   8  1   1   6   4 10  2
  DEL PEAK 13(9P23) WILD-TYPE 20  1   2   4  0   3   5   0  6  0
D33V6, multiclass
D33V7, continuous
                             vv
clus                          I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 13(9P23) MUTATED             1       8        5        9       14
  DEL PEAK 13(9P23) WILD-TYPE           0       8        3        4        3
                             vv
clus                          STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 13(9P23) MUTATED           6         7         4         6
  DEL PEAK 13(9P23) WILD-TYPE         1         1         0         2
                             vv
clus                          STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 13(9P23) MUTATED            2         11         13        3
  DEL PEAK 13(9P23) WILD-TYPE          3          5          8        1
D33V8, multiclass

Clustering(34) Variable = Del Peak 14(9p21.3) mutation analysis
D34V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 14(9P21.3) MUTATED   30 35
  DEL PEAK 14(9P21.3) WILD-TYPE  9  9
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                           65                            18 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                           35                             9 
$`DEL PEAK 14(9P21.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2JK 
       16.47        32.55        70.16        28.08        10.26         6.35 
TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV 
       15.25        45.70        13.32        24.00         9.30         5.39 
TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 
        4.01         2.86        48.79        35.80        51.12        39.19 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-DA-A3F3 
       13.68         9.99        36.69        25.15         6.64         7.00 
TCGA-DA-A3F5 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
       17.56        11.57         1.12         4.27        36.07         5.13 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N 
       37.97        11.15        38.63         4.41         1.08         9.47 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X 
       12.03         8.12         8.84         9.99         6.48         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       11.31         9.67         8.94         3.52        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A 
       12.99        28.64        42.84         1.71         5.95        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A264 
        8.81        53.82        10.78         6.41         1.02        31.33 
TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       84.72        10.09        15.39        12.16        14.70 

$`DEL PEAK 14(9P21.3) WILD-TYPE`
TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-DA-A1I0 
       98.76        22.55         8.38        21.14        11.41        10.03 
TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A2A1 
       22.36        19.36        14.83         6.31        12.20        25.28 
TCGA-EE-A2A2 TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A267 
       23.90        78.44         6.58        15.35        24.85        16.21 

  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                         1.02                          6.31 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                        84.72                         98.76 
  DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE 
                       11.150                        17.785 
[1] "1.0 - 84.7 (11.2)" "6.3 - 98.8 (17.8)"
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK 14(9P21.3) WILD-TYPE"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK 14(9P21.3) WILD-TYPE"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK 14(9P21.3) WILD-TYPE"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-GN-A26D 
  "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK 14(9P21.3) WILD-TYPE"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK 14(9P21.3) WILD-TYPE"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK 14(9P21.3) WILD-TYPE"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-GN-A26D 
  "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A1Q1                    TCGA-D3-A1Q5 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A1Q6                    TCGA-D3-A1Q7 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A1Q8                    TCGA-D3-A1Q9 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J6                    TCGA-D3-A2J8 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2J9                    TCGA-D3-A2JD 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-D3-A2JK                    TCGA-D3-A3C6 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A3CC                    TCGA-D3-A3CE 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A3CF                    TCGA-D3-A3MO 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D3-A3MV                    TCGA-D9-A3Z1 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-D9-A3Z3                    TCGA-DA-A1HV 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1HW                    TCGA-DA-A1HY 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1I0                    TCGA-DA-A1I1 
"DEL PEAK 14(9P21.3) WILD-TYPE"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1I2                    TCGA-DA-A1I4 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1I7                    TCGA-DA-A1I8 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A1IB                    TCGA-DA-A1IC 
"DEL PEAK 14(9P21.3) WILD-TYPE"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A3F2                    TCGA-DA-A3F3 
"DEL PEAK 14(9P21.3) WILD-TYPE"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-DA-A3F5                    TCGA-DA-A3F8 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A17X                    TCGA-EE-A17Z 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A181                    TCGA-EE-A183 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A185                    TCGA-EE-A20B 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A20F                    TCGA-EE-A29C 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29D                    TCGA-EE-A29E 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29H                    TCGA-EE-A29L 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29N                    TCGA-EE-A29P 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29Q                    TCGA-EE-A29R 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29S                    TCGA-EE-A29T 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A29X                    TCGA-EE-A2A0 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-EE-A2A1                    TCGA-EE-A2A2 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-EE-A2A5                    TCGA-EE-A2A6 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A19D                    TCGA-ER-A19F 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A19J                    TCGA-ER-A19L 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A19M                    TCGA-ER-A19N 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-ER-A1A1                    TCGA-ER-A3ET 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-ER-A3PL                    TCGA-FR-A3YN 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-FR-A44A                    TCGA-FS-A1ZR 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-FS-A4F0                    TCGA-FS-A4F9 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-FS-A4FC                    TCGA-FW-A3R5 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-GN-A261                    TCGA-GN-A262 
"DEL PEAK 14(9P21.3) WILD-TYPE" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-GN-A264                    TCGA-GN-A265 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-GN-A266                    TCGA-GN-A267 
  "DEL PEAK 14(9P21.3) MUTATED" "DEL PEAK 14(9P21.3) WILD-TYPE" 
                   TCGA-GN-A268                    TCGA-GN-A26A 
  "DEL PEAK 14(9P21.3) MUTATED"   "DEL PEAK 14(9P21.3) MUTATED" 
                   TCGA-GN-A26D 
  "DEL PEAK 14(9P21.3) MUTATED" 
[1] "hr=" "1.3"
D34V2, continuous
D34V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(9P21.3) MUTATED     29   86
  DEL PEAK 14(9P21.3) WILD-TYPE    6   26
                                                                                          clus
vv                                                                                         DEL PEAK 14(9P21.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          29
  REGIONAL LYMPH NODE                                                                                               86
                                                                                          clus
vv                                                                                         DEL PEAK 14(9P21.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             6
  REGIONAL LYMPH NODE                                                                                                 26
D34V4, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(9P21.3) MUTATED     45   70
  DEL PEAK 14(9P21.3) WILD-TYPE    7   25
        clus
vv       DEL PEAK 14(9P21.3) MUTATED DEL PEAK 14(9P21.3) WILD-TYPE
  FEMALE                          45                             7
  MALE                            70                            25
                               vv
clus                            M0 M1 M1A M1B M1C
  DEL PEAK 14(9P21.3) MUTATED   98  1   1   2   1
  DEL PEAK 14(9P21.3) WILD-TYPE 30  0   1   0   0
D34V5, multiclass
                               vv
clus                            N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 14(9P21.3) MUTATED   60  1   4  10  1   1   8   4 13  2
  DEL PEAK 14(9P21.3) WILD-TYPE 17  1   2   2  0   3   3   0  3  0
D34V6, multiclass
D34V7, continuous
                               vv
clus                            I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 14(9P21.3) MUTATED             1      10        6        9       14
  DEL PEAK 14(9P21.3) WILD-TYPE           0       6        2        4        3
                               vv
clus                            STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 14(9P21.3) MUTATED           6         7         4         7
  DEL PEAK 14(9P21.3) WILD-TYPE         1         1         0         1
                               vv
clus                            STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 14(9P21.3) MUTATED            2         12         16        4
  DEL PEAK 14(9P21.3) WILD-TYPE          3          4          5        0
D34V8, multiclass

Clustering(35) Variable = Del Peak 15(10p15.3) mutation analysis
D35V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 15(10P15.3) MUTATED   17 29
  DEL PEAK 15(10P15.3) WILD-TYPE 22 15
  DEL PEAK 15(10P15.3) MUTATED DEL PEAK 15(10P15.3) WILD-TYPE 
                            46                             37 
  DEL PEAK 15(10P15.3) MUTATED DEL PEAK 15(10P15.3) WILD-TYPE 
                            29                             15 
$`DEL PEAK 15(10P15.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 
       16.47        32.55        70.16        98.76        28.08        10.26 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV 
       11.41         6.35        13.32        24.00         9.30         5.39 
TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I2 TCGA-DA-A1I4 
        2.86        35.80        51.12        39.19        13.68         9.99 
TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A3F5 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A185 
       36.69        25.15        17.56         6.31         1.12         4.27 
TCGA-EE-A20B TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       36.07         4.41         1.08         9.47        12.03         8.12 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D 
        9.99         6.48         8.09        23.90         9.67         3.52 
TCGA-ER-A19L TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A1ZR TCGA-GN-A264 
       12.99         6.58         1.71         5.95         8.81        31.33 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
       10.09        16.21        15.39        12.16 

$`DEL PEAK 15(10P15.3) WILD-TYPE`
TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D9-A3Z1 
       22.55         8.38        21.14        15.25        45.70         4.01 
TCGA-DA-A1HV TCGA-DA-A1I0 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
       48.79        10.03        22.36         6.64        19.36         7.00 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A183 TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D 
       14.83        11.57        12.20         5.13        37.97        11.15 
TCGA-EE-A29E TCGA-EE-A29R TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19F 
       38.63         8.84        11.31        25.28         8.94        11.11 
TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A44A TCGA-FS-A4F0 
        4.18        28.64        42.84        78.44        72.16        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
       10.78         6.41         1.02        15.35        24.85        84.72 
TCGA-GN-A26D 
       14.70 

  DEL PEAK 15(10P15.3) MUTATED DEL PEAK 15(10P15.3) WILD-TYPE 
                          1.08                           1.02 
  DEL PEAK 15(10P15.3) MUTATED DEL PEAK 15(10P15.3) WILD-TYPE 
                         98.76                          84.72 
  DEL PEAK 15(10P15.3) MUTATED DEL PEAK 15(10P15.3) WILD-TYPE 
                        10.835                         14.830 
[1] "1.1 - 98.8 (10.8)" "1.0 - 84.7 (14.8)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-GN-A26D 
"DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-GN-A26D 
"DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 15(10P15.3) WILD-TYPE"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 15(10P15.3) WILD-TYPE" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 15(10P15.3) MUTATED" "DEL PEAK 15(10P15.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 15(10P15.3) MUTATED"   "DEL PEAK 15(10P15.3) MUTATED" 
                    TCGA-GN-A26D 
"DEL PEAK 15(10P15.3) WILD-TYPE" 
[1] "hr=" "1.9"
D35V2, continuous
D35V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(10P15.3) MUTATED     24   55
  DEL PEAK 15(10P15.3) WILD-TYPE   11   57
                                                                                          clus
vv                                                                                         DEL PEAK 15(10P15.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           24
  REGIONAL LYMPH NODE                                                                                                55
                                                                                          clus
vv                                                                                         DEL PEAK 15(10P15.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             11
  REGIONAL LYMPH NODE                                                                                                  57
D35V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 15(10P15.3) MUTATED     30   49
  DEL PEAK 15(10P15.3) WILD-TYPE   22   46
        clus
vv       DEL PEAK 15(10P15.3) MUTATED DEL PEAK 15(10P15.3) WILD-TYPE
  FEMALE                           30                             22
  MALE                             49                             46
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 15(10P15.3) MUTATED   70  0   1   1   1
  DEL PEAK 15(10P15.3) WILD-TYPE 58  1   1   1   0
D35V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 15(10P15.3) MUTATED   40  1   6   7  0   1   5   3  9  1
  DEL PEAK 15(10P15.3) WILD-TYPE 37  1   0   5  1   3   6   1  7  1
D35V6, multiclass
D35V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 15(10P15.3) MUTATED             1       6        5        6       10
  DEL PEAK 15(10P15.3) WILD-TYPE           0      10        3        7        7
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 15(10P15.3) MUTATED           3         5         2         5
  DEL PEAK 15(10P15.3) WILD-TYPE         4         3         2         3
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 15(10P15.3) MUTATED            4          8         13        3
  DEL PEAK 15(10P15.3) WILD-TYPE          1          8          8        1
D35V8, multiclass

Clustering(36) Variable = Del Peak 16(10q23.31) mutation analysis
D36V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 16(10Q23.31) MUTATED   20 30
  DEL PEAK 16(10Q23.31) WILD-TYPE 19 14
  DEL PEAK 16(10Q23.31) MUTATED DEL PEAK 16(10Q23.31) WILD-TYPE 
                             50                              33 
  DEL PEAK 16(10Q23.31) MUTATED DEL PEAK 16(10Q23.31) WILD-TYPE 
                             30                              14 
$`DEL PEAK 16(10Q23.31) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       11.41         6.35        15.25        45.70        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1I2 
        9.30         5.39         2.86        35.80        39.19        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17Z 
        9.99        36.69        25.15        17.56        14.83         6.31 
TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29H 
        1.12         4.27        36.07         5.13        11.15         4.41 
TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
        1.08        12.03         8.12         6.48         8.09        11.31 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A3PL 
       23.90         9.67         8.94         3.52        12.99         1.71 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A266 
        5.95        72.16         8.81        24.85        31.33        10.09 
TCGA-GN-A267 TCGA-GN-A26A 
       16.21        12.16 

$`DEL PEAK 16(10Q23.31) WILD-TYPE`
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1HY 
       10.26         8.38        21.14         4.01        48.79        51.12 
TCGA-DA-A1I0 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-EE-A17X 
       10.03        22.36         6.64        19.36         7.00        11.57 
TCGA-EE-A183 TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S 
       12.20        37.97        38.63         9.47         8.84         9.99 
TCGA-EE-A2A1 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       25.28        11.11         4.18        28.64        42.84        78.44 
TCGA-ER-A3ET TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 
        6.58        53.82        10.78         6.41         1.02        15.35 
TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26D 
       84.72        15.39        14.70 

  DEL PEAK 16(10Q23.31) MUTATED DEL PEAK 16(10Q23.31) WILD-TYPE 
                           1.08                            1.02 
  DEL PEAK 16(10Q23.31) MUTATED DEL PEAK 16(10Q23.31) WILD-TYPE 
                          98.76                           84.72 
  DEL PEAK 16(10Q23.31) MUTATED DEL PEAK 16(10Q23.31) WILD-TYPE 
                         12.095                          12.200 
[1] "1.1 - 98.8 (12.1)" "1.0 - 84.7 (12.2)"
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A2JK                      TCGA-D3-A3C6 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A3CC                      TCGA-D3-A3CE 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A3CF                      TCGA-D3-A3MO 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A3MV                      TCGA-D9-A3Z1 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-D9-A3Z3                      TCGA-DA-A1HV 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1HW                      TCGA-DA-A1HY 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1I0                      TCGA-DA-A1I1 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-DA-A1I2                      TCGA-DA-A1I4 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-DA-A1IB                      TCGA-DA-A1IC 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A3F2                      TCGA-DA-A3F3 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A3F5                      TCGA-DA-A3F8 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A17X                      TCGA-EE-A17Z 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A181                      TCGA-EE-A183 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A29C 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A29N                      TCGA-EE-A29P 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A29Q                      TCGA-EE-A29R 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29S                      TCGA-EE-A29T 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F9 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-FS-A4FC                      TCGA-FW-A3R5 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A261                      TCGA-GN-A262 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-GN-A264                      TCGA-GN-A265 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A266                      TCGA-GN-A267 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-GN-A268                      TCGA-GN-A26A 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-GN-A26D 
"DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A2JK                      TCGA-D3-A3C6 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A3CC                      TCGA-D3-A3CE 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A3CF                      TCGA-D3-A3MO 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A3MV                      TCGA-D9-A3Z1 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-D9-A3Z3                      TCGA-DA-A1HV 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1HW                      TCGA-DA-A1HY 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1I0                      TCGA-DA-A1I1 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-DA-A1I2                      TCGA-DA-A1I4 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-DA-A1IB                      TCGA-DA-A1IC 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A3F2                      TCGA-DA-A3F3 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A3F5                      TCGA-DA-A3F8 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A17X                      TCGA-EE-A17Z 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A181                      TCGA-EE-A183 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A29C 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A29N                      TCGA-EE-A29P 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A29Q                      TCGA-EE-A29R 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29S                      TCGA-EE-A29T 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F9 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-FS-A4FC                      TCGA-FW-A3R5 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A261                      TCGA-GN-A262 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-GN-A264                      TCGA-GN-A265 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A266                      TCGA-GN-A267 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-GN-A268                      TCGA-GN-A26A 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-GN-A26D 
"DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A2JK                      TCGA-D3-A3C6 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A3CC                      TCGA-D3-A3CE 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A3CF                      TCGA-D3-A3MO 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-D3-A3MV                      TCGA-D9-A3Z1 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-D9-A3Z3                      TCGA-DA-A1HV 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1HW                      TCGA-DA-A1HY 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A1I0                      TCGA-DA-A1I1 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-DA-A1I2                      TCGA-DA-A1I4 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-DA-A1IB                      TCGA-DA-A1IC 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A3F2                      TCGA-DA-A3F3 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-DA-A3F5                      TCGA-DA-A3F8 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A17X                      TCGA-EE-A17Z 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A181                      TCGA-EE-A183 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A29C 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A29N                      TCGA-EE-A29P 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A29Q                      TCGA-EE-A29R 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-EE-A29S                      TCGA-EE-A29T 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F9 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-FS-A4FC                      TCGA-FW-A3R5 
"DEL PEAK 16(10Q23.31) WILD-TYPE" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A261                      TCGA-GN-A262 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-GN-A264                      TCGA-GN-A265 
  "DEL PEAK 16(10Q23.31) MUTATED" "DEL PEAK 16(10Q23.31) WILD-TYPE" 
                     TCGA-GN-A266                      TCGA-GN-A267 
  "DEL PEAK 16(10Q23.31) MUTATED"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-GN-A268                      TCGA-GN-A26A 
"DEL PEAK 16(10Q23.31) WILD-TYPE"   "DEL PEAK 16(10Q23.31) MUTATED" 
                     TCGA-GN-A26D 
"DEL PEAK 16(10Q23.31) WILD-TYPE" 
[1] "hr=" "1.6"
D36V2, continuous
D36V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 16(10Q23.31) MUTATED     27   64
  DEL PEAK 16(10Q23.31) WILD-TYPE    8   48
                                                                                          clus
vv                                                                                         DEL PEAK 16(10Q23.31) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            27
  REGIONAL LYMPH NODE                                                                                                 64
                                                                                          clus
vv                                                                                         DEL PEAK 16(10Q23.31) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                               8
  REGIONAL LYMPH NODE                                                                                                   48
D36V4, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 16(10Q23.31) MUTATED     38   53
  DEL PEAK 16(10Q23.31) WILD-TYPE   14   42
        clus
vv       DEL PEAK 16(10Q23.31) MUTATED DEL PEAK 16(10Q23.31) WILD-TYPE
  FEMALE                            38                              14
  MALE                              53                              42
                                 vv
clus                              M0 M1 M1A M1B M1C
  DEL PEAK 16(10Q23.31) MUTATED   78  0   1   2   1
  DEL PEAK 16(10Q23.31) WILD-TYPE 50  1   1   0   0
D36V5, multiclass
                                 vv
clus                              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 16(10Q23.31) MUTATED   45  1   5   9  0   2   6   3  9  2
  DEL PEAK 16(10Q23.31) WILD-TYPE 32  1   1   3  1   2   5   1  7  0
D36V6, multiclass
D36V7, continuous
                                 vv
clus                              I OR II NOS STAGE I STAGE IA STAGE IB
  DEL PEAK 16(10Q23.31) MUTATED             1       6        7        7
  DEL PEAK 16(10Q23.31) WILD-TYPE           0      10        1        6
                                 vv
clus                              STAGE II STAGE IIA STAGE IIB STAGE IIC
  DEL PEAK 16(10Q23.31) MUTATED         12         3         5         3
  DEL PEAK 16(10Q23.31) WILD-TYPE        5         4         3         1
                                 vv
clus                              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  DEL PEAK 16(10Q23.31) MUTATED           6          3         10         12
  DEL PEAK 16(10Q23.31) WILD-TYPE         2          2          6          9
                                 vv
clus                              STAGE IV
  DEL PEAK 16(10Q23.31) MUTATED          3
  DEL PEAK 16(10Q23.31) WILD-TYPE        1
D36V8, multiclass

Clustering(37) Variable = Del Peak 17(10q26.3) mutation analysis
D37V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 17(10Q26.3) MUTATED   22 28
  DEL PEAK 17(10Q26.3) WILD-TYPE 17 16
  DEL PEAK 17(10Q26.3) MUTATED DEL PEAK 17(10Q26.3) WILD-TYPE 
                            50                             33 
  DEL PEAK 17(10Q26.3) MUTATED DEL PEAK 17(10Q26.3) WILD-TYPE 
                            28                             16 
$`DEL PEAK 17(10Q26.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 
       16.47        32.55        70.16        98.76        28.08        22.55 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       11.41         6.35        15.25        45.70        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1HY TCGA-DA-A1I1 
        9.30         5.39         2.86        35.80        51.12        39.19 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A3F5 TCGA-DA-A3F8 
       13.68         9.99        36.69        25.15        17.56        14.83 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D 
        6.31         1.12         4.27        36.07         5.13        11.15 
TCGA-EE-A29H TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
        4.41        12.03         8.12         6.48         8.09        11.31 
TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19L TCGA-ER-A3ET 
       23.90         9.67         8.94         3.52        12.99         6.58 
TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-GN-A262 TCGA-GN-A264 
        1.71         5.95        72.16         8.81        24.85        31.33 
TCGA-GN-A266 TCGA-GN-A26A 
       10.09        12.16 

$`DEL PEAK 17(10Q26.3) WILD-TYPE`
TCGA-D3-A2J6 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D9-A3Z1 TCGA-DA-A1HV TCGA-DA-A1I0 
       10.26         8.38        21.14         4.01        48.79        10.03 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-EE-A17X TCGA-EE-A183 
       22.36         6.64        19.36         7.00        11.57        12.20 
TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S 
       37.97        38.63         1.08         9.47         8.84         9.99 
TCGA-EE-A2A1 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       25.28        11.11         4.18        28.64        42.84        78.44 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A265 
       53.82        10.78         6.41         1.02        15.35        84.72 
TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
       16.21        15.39        14.70 

  DEL PEAK 17(10Q26.3) MUTATED DEL PEAK 17(10Q26.3) WILD-TYPE 
                          1.12                           1.02 
  DEL PEAK 17(10Q26.3) MUTATED DEL PEAK 17(10Q26.3) WILD-TYPE 
                         98.76                          84.72 
  DEL PEAK 17(10Q26.3) MUTATED DEL PEAK 17(10Q26.3) WILD-TYPE 
                        12.095                         12.200 
[1] "1.1 - 98.8 (12.1)" "1.0 - 84.7 (12.2)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-GN-A26D 
"DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-GN-A26D 
"DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 17(10Q26.3) MUTATED"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 17(10Q26.3) WILD-TYPE" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 17(10Q26.3) MUTATED" "DEL PEAK 17(10Q26.3) WILD-TYPE" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 17(10Q26.3) WILD-TYPE"   "DEL PEAK 17(10Q26.3) MUTATED" 
                    TCGA-GN-A26D 
"DEL PEAK 17(10Q26.3) WILD-TYPE" 
[1] "hr=" "1.2"
D37V2, continuous
D37V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 17(10Q26.3) MUTATED     29   63
  DEL PEAK 17(10Q26.3) WILD-TYPE    6   49
                                                                                          clus
vv                                                                                         DEL PEAK 17(10Q26.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           29
  REGIONAL LYMPH NODE                                                                                                63
                                                                                          clus
vv                                                                                         DEL PEAK 17(10Q26.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                              6
  REGIONAL LYMPH NODE                                                                                                  49
D37V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 17(10Q26.3) MUTATED     39   53
  DEL PEAK 17(10Q26.3) WILD-TYPE   13   42
        clus
vv       DEL PEAK 17(10Q26.3) MUTATED DEL PEAK 17(10Q26.3) WILD-TYPE
  FEMALE                           39                             13
  MALE                             53                             42
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 17(10Q26.3) MUTATED   79  0   1   2   1
  DEL PEAK 17(10Q26.3) WILD-TYPE 49  1   1   0   0
D37V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 17(10Q26.3) MUTATED   47  1   5   9  0   2   6   3  9  1
  DEL PEAK 17(10Q26.3) WILD-TYPE 30  1   1   3  1   2   5   1  7  1
D37V6, multiclass
D37V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 17(10Q26.3) MUTATED             1       9        7        7       12
  DEL PEAK 17(10Q26.3) WILD-TYPE           0       7        1        6        5
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 17(10Q26.3) MUTATED           2         5         3         6
  DEL PEAK 17(10Q26.3) WILD-TYPE         5         3         1         2
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 17(10Q26.3) MUTATED            3         10         12        3
  DEL PEAK 17(10Q26.3) WILD-TYPE          2          6          9        1
D37V8, multiclass

Clustering(38) Variable = Del Peak 18(11p11.12) mutation analysis
D38V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 18(11P11.12) MUTATED   19 17
  DEL PEAK 18(11P11.12) WILD-TYPE 20 27
  DEL PEAK 18(11P11.12) MUTATED DEL PEAK 18(11P11.12) WILD-TYPE 
                             36                              47 
  DEL PEAK 18(11P11.12) MUTATED DEL PEAK 18(11P11.12) WILD-TYPE 
                             17                              27 
$`DEL PEAK 18(11P11.12) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JD TCGA-D3-A3C6 
       16.47        32.55        22.55        10.26        11.41        15.25 
TCGA-D3-A3CC TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       45.70         9.30         5.39         2.86        48.79        35.80 
TCGA-DA-A1I1 TCGA-DA-A1I8 TCGA-DA-A3F5 TCGA-EE-A20B TCGA-EE-A29C TCGA-EE-A29L 
       39.19        25.15        17.56        36.07        37.97         1.08 
TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29X TCGA-EE-A2A2 
        9.47        12.03         8.12         8.84         8.09        23.90 
TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FS-A4F9 
        9.67         3.52         6.58         1.71         5.95        10.78 
TCGA-FW-A3R5 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A26A TCGA-GN-A26D 
        1.02        24.85        31.33        16.21        12.16        14.70 

$`DEL PEAK 18(11P11.12) WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK 
       70.16        98.76        28.08         8.38        21.14         6.35 
TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 
       13.32        24.00         4.01        51.12        10.03        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
        9.99        36.69        22.36         6.64        19.36         7.00 
TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       14.83        11.57         6.31         1.12        12.20         4.27 
TCGA-EE-A20F TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29S TCGA-EE-A29T 
        5.13        11.15        38.63         4.41         9.99         6.48 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L 
       11.31        25.28         8.94        11.11         4.18        12.99 
TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 
       28.64        42.84        78.44        72.16         8.81        53.82 
TCGA-FS-A4FC TCGA-GN-A261 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A268 
        6.41        15.35        84.72        10.09        15.39 

  DEL PEAK 18(11P11.12) MUTATED DEL PEAK 18(11P11.12) WILD-TYPE 
                           1.02                            1.12 
  DEL PEAK 18(11P11.12) MUTATED DEL PEAK 18(11P11.12) WILD-TYPE 
                          48.79                           98.76 
  DEL PEAK 18(11P11.12) MUTATED DEL PEAK 18(11P11.12) WILD-TYPE 
                         12.095                          12.200 
[1] "1.0 - 48.8 (12.1)" "1.1 - 98.8 (12.2)"
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A2JK                      TCGA-D3-A3C6 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A3CC                      TCGA-D3-A3CE 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D3-A3CF                      TCGA-D3-A3MO 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A3MV                      TCGA-D9-A3Z1 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D9-A3Z3                      TCGA-DA-A1HV 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-DA-A1HW                      TCGA-DA-A1HY 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A1I0                      TCGA-DA-A1I1 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-DA-A1I2                      TCGA-DA-A1I4 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-DA-A1IB                      TCGA-DA-A1IC 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A3F2                      TCGA-DA-A3F3 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A3F5                      TCGA-DA-A3F8 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A17X                      TCGA-EE-A17Z 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A181                      TCGA-EE-A183 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A29C 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29N                      TCGA-EE-A29P 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29Q                      TCGA-EE-A29R 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29S                      TCGA-EE-A29T 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F9 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-FS-A4FC                      TCGA-FW-A3R5 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A261                      TCGA-GN-A262 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A264                      TCGA-GN-A265 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-GN-A266                      TCGA-GN-A267 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A268                      TCGA-GN-A26A 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A26D 
  "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A2JK                      TCGA-D3-A3C6 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A3CC                      TCGA-D3-A3CE 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D3-A3CF                      TCGA-D3-A3MO 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A3MV                      TCGA-D9-A3Z1 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D9-A3Z3                      TCGA-DA-A1HV 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-DA-A1HW                      TCGA-DA-A1HY 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A1I0                      TCGA-DA-A1I1 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-DA-A1I2                      TCGA-DA-A1I4 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-DA-A1IB                      TCGA-DA-A1IC 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A3F2                      TCGA-DA-A3F3 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A3F5                      TCGA-DA-A3F8 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A17X                      TCGA-EE-A17Z 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A181                      TCGA-EE-A183 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A29C 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29N                      TCGA-EE-A29P 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29Q                      TCGA-EE-A29R 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29S                      TCGA-EE-A29T 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F9 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-FS-A4FC                      TCGA-FW-A3R5 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A261                      TCGA-GN-A262 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A264                      TCGA-GN-A265 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-GN-A266                      TCGA-GN-A267 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A268                      TCGA-GN-A26A 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A26D 
  "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A2JK                      TCGA-D3-A3C6 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A3CC                      TCGA-D3-A3CE 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D3-A3CF                      TCGA-D3-A3MO 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-D3-A3MV                      TCGA-D9-A3Z1 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-D9-A3Z3                      TCGA-DA-A1HV 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-DA-A1HW                      TCGA-DA-A1HY 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A1I0                      TCGA-DA-A1I1 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-DA-A1I2                      TCGA-DA-A1I4 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-DA-A1IB                      TCGA-DA-A1IC 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A3F2                      TCGA-DA-A3F3 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-DA-A3F5                      TCGA-DA-A3F8 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A17X                      TCGA-EE-A17Z 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A181                      TCGA-EE-A183 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A29C 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29N                      TCGA-EE-A29P 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29Q                      TCGA-EE-A29R 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A29S                      TCGA-EE-A29T 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 18(11P11.12) MUTATED"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 18(11P11.12) WILD-TYPE" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F9 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-FS-A4FC                      TCGA-FW-A3R5 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A261                      TCGA-GN-A262 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A264                      TCGA-GN-A265 
  "DEL PEAK 18(11P11.12) MUTATED" "DEL PEAK 18(11P11.12) WILD-TYPE" 
                     TCGA-GN-A266                      TCGA-GN-A267 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A268                      TCGA-GN-A26A 
"DEL PEAK 18(11P11.12) WILD-TYPE"   "DEL PEAK 18(11P11.12) MUTATED" 
                     TCGA-GN-A26D 
  "DEL PEAK 18(11P11.12) MUTATED" 
[1] "hr=" "1.1"
D38V2, continuous
D38V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 18(11P11.12) MUTATED     18   36
  DEL PEAK 18(11P11.12) WILD-TYPE   17   76
                                                                                          clus
vv                                                                                         DEL PEAK 18(11P11.12) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            18
  REGIONAL LYMPH NODE                                                                                                 36
                                                                                          clus
vv                                                                                         DEL PEAK 18(11P11.12) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                              17
  REGIONAL LYMPH NODE                                                                                                   76
D38V4, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 18(11P11.12) MUTATED     24   30
  DEL PEAK 18(11P11.12) WILD-TYPE   28   65
        clus
vv       DEL PEAK 18(11P11.12) MUTATED DEL PEAK 18(11P11.12) WILD-TYPE
  FEMALE                            24                              28
  MALE                              30                              65
                                 vv
clus                              M0 M1 M1A M1B M1C
  DEL PEAK 18(11P11.12) MUTATED   48  0   1   0   1
  DEL PEAK 18(11P11.12) WILD-TYPE 80  1   1   2   0
D38V5, multiclass
                                 vv
clus                              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 18(11P11.12) MUTATED   27  0   4   6  1   2   1   3  6  1
  DEL PEAK 18(11P11.12) WILD-TYPE 50  2   2   6  0   2  10   1 10  1
D38V6, multiclass
D38V7, continuous
                                 vv
clus                              I OR II NOS STAGE I STAGE IA STAGE IB
  DEL PEAK 18(11P11.12) MUTATED             1       5        2        6
  DEL PEAK 18(11P11.12) WILD-TYPE           0      11        6        7
                                 vv
clus                              STAGE II STAGE IIA STAGE IIB STAGE IIC
  DEL PEAK 18(11P11.12) MUTATED          4         0         3         4
  DEL PEAK 18(11P11.12) WILD-TYPE       13         7         5         0
                                 vv
clus                              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  DEL PEAK 18(11P11.12) MUTATED           3          3          7          8
  DEL PEAK 18(11P11.12) WILD-TYPE         5          2          9         13
                                 vv
clus                              STAGE IV
  DEL PEAK 18(11P11.12) MUTATED          2
  DEL PEAK 18(11P11.12) WILD-TYPE        2
D38V8, multiclass

Clustering(39) Variable = Del Peak 19(11q23.3) mutation analysis
D39V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 19(11Q23.3) MUTATED   23 24
  DEL PEAK 19(11Q23.3) WILD-TYPE 16 20
  DEL PEAK 19(11Q23.3) MUTATED DEL PEAK 19(11Q23.3) WILD-TYPE 
                            47                             36 
  DEL PEAK 19(11Q23.3) MUTATED DEL PEAK 19(11Q23.3) WILD-TYPE 
                            24                             20 
$`DEL PEAK 19(11Q23.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A2JD 
       16.47        32.55        98.76        22.55        10.26        11.41 
TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z3 
       15.25        45.70        24.00         9.30         5.39         2.86 
TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1I1 TCGA-DA-A1I8 TCGA-DA-A3F3 TCGA-DA-A3F5 
       48.79        35.80        39.19        25.15         7.00        17.56 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29L 
       36.07         5.13        37.97        11.15         4.41         1.08 
TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A2 
        9.47         8.12         8.84         9.99         6.48        23.90 
TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        9.67         3.52        11.11        12.99        28.64        42.84 
TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-GN-A262 TCGA-GN-A264 
        6.58         1.71         5.95        72.16        24.85        31.33 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A TCGA-GN-A26D 
       10.09        16.21        15.39        12.16        14.70 

$`DEL PEAK 19(11Q23.3) WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3CE 
       70.16        28.08         8.38        21.14         6.35        13.32 
TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
        4.01        51.12        10.03        13.68         9.99        36.69 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A17Z 
       22.36         6.64        19.36        14.83        11.57         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29E TCGA-EE-A29P TCGA-EE-A29X 
        1.12        12.20         4.27        38.63        12.03         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19J TCGA-ER-A1A1 TCGA-FS-A1ZR 
       11.31        25.28         8.94         4.18        78.44         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A265 
       53.82        10.78         6.41         1.02        15.35        84.72 

  DEL PEAK 19(11Q23.3) MUTATED DEL PEAK 19(11Q23.3) WILD-TYPE 
                          1.08                           1.02 
  DEL PEAK 19(11Q23.3) MUTATED DEL PEAK 19(11Q23.3) WILD-TYPE 
                         98.76                          84.72 
  DEL PEAK 19(11Q23.3) MUTATED DEL PEAK 19(11Q23.3) WILD-TYPE 
                         12.99                          11.80 
[1] "1.1 - 98.8 (13.0)" "1.0 - 84.7 (11.8)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-GN-A26D 
  "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-GN-A26D 
  "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 19(11Q23.3) WILD-TYPE" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 19(11Q23.3) WILD-TYPE"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 19(11Q23.3) MUTATED" "DEL PEAK 19(11Q23.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 19(11Q23.3) MUTATED"   "DEL PEAK 19(11Q23.3) MUTATED" 
                    TCGA-GN-A26D 
  "DEL PEAK 19(11Q23.3) MUTATED" 
[1] "hr=" "1.2"
D39V2, continuous
D39V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(11Q23.3) MUTATED     19   60
  DEL PEAK 19(11Q23.3) WILD-TYPE   16   52
                                                                                          clus
vv                                                                                         DEL PEAK 19(11Q23.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           19
  REGIONAL LYMPH NODE                                                                                                60
                                                                                          clus
vv                                                                                         DEL PEAK 19(11Q23.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             16
  REGIONAL LYMPH NODE                                                                                                  52
D39V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(11Q23.3) MUTATED     29   50
  DEL PEAK 19(11Q23.3) WILD-TYPE   23   45
        clus
vv       DEL PEAK 19(11Q23.3) MUTATED DEL PEAK 19(11Q23.3) WILD-TYPE
  FEMALE                           29                             23
  MALE                             50                             45
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 19(11Q23.3) MUTATED   67  0   1   1   1
  DEL PEAK 19(11Q23.3) WILD-TYPE 61  1   1   1   0
D39V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 19(11Q23.3) MUTATED   40  0   5   9  0   3   2   3  7  2
  DEL PEAK 19(11Q23.3) WILD-TYPE 37  2   1   3  1   1   9   1  9  0
D39V6, multiclass
D39V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 19(11Q23.3) MUTATED             1       7        6        8        8
  DEL PEAK 19(11Q23.3) WILD-TYPE           0       9        2        5        9
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 19(11Q23.3) MUTATED           1         4         2         2
  DEL PEAK 19(11Q23.3) WILD-TYPE         6         4         2         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 19(11Q23.3) MUTATED            4          9         10        2
  DEL PEAK 19(11Q23.3) WILD-TYPE          1          7         11        2
D39V8, multiclass

Clustering(40) Variable = Del Peak 20(12q24.33) mutation analysis
D40V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 20(12Q24.33) MUTATED   11  7
  DEL PEAK 20(12Q24.33) WILD-TYPE 28 37
  DEL PEAK 20(12Q24.33) MUTATED DEL PEAK 20(12Q24.33) WILD-TYPE 
                             18                              65 
  DEL PEAK 20(12Q24.33) MUTATED DEL PEAK 20(12Q24.33) WILD-TYPE 
                              7                              37 
$`DEL PEAK 20(12Q24.33) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2J6 TCGA-D3-A3CC TCGA-D3-A3MV TCGA-DA-A1I1 TCGA-EE-A20B 
       16.47        10.26        45.70         5.39        39.19        36.07 
TCGA-EE-A29Q TCGA-EE-A29S TCGA-EE-A29X TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A3PL 
        8.12         9.99         8.09        23.90         9.67         1.71 
TCGA-FS-A4F9 TCGA-FW-A3R5 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A268 
       10.78         1.02        84.72        10.09        16.21        15.39 

$`DEL PEAK 20(12Q24.33) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 
       32.55        70.16        98.76        28.08        22.55         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D3-A3MO TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
        9.30         4.01         2.86        48.79        35.80        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       10.03        13.68         9.99        36.69        25.15        22.36 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
        6.64        19.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20F TCGA-EE-A29C 
        6.31         1.12        12.20         4.27         5.13        37.97 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P 
       11.15        38.63         4.41         1.08         9.47        12.03 
TCGA-EE-A29R TCGA-EE-A29T TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A6 TCGA-ER-A19D 
        8.84         6.48        11.31        25.28         8.94         3.52 
TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 
       11.11         4.18        12.99        28.64        42.84        78.44 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4FC 
        6.58         5.95        72.16         8.81        53.82         6.41 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A26A TCGA-GN-A26D 
       15.35        24.85        31.33        12.16        14.70 

  DEL PEAK 20(12Q24.33) MUTATED DEL PEAK 20(12Q24.33) WILD-TYPE 
                           1.02                            1.08 
  DEL PEAK 20(12Q24.33) MUTATED DEL PEAK 20(12Q24.33) WILD-TYPE 
                          84.72                           98.76 
  DEL PEAK 20(12Q24.33) MUTATED DEL PEAK 20(12Q24.33) WILD-TYPE 
                          10.52                           12.20 
[1] "1.0 - 84.7 (10.5)" "1.1 - 98.8 (12.2)"
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2JK                      TCGA-D3-A3C6 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3CC                      TCGA-D3-A3CE 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3CF                      TCGA-D3-A3MO 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3MV                      TCGA-D9-A3Z1 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D9-A3Z3                      TCGA-DA-A1HV 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1HW                      TCGA-DA-A1HY 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I0                      TCGA-DA-A1I1 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-DA-A1I2                      TCGA-DA-A1I4 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1IB                      TCGA-DA-A1IC 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F2                      TCGA-DA-A3F3 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F5                      TCGA-DA-A3F8 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A17X                      TCGA-EE-A17Z 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A181                      TCGA-EE-A183 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A29C 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29N                      TCGA-EE-A29P 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29Q                      TCGA-EE-A29R 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29S                      TCGA-EE-A29T 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F9 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-FS-A4FC                      TCGA-FW-A3R5 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-GN-A261                      TCGA-GN-A262 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A264                      TCGA-GN-A265 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-GN-A266                      TCGA-GN-A267 
  "DEL PEAK 20(12Q24.33) MUTATED"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-GN-A268                      TCGA-GN-A26A 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A26D 
"DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2JK                      TCGA-D3-A3C6 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3CC                      TCGA-D3-A3CE 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3CF                      TCGA-D3-A3MO 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3MV                      TCGA-D9-A3Z1 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D9-A3Z3                      TCGA-DA-A1HV 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1HW                      TCGA-DA-A1HY 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I0                      TCGA-DA-A1I1 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-DA-A1I2                      TCGA-DA-A1I4 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1IB                      TCGA-DA-A1IC 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F2                      TCGA-DA-A3F3 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F5                      TCGA-DA-A3F8 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A17X                      TCGA-EE-A17Z 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A181                      TCGA-EE-A183 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A29C 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29N                      TCGA-EE-A29P 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29Q                      TCGA-EE-A29R 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29S                      TCGA-EE-A29T 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F9 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-FS-A4FC                      TCGA-FW-A3R5 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-GN-A261                      TCGA-GN-A262 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A264                      TCGA-GN-A265 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-GN-A266                      TCGA-GN-A267 
  "DEL PEAK 20(12Q24.33) MUTATED"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-GN-A268                      TCGA-GN-A26A 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A26D 
"DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q1                      TCGA-D3-A1Q5 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q6                      TCGA-D3-A1Q7 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A1Q8                      TCGA-D3-A1Q9 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J6                      TCGA-D3-A2J8 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2J9                      TCGA-D3-A2JD 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A2JK                      TCGA-D3-A3C6 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3CC                      TCGA-D3-A3CE 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3CF                      TCGA-D3-A3MO 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D3-A3MV                      TCGA-D9-A3Z1 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-D9-A3Z3                      TCGA-DA-A1HV 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1HW                      TCGA-DA-A1HY 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I0                      TCGA-DA-A1I1 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-DA-A1I2                      TCGA-DA-A1I4 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1I7                      TCGA-DA-A1I8 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A1IB                      TCGA-DA-A1IC 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F2                      TCGA-DA-A3F3 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-DA-A3F5                      TCGA-DA-A3F8 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A17X                      TCGA-EE-A17Z 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A181                      TCGA-EE-A183 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A185                      TCGA-EE-A20B 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-EE-A20F                      TCGA-EE-A29C 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29D                      TCGA-EE-A29E 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29H                      TCGA-EE-A29L 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29N                      TCGA-EE-A29P 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29Q                      TCGA-EE-A29R 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29S                      TCGA-EE-A29T 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A29X                      TCGA-EE-A2A0 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-EE-A2A1                      TCGA-EE-A2A2 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-EE-A2A5                      TCGA-EE-A2A6 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19D                      TCGA-ER-A19F 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19J                      TCGA-ER-A19L 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A19M                      TCGA-ER-A19N 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A1A1                      TCGA-ER-A3ET 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-ER-A3PL                      TCGA-FR-A3YN 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-FR-A44A                      TCGA-FS-A1ZR 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-FS-A4F0                      TCGA-FS-A4F9 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-FS-A4FC                      TCGA-FW-A3R5 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-GN-A261                      TCGA-GN-A262 
"DEL PEAK 20(12Q24.33) WILD-TYPE" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A264                      TCGA-GN-A265 
"DEL PEAK 20(12Q24.33) WILD-TYPE"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-GN-A266                      TCGA-GN-A267 
  "DEL PEAK 20(12Q24.33) MUTATED"   "DEL PEAK 20(12Q24.33) MUTATED" 
                     TCGA-GN-A268                      TCGA-GN-A26A 
  "DEL PEAK 20(12Q24.33) MUTATED" "DEL PEAK 20(12Q24.33) WILD-TYPE" 
                     TCGA-GN-A26D 
"DEL PEAK 20(12Q24.33) WILD-TYPE" 
[1] "hr=" "1.4"
D40V2, continuous
D40V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 20(12Q24.33) MUTATED     12   21
  DEL PEAK 20(12Q24.33) WILD-TYPE   23   91
                                                                                          clus
vv                                                                                         DEL PEAK 20(12Q24.33) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            12
  REGIONAL LYMPH NODE                                                                                                 21
                                                                                          clus
vv                                                                                         DEL PEAK 20(12Q24.33) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                              23
  REGIONAL LYMPH NODE                                                                                                   91
D40V4, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 20(12Q24.33) MUTATED     14   19
  DEL PEAK 20(12Q24.33) WILD-TYPE   38   76
        clus
vv       DEL PEAK 20(12Q24.33) MUTATED DEL PEAK 20(12Q24.33) WILD-TYPE
  FEMALE                            14                              38
  MALE                              19                              76
                                 vv
clus                               M0  M1 M1A M1B M1C
  DEL PEAK 20(12Q24.33) MUTATED    27   0   1   0   1
  DEL PEAK 20(12Q24.33) WILD-TYPE 101   1   1   2   0
D40V5, multiclass
                                 vv
clus                              N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 20(12Q24.33) MUTATED   19  0   2   1  1   1   0   2  3  0
  DEL PEAK 20(12Q24.33) WILD-TYPE 58  2   4  11  0   3  11   2 13  2
D40V6, multiclass
D40V7, continuous
                                 vv
clus                              I OR II NOS STAGE I STAGE IA STAGE IB
  DEL PEAK 20(12Q24.33) MUTATED             0       5        3        2
  DEL PEAK 20(12Q24.33) WILD-TYPE           1      11        5       11
                                 vv
clus                              STAGE II STAGE IIA STAGE IIB STAGE IIC
  DEL PEAK 20(12Q24.33) MUTATED          3         1         3         1
  DEL PEAK 20(12Q24.33) WILD-TYPE       14         6         5         3
                                 vv
clus                              STAGE III STAGE IIIA STAGE IIIB STAGE IIIC
  DEL PEAK 20(12Q24.33) MUTATED           2          1          3          3
  DEL PEAK 20(12Q24.33) WILD-TYPE         6          4         13         18
                                 vv
clus                              STAGE IV
  DEL PEAK 20(12Q24.33) MUTATED          2
  DEL PEAK 20(12Q24.33) WILD-TYPE        2
D40V8, multiclass

Clustering(41) Variable = Del Peak 21(13q34) mutation analysis
D41V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 21(13Q34) MUTATED   10 12
  DEL PEAK 21(13Q34) WILD-TYPE 29 32
  DEL PEAK 21(13Q34) MUTATED DEL PEAK 21(13Q34) WILD-TYPE 
                          22                           61 
  DEL PEAK 21(13Q34) MUTATED DEL PEAK 21(13Q34) WILD-TYPE 
                          12                           32 
$`DEL PEAK 21(13Q34) MUTATED`
TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HW 
       28.08        22.55         8.38         2.86        48.79        35.80 
TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I8 TCGA-DA-A1IC TCGA-DA-A3F5 TCGA-EE-A181 
       13.68         9.99        25.15         6.64        17.56         1.12 
TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29N TCGA-EE-A29Q TCGA-EE-A29T TCGA-EE-A2A6 
       11.15        38.63         9.47         8.12         6.48         8.94 
TCGA-FR-A3YN TCGA-FS-A4F9 TCGA-GN-A266 TCGA-GN-A26D 
        5.95        10.78        10.09        14.70 

$`DEL PEAK 21(13Q34) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A2J6 TCGA-D3-A2J9 
       16.47        32.55        70.16        98.76        10.26        21.14 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3CF 
       11.41         6.35        15.25        45.70        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 
        9.30         5.39         4.01        51.12        10.03        39.19 
TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X 
       36.69        22.36        19.36         7.00        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
        6.31        12.20         4.27        36.07         5.13        37.97 
TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29X 
        4.41         1.08        12.03         8.84         9.99         8.09 
TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-ER-A19D TCGA-ER-A19F 
       11.31        25.28        23.90         9.67         3.52        11.11 
TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET 
        4.18        12.99        28.64        42.84        78.44         6.58 
TCGA-ER-A3PL TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-FW-A3R5 
        1.71        72.16         8.81        53.82         6.41         1.02 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A265 TCGA-GN-A267 TCGA-GN-A268 
       15.35        24.85        31.33        84.72        16.21        15.39 
TCGA-GN-A26A 
       12.16 

  DEL PEAK 21(13Q34) MUTATED DEL PEAK 21(13Q34) WILD-TYPE 
                        1.12                         1.02 
  DEL PEAK 21(13Q34) MUTATED DEL PEAK 21(13Q34) WILD-TYPE 
                       48.79                        98.76 
  DEL PEAK 21(13Q34) MUTATED DEL PEAK 21(13Q34) WILD-TYPE 
                      10.435                       12.990 
[1] "1.1 - 48.8 (10.4)" "1.0 - 98.8 (13.0)"
                  TCGA-D3-A1Q1                   TCGA-D3-A1Q5 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q6                   TCGA-D3-A1Q7 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q8                   TCGA-D3-A1Q9 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-D3-A2J6                   TCGA-D3-A2J8 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-D3-A2J9                   TCGA-D3-A2JD 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A2JK                   TCGA-D3-A3C6 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A3CC                   TCGA-D3-A3CE 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A3CF                   TCGA-D3-A3MO 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A3MV                   TCGA-D9-A3Z1 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D9-A3Z3                   TCGA-DA-A1HV 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A1HW                   TCGA-DA-A1HY 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-DA-A1I0                   TCGA-DA-A1I1 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-DA-A1I2                   TCGA-DA-A1I4 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A1I7                   TCGA-DA-A1I8 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A1IB                   TCGA-DA-A1IC 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A3F2                   TCGA-DA-A3F3 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-DA-A3F5                   TCGA-DA-A3F8 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A17X                   TCGA-EE-A17Z 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A181                   TCGA-EE-A183 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A185                   TCGA-EE-A20B 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A20F                   TCGA-EE-A29C 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29D                   TCGA-EE-A29E 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-EE-A29H                   TCGA-EE-A29L 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29N                   TCGA-EE-A29P 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29Q                   TCGA-EE-A29R 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29S                   TCGA-EE-A29T 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-EE-A29X                   TCGA-EE-A2A0 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A1                   TCGA-EE-A2A2 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A5                   TCGA-EE-A2A6 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-ER-A19D                   TCGA-ER-A19F 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A19J                   TCGA-ER-A19L 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A19M                   TCGA-ER-A19N 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A1A1                   TCGA-ER-A3ET 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A3PL                   TCGA-FR-A3YN 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-FR-A44A                   TCGA-FS-A1ZR 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-FS-A4F0                   TCGA-FS-A4F9 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-FS-A4FC                   TCGA-FW-A3R5 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A261                   TCGA-GN-A262 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A264                   TCGA-GN-A265 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A266                   TCGA-GN-A267 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A268                   TCGA-GN-A26A 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A26D 
  "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-D3-A1Q1                   TCGA-D3-A1Q5 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q6                   TCGA-D3-A1Q7 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q8                   TCGA-D3-A1Q9 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-D3-A2J6                   TCGA-D3-A2J8 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-D3-A2J9                   TCGA-D3-A2JD 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A2JK                   TCGA-D3-A3C6 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A3CC                   TCGA-D3-A3CE 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A3CF                   TCGA-D3-A3MO 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A3MV                   TCGA-D9-A3Z1 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D9-A3Z3                   TCGA-DA-A1HV 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A1HW                   TCGA-DA-A1HY 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-DA-A1I0                   TCGA-DA-A1I1 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-DA-A1I2                   TCGA-DA-A1I4 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A1I7                   TCGA-DA-A1I8 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A1IB                   TCGA-DA-A1IC 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A3F2                   TCGA-DA-A3F3 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-DA-A3F5                   TCGA-DA-A3F8 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A17X                   TCGA-EE-A17Z 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A181                   TCGA-EE-A183 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A185                   TCGA-EE-A20B 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A20F                   TCGA-EE-A29C 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29D                   TCGA-EE-A29E 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-EE-A29H                   TCGA-EE-A29L 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29N                   TCGA-EE-A29P 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29Q                   TCGA-EE-A29R 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29S                   TCGA-EE-A29T 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-EE-A29X                   TCGA-EE-A2A0 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A1                   TCGA-EE-A2A2 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A5                   TCGA-EE-A2A6 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-ER-A19D                   TCGA-ER-A19F 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A19J                   TCGA-ER-A19L 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A19M                   TCGA-ER-A19N 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A1A1                   TCGA-ER-A3ET 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A3PL                   TCGA-FR-A3YN 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-FR-A44A                   TCGA-FS-A1ZR 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-FS-A4F0                   TCGA-FS-A4F9 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-FS-A4FC                   TCGA-FW-A3R5 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A261                   TCGA-GN-A262 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A264                   TCGA-GN-A265 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A266                   TCGA-GN-A267 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A268                   TCGA-GN-A26A 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A26D 
  "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-D3-A1Q1                   TCGA-D3-A1Q5 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q6                   TCGA-D3-A1Q7 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A1Q8                   TCGA-D3-A1Q9 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-D3-A2J6                   TCGA-D3-A2J8 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-D3-A2J9                   TCGA-D3-A2JD 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A2JK                   TCGA-D3-A3C6 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A3CC                   TCGA-D3-A3CE 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A3CF                   TCGA-D3-A3MO 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D3-A3MV                   TCGA-D9-A3Z1 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-D9-A3Z3                   TCGA-DA-A1HV 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A1HW                   TCGA-DA-A1HY 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-DA-A1I0                   TCGA-DA-A1I1 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-DA-A1I2                   TCGA-DA-A1I4 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A1I7                   TCGA-DA-A1I8 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A1IB                   TCGA-DA-A1IC 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-DA-A3F2                   TCGA-DA-A3F3 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-DA-A3F5                   TCGA-DA-A3F8 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A17X                   TCGA-EE-A17Z 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A181                   TCGA-EE-A183 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A185                   TCGA-EE-A20B 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A20F                   TCGA-EE-A29C 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29D                   TCGA-EE-A29E 
  "DEL PEAK 21(13Q34) MUTATED"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-EE-A29H                   TCGA-EE-A29L 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29N                   TCGA-EE-A29P 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29Q                   TCGA-EE-A29R 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A29S                   TCGA-EE-A29T 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-EE-A29X                   TCGA-EE-A2A0 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A1                   TCGA-EE-A2A2 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-EE-A2A5                   TCGA-EE-A2A6 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-ER-A19D                   TCGA-ER-A19F 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A19J                   TCGA-ER-A19L 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A19M                   TCGA-ER-A19N 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A1A1                   TCGA-ER-A3ET 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-ER-A3PL                   TCGA-FR-A3YN 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-FR-A44A                   TCGA-FS-A1ZR 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-FS-A4F0                   TCGA-FS-A4F9 
"DEL PEAK 21(13Q34) WILD-TYPE"   "DEL PEAK 21(13Q34) MUTATED" 
                  TCGA-FS-A4FC                   TCGA-FW-A3R5 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A261                   TCGA-GN-A262 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A264                   TCGA-GN-A265 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A266                   TCGA-GN-A267 
  "DEL PEAK 21(13Q34) MUTATED" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A268                   TCGA-GN-A26A 
"DEL PEAK 21(13Q34) WILD-TYPE" "DEL PEAK 21(13Q34) WILD-TYPE" 
                  TCGA-GN-A26D 
  "DEL PEAK 21(13Q34) MUTATED" 
[1] "hr=" "1.3"
D41V2, continuous
D41V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 21(13Q34) MUTATED      9   31
  DEL PEAK 21(13Q34) WILD-TYPE   26   81
                                                                                          clus
vv                                                                                         DEL PEAK 21(13Q34) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                          9
  REGIONAL LYMPH NODE                                                                                              31
                                                                                          clus
vv                                                                                         DEL PEAK 21(13Q34) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           26
  REGIONAL LYMPH NODE                                                                                                81
D41V4, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 21(13Q34) MUTATED     12   28
  DEL PEAK 21(13Q34) WILD-TYPE   40   67
        clus
vv       DEL PEAK 21(13Q34) MUTATED DEL PEAK 21(13Q34) WILD-TYPE
  FEMALE                         12                           40
  MALE                           28                           67
                              vv
clus                           M0 M1 M1A M1B M1C
  DEL PEAK 21(13Q34) MUTATED   34  0   0   2   1
  DEL PEAK 21(13Q34) WILD-TYPE 94  1   2   0   0
D41V5, multiclass
                              vv
clus                           N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 21(13Q34) MUTATED   20  0   0   5  0   1   3   3  5  1
  DEL PEAK 21(13Q34) WILD-TYPE 57  2   6   7  1   3   8   1 11  1
D41V6, multiclass
D41V7, continuous
                              vv
clus                           I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 21(13Q34) MUTATED             0       5        5        2        4
  DEL PEAK 21(13Q34) WILD-TYPE           1      11        3       11       13
                              vv
clus                           STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 21(13Q34) MUTATED           0         1         2         1
  DEL PEAK 21(13Q34) WILD-TYPE         7         7         2         7
                              vv
clus                           STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 21(13Q34) MUTATED            0          7          5        2
  DEL PEAK 21(13Q34) WILD-TYPE          5          9         16        2
D41V8, multiclass

Clustering(42) Variable = Del Peak 22(14q32.2) mutation analysis
D42V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 22(14Q32.2) MUTATED   12 12
  DEL PEAK 22(14Q32.2) WILD-TYPE 27 32
  DEL PEAK 22(14Q32.2) MUTATED DEL PEAK 22(14Q32.2) WILD-TYPE 
                            24                             59 
  DEL PEAK 22(14Q32.2) MUTATED DEL PEAK 22(14Q32.2) WILD-TYPE 
                            12                             32 
$`DEL PEAK 22(14Q32.2) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A1Q5 TCGA-D3-A2J6 TCGA-D3-A3CC TCGA-D3-A3CE TCGA-D3-A3MV 
       16.47        32.55        10.26        45.70        13.32         5.39 
TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I1 TCGA-DA-A1I8 TCGA-DA-A3F5 TCGA-EE-A181 
       48.79        51.12        39.19        25.15        17.56         1.12 
TCGA-EE-A29C TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 TCGA-ER-A3PL TCGA-FR-A44A 
       37.97        23.90         9.67         8.94         1.71        72.16 
TCGA-FS-A1ZR TCGA-FS-A4F9 TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26A 
        8.81        10.78        31.33        16.21        15.39        12.16 

$`DEL PEAK 22(14Q32.2) WILD-TYPE`
TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J8 TCGA-D3-A2J9 
       70.16        98.76        28.08        22.55         8.38        21.14 
TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D9-A3Z1 
       11.41         6.35        15.25        24.00         9.30         4.01 
TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1I0 TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A1I7 
        2.86        35.80        10.03        13.68         9.99        36.69 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F8 TCGA-EE-A17X 
       22.36         6.64        19.36         7.00        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29D 
        6.31        12.20         4.27        36.07         5.13        11.15 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29L TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q 
       38.63         4.41         1.08         9.47        12.03         8.12 
TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 
        8.84         9.99         6.48         8.09        11.31        25.28 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        3.52        11.11         4.18        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FS-A4F0 TCGA-FS-A4FC TCGA-FW-A3R5 
       78.44         6.58         5.95        53.82         6.41         1.02 
TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A26D 
       15.35        24.85        84.72        10.09        14.70 

  DEL PEAK 22(14Q32.2) MUTATED DEL PEAK 22(14Q32.2) WILD-TYPE 
                          1.12                           1.02 
  DEL PEAK 22(14Q32.2) MUTATED DEL PEAK 22(14Q32.2) WILD-TYPE 
                         72.16                          98.76 
  DEL PEAK 22(14Q32.2) MUTATED DEL PEAK 22(14Q32.2) WILD-TYPE 
                         16.34                          11.31 
[1] "1.1 - 72.2 (16.3)" "1.0 - 98.8 (11.3)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-GN-A26D 
"DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-GN-A26D 
"DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 22(14Q32.2) WILD-TYPE" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 22(14Q32.2) MUTATED" "DEL PEAK 22(14Q32.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK 22(14Q32.2) WILD-TYPE"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 22(14Q32.2) MUTATED"   "DEL PEAK 22(14Q32.2) MUTATED" 
                    TCGA-GN-A26D 
"DEL PEAK 22(14Q32.2) WILD-TYPE" 
[1] "hr=" "1.5"
D42V2, continuous
D42V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(14Q32.2) MUTATED     12   35
  DEL PEAK 22(14Q32.2) WILD-TYPE   23   77
                                                                                          clus
vv                                                                                         DEL PEAK 22(14Q32.2) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           12
  REGIONAL LYMPH NODE                                                                                                35
                                                                                          clus
vv                                                                                         DEL PEAK 22(14Q32.2) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             23
  REGIONAL LYMPH NODE                                                                                                  77
D42V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(14Q32.2) MUTATED     16   31
  DEL PEAK 22(14Q32.2) WILD-TYPE   36   64
        clus
vv       DEL PEAK 22(14Q32.2) MUTATED DEL PEAK 22(14Q32.2) WILD-TYPE
  FEMALE                           16                             36
  MALE                             31                             64
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 22(14Q32.2) MUTATED   43  0   1   0   1
  DEL PEAK 22(14Q32.2) WILD-TYPE 85  1   1   2   0
D42V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 22(14Q32.2) MUTATED   26  1   4   4  0   1   1   2  6  0
  DEL PEAK 22(14Q32.2) WILD-TYPE 51  1   2   8  1   3  10   2 10  2
D42V6, multiclass
D42V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 22(14Q32.2) MUTATED             1       7        3        2        9
  DEL PEAK 22(14Q32.2) WILD-TYPE           0       9        5       11        8
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 22(14Q32.2) MUTATED           0         2         1         3
  DEL PEAK 22(14Q32.2) WILD-TYPE         7         6         3         5
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 22(14Q32.2) MUTATED            3          4          7        2
  DEL PEAK 22(14Q32.2) WILD-TYPE          2         12         14        2
D42V8, multiclass

Clustering(43) Variable = Del Peak 23(15q13.3) mutation analysis
D43V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 23(15Q13.3) MUTATED    7 10
  DEL PEAK 23(15Q13.3) WILD-TYPE 32 34
  DEL PEAK 23(15Q13.3) MUTATED DEL PEAK 23(15Q13.3) WILD-TYPE 
                            17                             66 
  DEL PEAK 23(15Q13.3) MUTATED DEL PEAK 23(15Q13.3) WILD-TYPE 
                            10                             34 
$`DEL PEAK 23(15Q13.3) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-DA-A1HV TCGA-DA-A1HW TCGA-DA-A1HY 
       16.47        15.25        45.70        48.79        35.80        51.12 
TCGA-DA-A1I1 TCGA-DA-A1I8 TCGA-EE-A17Z TCGA-EE-A29L TCGA-EE-A29P TCGA-EE-A29Q 
       39.19        25.15         6.31         1.08        12.03         8.12 
TCGA-EE-A2A5 TCGA-GN-A264 TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26D 
        9.67        31.33        10.09        16.21        14.70 

$`DEL PEAK 23(15Q13.3) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       32.55        70.16        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3CE TCGA-D3-A3CF 
        8.38        21.14        11.41         6.35        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1I0 TCGA-DA-A1I2 
        9.30         5.39         4.01         2.86        10.03        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
        9.99        36.69        22.36         6.64        19.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 
       17.56        14.83        11.57         1.12        12.20         4.27 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H 
       36.07         5.13        37.97        11.15        38.63         4.41 
TCGA-EE-A29N TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 
        9.47         8.84         9.99         6.48         8.09        11.31 
TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J 
       25.28        23.90         8.94         3.52        11.11         4.18 
TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL 
       12.99        28.64        42.84        78.44         6.58         1.71 
TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC 
        5.95        72.16         8.81        53.82        10.78         6.41 
TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 TCGA-GN-A268 TCGA-GN-A26A 
        1.02        15.35        24.85        84.72        15.39        12.16 

  DEL PEAK 23(15Q13.3) MUTATED DEL PEAK 23(15Q13.3) WILD-TYPE 
                          1.08                           1.02 
  DEL PEAK 23(15Q13.3) MUTATED DEL PEAK 23(15Q13.3) WILD-TYPE 
                         51.12                          98.76 
  DEL PEAK 23(15Q13.3) MUTATED DEL PEAK 23(15Q13.3) WILD-TYPE 
                         16.21                          11.36 
[1] "1.1 - 51.1 (16.2)" "1.0 - 98.8 (11.4)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 23(15Q13.3) MUTATED"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 23(15Q13.3) MUTATED"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 23(15Q13.3) MUTATED"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 23(15Q13.3) MUTATED"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 23(15Q13.3) MUTATED"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 23(15Q13.3) WILD-TYPE"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 23(15Q13.3) MUTATED" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 23(15Q13.3) MUTATED"   "DEL PEAK 23(15Q13.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 23(15Q13.3) WILD-TYPE" "DEL PEAK 23(15Q13.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 23(15Q13.3) MUTATED" 
[1] "hr=" "1.2"
D43V2, continuous
D43V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(15Q13.3) MUTATED     10   25
  DEL PEAK 23(15Q13.3) WILD-TYPE   25   87
                                                                                          clus
vv                                                                                         DEL PEAK 23(15Q13.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           10
  REGIONAL LYMPH NODE                                                                                                25
                                                                                          clus
vv                                                                                         DEL PEAK 23(15Q13.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             25
  REGIONAL LYMPH NODE                                                                                                  87
D43V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 23(15Q13.3) MUTATED     15   20
  DEL PEAK 23(15Q13.3) WILD-TYPE   37   75
        clus
vv       DEL PEAK 23(15Q13.3) MUTATED DEL PEAK 23(15Q13.3) WILD-TYPE
  FEMALE                           15                             37
  MALE                             20                             75
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 23(15Q13.3) MUTATED   30  0   0   1   0
  DEL PEAK 23(15Q13.3) WILD-TYPE 98  1   2   1   1
D43V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 23(15Q13.3) MUTATED   18  0   2   1  0   0   3   1  6  1
  DEL PEAK 23(15Q13.3) WILD-TYPE 59  2   4  11  1   4   8   3 10  1
D43V6, multiclass
D43V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 23(15Q13.3) MUTATED             0       5        1        3        3
  DEL PEAK 23(15Q13.3) WILD-TYPE           1      11        7       10       14
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 23(15Q13.3) MUTATED           0         3         3         2
  DEL PEAK 23(15Q13.3) WILD-TYPE         7         5         1         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 23(15Q13.3) MUTATED            1          3          6        0
  DEL PEAK 23(15Q13.3) WILD-TYPE          4         13         15        4
D43V8, multiclass

Clustering(44) Variable = Del Peak 24(15q15.2) mutation analysis
D44V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 24(15Q15.2) MUTATED    7 14
  DEL PEAK 24(15Q15.2) WILD-TYPE 32 30
  DEL PEAK 24(15Q15.2) MUTATED DEL PEAK 24(15Q15.2) WILD-TYPE 
                            21                             62 
  DEL PEAK 24(15Q15.2) MUTATED DEL PEAK 24(15Q15.2) WILD-TYPE 
                            14                             30 
$`DEL PEAK 24(15Q15.2) MUTATED`
TCGA-D3-A1Q1 TCGA-D3-A2JD TCGA-D3-A3C6 TCGA-D3-A3CC TCGA-DA-A1HV TCGA-DA-A1HW 
       16.47        11.41        15.25        45.70        48.79        35.80 
TCGA-DA-A1I1 TCGA-DA-A1I8 TCGA-EE-A17Z TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A29L 
       39.19        25.15         6.31         1.12        12.20         1.08 
TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A2A5 TCGA-ER-A19J TCGA-ER-A3ET TCGA-GN-A264 
       12.03         8.12         9.67         4.18         6.58        31.33 
TCGA-GN-A266 TCGA-GN-A267 TCGA-GN-A26D 
       10.09        16.21        14.70 

$`DEL PEAK 24(15Q15.2) WILD-TYPE`
TCGA-D3-A1Q5 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A1Q9 TCGA-D3-A2J6 
       32.55        70.16        98.76        28.08        22.55        10.26 
TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JK TCGA-D3-A3CE TCGA-D3-A3CF TCGA-D3-A3MO 
        8.38        21.14         6.35        13.32        24.00         9.30 
TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I2 
        5.39         4.01         2.86        51.12        10.03        13.68 
TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 
        9.99        36.69        22.36         6.64        19.36         7.00 
TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F 
       17.56        14.83        11.57         4.27        36.07         5.13 
TCGA-EE-A29C TCGA-EE-A29D TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29R 
       37.97        11.15        38.63         4.41         9.47         8.84 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A1 TCGA-EE-A2A2 
        9.99         6.48         8.09        11.31        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        8.94         3.52        11.11        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 
       78.44         1.71         5.95        72.16         8.81        53.82 
TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-FW-A3R5 TCGA-GN-A261 TCGA-GN-A262 TCGA-GN-A265 
       10.78         6.41         1.02        15.35        24.85        84.72 
TCGA-GN-A268 TCGA-GN-A26A 
       15.39        12.16 

  DEL PEAK 24(15Q15.2) MUTATED DEL PEAK 24(15Q15.2) WILD-TYPE 
                          1.08                           1.02 
  DEL PEAK 24(15Q15.2) MUTATED DEL PEAK 24(15Q15.2) WILD-TYPE 
                         48.79                          98.76 
  DEL PEAK 24(15Q15.2) MUTATED DEL PEAK 24(15Q15.2) WILD-TYPE 
                        12.200                         11.865 
[1] "1.1 - 48.8 (12.2)" "1.0 - 98.8 (11.9)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 24(15Q15.2) MUTATED"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 24(15Q15.2) MUTATED"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 24(15Q15.2) MUTATED"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 24(15Q15.2) MUTATED"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 24(15Q15.2) MUTATED"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 24(15Q15.2) WILD-TYPE"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 24(15Q15.2) MUTATED" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
  "DEL PEAK 24(15Q15.2) MUTATED"   "DEL PEAK 24(15Q15.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 24(15Q15.2) WILD-TYPE" "DEL PEAK 24(15Q15.2) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 24(15Q15.2) MUTATED" 
[1] "hr=" "1.4"
D44V2, continuous
D44V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(15Q15.2) MUTATED     10   27
  DEL PEAK 24(15Q15.2) WILD-TYPE   25   85
                                                                                          clus
vv                                                                                         DEL PEAK 24(15Q15.2) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                           10
  REGIONAL LYMPH NODE                                                                                                27
                                                                                          clus
vv                                                                                         DEL PEAK 24(15Q15.2) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             25
  REGIONAL LYMPH NODE                                                                                                  85
D44V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(15Q15.2) MUTATED     17   20
  DEL PEAK 24(15Q15.2) WILD-TYPE   35   75
        clus
vv       DEL PEAK 24(15Q15.2) MUTATED DEL PEAK 24(15Q15.2) WILD-TYPE
  FEMALE                           17                             35
  MALE                             20                             75
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 24(15Q15.2) MUTATED   31  1   0   1   0
  DEL PEAK 24(15Q15.2) WILD-TYPE 97  0   2   1   1
D44V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 24(15Q15.2) MUTATED   20  0   2   2  0   0   3   1  6  0
  DEL PEAK 24(15Q15.2) WILD-TYPE 57  2   4  10  1   4   8   3 10  2
D44V6, multiclass
D44V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 24(15Q15.2) MUTATED             0       7        1        2        4
  DEL PEAK 24(15Q15.2) WILD-TYPE           1       9        7       11       13
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 24(15Q15.2) MUTATED           0         3         3         2
  DEL PEAK 24(15Q15.2) WILD-TYPE         7         5         1         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 24(15Q15.2) MUTATED            2          2          6        1
  DEL PEAK 24(15Q15.2) WILD-TYPE          3         14         15        3
D44V8, multiclass

Clustering(45) Variable = Del Peak 25(16p13.3) mutation analysis
D45V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 25(16P13.3) MUTATED    4 10
  DEL PEAK 25(16P13.3) WILD-TYPE 35 34
  DEL PEAK 25(16P13.3) MUTATED DEL PEAK 25(16P13.3) WILD-TYPE 
                            14                             69 
  DEL PEAK 25(16P13.3) MUTATED DEL PEAK 25(16P13.3) WILD-TYPE 
                            10                             34 
$`DEL PEAK 25(16P13.3) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q9 TCGA-D3-A3CC TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-EE-A181 
       32.55        22.55        45.70        35.80        13.68         1.12 
TCGA-EE-A29D TCGA-EE-A29L TCGA-EE-A29X TCGA-EE-A2A0 TCGA-FW-A3R5 TCGA-GN-A262 
       11.15         1.08         8.09        11.31         1.02        24.85 
TCGA-GN-A267 TCGA-GN-A26D 
       16.21        14.70 

$`DEL PEAK 25(16P13.3) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q7 TCGA-D3-A1Q8 TCGA-D3-A2J6 TCGA-D3-A2J8 
       16.47        70.16        98.76        28.08        10.26         8.38 
TCGA-D3-A2J9 TCGA-D3-A2JD TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CE TCGA-D3-A3CF 
       21.14        11.41         6.35        15.25        13.32        24.00 
TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 TCGA-D9-A3Z3 TCGA-DA-A1HV TCGA-DA-A1HY 
        9.30         5.39         4.01         2.86        48.79        51.12 
TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I4 TCGA-DA-A1I7 TCGA-DA-A1I8 TCGA-DA-A1IB 
       10.03        39.19         9.99        36.69        25.15        22.36 
TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-DA-A3F8 TCGA-EE-A17X 
        6.64        19.36         7.00        17.56        14.83        11.57 
TCGA-EE-A17Z TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C 
        6.31        12.20         4.27        36.07         5.13        37.97 
TCGA-EE-A29E TCGA-EE-A29H TCGA-EE-A29N TCGA-EE-A29P TCGA-EE-A29Q TCGA-EE-A29R 
       38.63         4.41         9.47        12.03         8.12         8.84 
TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2A2 TCGA-EE-A2A5 TCGA-EE-A2A6 
        9.99         6.48        25.28        23.90         9.67         8.94 
TCGA-ER-A19D TCGA-ER-A19F TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A19N 
        3.52        11.11         4.18        12.99        28.64        42.84 
TCGA-ER-A1A1 TCGA-ER-A3ET TCGA-ER-A3PL TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR 
       78.44         6.58         1.71         5.95        72.16         8.81 
TCGA-FS-A4F0 TCGA-FS-A4F9 TCGA-FS-A4FC TCGA-GN-A261 TCGA-GN-A264 TCGA-GN-A265 
       53.82        10.78         6.41        15.35        31.33        84.72 
TCGA-GN-A266 TCGA-GN-A268 TCGA-GN-A26A 
       10.09        15.39        12.16 

  DEL PEAK 25(16P13.3) MUTATED DEL PEAK 25(16P13.3) WILD-TYPE 
                          1.02                           1.71 
  DEL PEAK 25(16P13.3) MUTATED DEL PEAK 25(16P13.3) WILD-TYPE 
                         45.70                          98.76 
  DEL PEAK 25(16P13.3) MUTATED DEL PEAK 25(16P13.3) WILD-TYPE 
                         14.19                          12.03 
[1] "1.0 - 45.7 (14.2)" "1.7 - 98.8 (12.0)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 25(16P13.3) MUTATED"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 25(16P13.3) MUTATED"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 25(16P13.3) MUTATED" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 25(16P13.3) MUTATED"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK 25(16P13.3) WILD-TYPE"   "DEL PEAK 25(16P13.3) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
"DEL PEAK 25(16P13.3) WILD-TYPE" "DEL PEAK 25(16P13.3) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 25(16P13.3) MUTATED" 
[1] "hr=" "1.4"
D45V2, continuous
D45V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(16P13.3) MUTATED      4   22
  DEL PEAK 25(16P13.3) WILD-TYPE   31   90
                                                                                          clus
vv                                                                                         DEL PEAK 25(16P13.3) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            4
  REGIONAL LYMPH NODE                                                                                                22
                                                                                          clus
vv                                                                                         DEL PEAK 25(16P13.3) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             31
  REGIONAL LYMPH NODE                                                                                                  90
D45V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(16P13.3) MUTATED     12   14
  DEL PEAK 25(16P13.3) WILD-TYPE   40   81
        clus
vv       DEL PEAK 25(16P13.3) MUTATED DEL PEAK 25(16P13.3) WILD-TYPE
  FEMALE                           12                             40
  MALE                             14                             81
                                vv
clus                              M0  M1 M1A M1B M1C
  DEL PEAK 25(16P13.3) MUTATED    23   0   0   0   0
  DEL PEAK 25(16P13.3) WILD-TYPE 105   1   2   2   1
D45V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 25(16P13.3) MUTATED   15  0   2   2  1   2   1   0  1  0
  DEL PEAK 25(16P13.3) WILD-TYPE 62  2   4  10  0   2  10   4 15  2
D45V6, multiclass
D45V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 25(16P13.3) MUTATED             1       3        2        1        3
  DEL PEAK 25(16P13.3) WILD-TYPE           0      13        6       12       14
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 25(16P13.3) MUTATED           2         1         2         1
  DEL PEAK 25(16P13.3) WILD-TYPE         5         7         2         7
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 25(16P13.3) MUTATED            2          3          3        0
  DEL PEAK 25(16P13.3) WILD-TYPE          3         13         18        4
D45V8, multiclass

Clustering(46) Variable = Del Peak 26(16q24.2) mutation analysis
D46V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 26(16Q24.2) MUTATED   11 19
  DEL PEAK 26(16Q24.2) WILD-TYPE 28 25
  DEL PEAK 26(16Q24.2) MUTATED DEL PEAK 26(16Q24.2) WILD-TYPE 
                            30                             53 
  DEL PEAK 26(16Q24.2) MUTATED DEL PEAK 26(16Q24.2) WILD-TYPE 
                            19                             25 
$`DEL PEAK 26(16Q24.2) MUTATED`
TCGA-D3-A1Q5 TCGA-D3-A1Q7 TCGA-D3-A1Q9 TCGA-D3-A2J6 TCGA-D3-A3CC TCGA-D3-A3CE 
       32.55        98.76        22.55        10.26        45.70        13.32 
TCGA-D9-A3Z3 TCGA-DA-A1HW TCGA-DA-A1I2 TCGA-DA-A1I4 TCGA-DA-A3F8 TCGA-EE-A17Z 
        2.86        35.80        13.68         9.99        14.83         6.31 
TCGA-EE-A181 TCGA-EE-A183 TCGA-EE-A185 TCGA-EE-A29D TCGA-EE-A29H TCGA-EE-A29P 
        1.12        12.20         4.27        11.15         4.41        12.03 
TCGA-EE-A29X TCGA-EE-A2A0 TCGA-EE-A2A5 TCGA-ER-A19F TCGA-ER-A19N TCGA-ER-A3PL 
        8.09        11.31         9.67        11.11        42.84         1.71 
TCGA-FW-A3R5 TCGA-GN-A262 TCGA-GN-A264 TCGA-GN-A267 TCGA-GN-A268 TCGA-GN-A26D 
        1.02        24.85        31.33        16.21        15.39        14.70 

$`DEL PEAK 26(16Q24.2) WILD-TYPE`
TCGA-D3-A1Q1 TCGA-D3-A1Q6 TCGA-D3-A1Q8 TCGA-D3-A2J8 TCGA-D3-A2J9 TCGA-D3-A2JD 
       16.47        70.16        28.08         8.38        21.14        11.41 
TCGA-D3-A2JK TCGA-D3-A3C6 TCGA-D3-A3CF TCGA-D3-A3MO TCGA-D3-A3MV TCGA-D9-A3Z1 
        6.35        15.25        24.00         9.30         5.39         4.01 
TCGA-DA-A1HV TCGA-DA-A1HY TCGA-DA-A1I0 TCGA-DA-A1I1 TCGA-DA-A1I7 TCGA-DA-A1I8 
       48.79        51.12        10.03        39.19        36.69        25.15 
TCGA-DA-A1IB TCGA-DA-A1IC TCGA-DA-A3F2 TCGA-DA-A3F3 TCGA-DA-A3F5 TCGA-EE-A17X 
       22.36         6.64        19.36         7.00        17.56        11.57 
TCGA-EE-A20B TCGA-EE-A20F TCGA-EE-A29C TCGA-EE-A29E TCGA-EE-A29L TCGA-EE-A29N 
       36.07         5.13        37.97        38.63         1.08         9.47 
TCGA-EE-A29Q TCGA-EE-A29R TCGA-EE-A29S TCGA-EE-A29T TCGA-EE-A2A1 TCGA-EE-A2A2 
        8.12         8.84         9.99         6.48        25.28        23.90 
TCGA-EE-A2A6 TCGA-ER-A19D TCGA-ER-A19J TCGA-ER-A19L TCGA-ER-A19M TCGA-ER-A1A1 
        8.94         3.52         4.18        12.99        28.64        78.44 
TCGA-ER-A3ET TCGA-FR-A3YN TCGA-FR-A44A TCGA-FS-A1ZR TCGA-FS-A4F0 TCGA-FS-A4F9 
        6.58         5.95        72.16         8.81        53.82        10.78 
TCGA-FS-A4FC TCGA-GN-A261 TCGA-GN-A265 TCGA-GN-A266 TCGA-GN-A26A 
        6.41        15.35        84.72        10.09        12.16 

  DEL PEAK 26(16Q24.2) MUTATED DEL PEAK 26(16Q24.2) WILD-TYPE 
                          1.02                           1.08 
  DEL PEAK 26(16Q24.2) MUTATED DEL PEAK 26(16Q24.2) WILD-TYPE 
                         98.76                          84.72 
  DEL PEAK 26(16Q24.2) MUTATED DEL PEAK 26(16Q24.2) WILD-TYPE 
                        12.115                         12.160 
[1] "1.0 - 98.8 (12.1)" "1.1 - 84.7 (12.2)"
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A1Q1                     TCGA-D3-A1Q5 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A1Q6                     TCGA-D3-A1Q7 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A1Q8                     TCGA-D3-A1Q9 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A2J6                     TCGA-D3-A2J8 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A2J9                     TCGA-D3-A2JD 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A2JK                     TCGA-D3-A3C6 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A3CC                     TCGA-D3-A3CE 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-D3-A3CF                     TCGA-D3-A3MO 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D3-A3MV                     TCGA-D9-A3Z1 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-D9-A3Z3                     TCGA-DA-A1HV 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1HW                     TCGA-DA-A1HY 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1I0                     TCGA-DA-A1I1 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1I2                     TCGA-DA-A1I4 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-DA-A1I7                     TCGA-DA-A1I8 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A1IB                     TCGA-DA-A1IC 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A3F2                     TCGA-DA-A3F3 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-DA-A3F5                     TCGA-DA-A3F8 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A17X                     TCGA-EE-A17Z 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A181                     TCGA-EE-A183 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A185                     TCGA-EE-A20B 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A20F                     TCGA-EE-A29C 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29D                     TCGA-EE-A29E 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29H                     TCGA-EE-A29L 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29N                     TCGA-EE-A29P 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A29Q                     TCGA-EE-A29R 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29S                     TCGA-EE-A29T 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A29X                     TCGA-EE-A2A0 
  "DEL PEAK 26(16Q24.2) MUTATED"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-EE-A2A1                     TCGA-EE-A2A2 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-EE-A2A5                     TCGA-EE-A2A6 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-ER-A19D                     TCGA-ER-A19F 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-ER-A19J                     TCGA-ER-A19L 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-ER-A19M                     TCGA-ER-A19N 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-ER-A1A1                     TCGA-ER-A3ET 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-ER-A3PL                     TCGA-FR-A3YN 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-FR-A44A                     TCGA-FS-A1ZR 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-FS-A4F0                     TCGA-FS-A4F9 
"DEL PEAK 26(16Q24.2) WILD-TYPE" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-FS-A4FC                     TCGA-FW-A3R5 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-GN-A261                     TCGA-GN-A262 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-GN-A264                     TCGA-GN-A265 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-GN-A266                     TCGA-GN-A267 
"DEL PEAK 26(16Q24.2) WILD-TYPE"   "DEL PEAK 26(16Q24.2) MUTATED" 
                    TCGA-GN-A268                     TCGA-GN-A26A 
  "DEL PEAK 26(16Q24.2) MUTATED" "DEL PEAK 26(16Q24.2) WILD-TYPE" 
                    TCGA-GN-A26D 
  "DEL PEAK 26(16Q24.2) MUTATED" 
[1] "hr=" "1.5"
D46V2, continuous
D46V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(16Q24.2) MUTATED      9   43
  DEL PEAK 26(16Q24.2) WILD-TYPE   26   69
                                                                                          clus
vv                                                                                         DEL PEAK 26(16Q24.2) MUTATED
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                            9
  REGIONAL LYMPH NODE                                                                                                43
                                                                                          clus
vv                                                                                         DEL PEAK 26(16Q24.2) WILD-TYPE
  REGIONAL CUTANEOUS OR SUBCUTANEOUS TISSUE (INCLUDES SATELLITE AND IN-TRANSIT METASTASIS)                             26
  REGIONAL LYMPH NODE                                                                                                  69
D46V4, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(16Q24.2) MUTATED     21   31
  DEL PEAK 26(16Q24.2) WILD-TYPE   31   64
        clus
vv       DEL PEAK 26(16Q24.2) MUTATED DEL PEAK 26(16Q24.2) WILD-TYPE
  FEMALE                           21                             31
  MALE                             31                             64
                                vv
clus                             M0 M1 M1A M1B M1C
  DEL PEAK 26(16Q24.2) MUTATED   44  0   1   1   0
  DEL PEAK 26(16Q24.2) WILD-TYPE 84  1   1   1   1
D46V5, multiclass
                                vv
clus                             N0 N1 N1A N1B N2 N2A N2B N2C N3 NX
  DEL PEAK 26(16Q24.2) MUTATED   29  0   3   6  1   3   3   0  2  0
  DEL PEAK 26(16Q24.2) WILD-TYPE 48  2   3   6  0   1   8   4 14  2
D46V6, multiclass
D46V7, continuous
                                vv
clus                             I OR II NOS STAGE I STAGE IA STAGE IB STAGE II
  DEL PEAK 26(16Q24.2) MUTATED             1       5        3        3        6
  DEL PEAK 26(16Q24.2) WILD-TYPE           0      11        5       10       11
                                vv
clus                             STAGE IIA STAGE IIB STAGE IIC STAGE III
  DEL PEAK 26(16Q24.2) MUTATED           1         5         3         2
  DEL PEAK 26(16Q24.2) WILD-TYPE         6         3         1         6
                                vv
clus                             STAGE IIIA STAGE IIIB STAGE IIIC STAGE IV
  DEL PEAK 26(16Q24.2) MUTATED            2          8          3        1
  DEL PEAK 26(16Q24.2) WILD-TYPE          3          8         18        3
D46V8, multiclass
                     V1.D                        V2                        V3 
          "Time to Death"                     "AGE" "PRIMARY.SITE.OF.DISEASE" 
                       V4                        V5                        V6 
                 "GENDER"      "DISTANT.METASTASIS"   "LYMPH.NODE.METASTASIS" 
                       V7                        V8 
        "TUMOR.STAGECODE"   "NEOPLASM.DISEASESTAGE" 
> q(save="no")
