
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.49.4134/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.49.4134/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/417080/all_lesions.conf_99.cnv.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_clinicalDataPicker/LIHC-TP/3351371/LIHC-TP.clin.merged.picked.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=LIHC-TP", "-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=LIHC-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=73, in cluster file=108, common to both=72
[1] 52 72
[1] "Amp Peak  1(1p22.3)"
[1] 3
      AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE 
                           20                            52 
      AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE 
                           20                            52 
[1] "Amp Peak  2(1q22)"
[1] 3
      AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE 
                         56                          16 
      AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE 
                         56                          16 
[1] "Amp Peak  3(1q42.3)"
[1] 3
      AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE 
                           47                            25 
      AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE 
                           47                            25 
[1] "Amp Peak  4(2p24.1)"
[1] 3
      AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE 
                           17                            55 
      AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE 
                           17                            55 
[1] "Amp Peak  5(2q31.2)"
[1] 3
      AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE 
                           18                            54 
      AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE 
                           18                            54 
[1] "Amp Peak  6(3q26.31)"
[1] 3
      AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE 
                            15                             57 
      AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE 
                            15                             57 
[1] "Amp Peak  7(4q13.3)"
[1] 3
      AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE 
                           12                            60 
      AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE 
                           12                            60 
[1] "Amp Peak  8(5p15.33)"
[1] 3
      AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE 
                            34                             38 
      AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE 
                            34                             38 
[1] "Amp Peak  9(5q35.3)"
[1] 3
      AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE 
                           26                            46 
      AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE 
                           26                            46 
[1] "Amp Peak 10(6p22.3)"
[1] 3
      AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE 
                           28                            44 
      AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE 
                           28                            44 
[1] "Amp Peak 11(6p21.1)"
[1] 3
      AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE 
                           31                            41 
      AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE 
                           31                            41 
[1] "Amp Peak 12(6q12)"
[1] 3
      AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE 
                         23                          49 
      AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE 
                         23                          49 
[1] "Amp Peak 13(7q21.2)"
[1] 3
      AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE 
                           27                            45 
      AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE 
                           27                            45 
[1] "Amp Peak 14(8q11.21)"
[1] 3
      AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE 
                            32                             40 
      AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE 
                            32                             40 
[1] "Amp Peak 15(8q24.13)"
[1] 3
      AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE 
                            43                             29 
      AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE 
                            43                             29 
[1] "Amp Peak 16(10p15.1)"
[1] 3
      AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE 
                            14                             58 
      AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE 
                            14                             58 
[1] "Amp Peak 17(11q13.3)"
[1] 3
      AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE 
                            12                             60 
      AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE 
                            12                             60 
[1] "Amp Peak 18(12q23.1)"
[1] 3
      AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE 
                            13                             59 
      AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE 
                            13                             59 
[1] "Amp Peak 19(13q32.3)"
[1] 3
      AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE 
                            15                             57 
      AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE 
                            15                             57 
[1] "Amp Peak 20(15q26.3)"
[1] 3
      AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE 
                            12                             60 
      AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE 
                            12                             60 
[1] "Amp Peak 21(17p11.2)"
[1] 3
      AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE 
                            11                             61 
      AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE 
                            11                             61 
[1] "Amp Peak 22(17q23.1)"
[1] 3
      AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE 
                            34                             38 
      AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE 
                            34                             38 
[1] "Amp Peak 23(17q25.3)"
[1] 3
      AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE 
                            36                             36 
      AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE 
                            36                             36 
[1] "Amp Peak 24(19p13.12)"
[1] 3
      AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE 
                             18                              54 
      AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE 
                             18                              54 
[1] "Amp Peak 25(19q13.11)"
[1] 3
      AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE 
                             23                              49 
      AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE 
                             23                              49 
[1] "Amp Peak 26(20q13.13)"
[1] 3
      AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE 
                             24                              48 
      AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE 
                             24                              48 
[1] "Del Peak  1(1p36.32)"
[1] 3
      DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE 
                            35                             37 
      DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE 
                            35                             37 
[1] "Del Peak  2(1p35.2)"
[1] 3
      DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE 
                           27                            45 
      DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE 
                           27                            45 
[1] "Del Peak  3(2q22.1)"
[1] 3
      DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE 
                            7                            65 
      DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE 
                            7                            65 
[1] "Del Peak  4(2q37.3)"
[1] 3
      DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE 
                           12                            60 
      DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE 
                           12                            60 
[1] "Del Peak  5(3p13)"
[1] 3
      DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE 
                         15                          57 
      DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE 
                         15                          57 
[1] "Del Peak  6(4q24)"
[1] 3
      DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE 
                         33                          39 
      DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE 
                         33                          39 
[1] "Del Peak  7(4q35.1)"
[1] 3
      DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE 
                           33                            39 
      DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE 
                           33                            39 
[1] "Del Peak  8(5q23.1)"
[1] 3
      DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE 
                            9                            63 
      DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE 
                            9                            63 
[1] "Del Peak  9(6q26)"
[1] 3
      DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE 
                         27                          45 
      DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE 
                         27                          45 
[1] "Del Peak 10(8p23.3)"
[1] 3
      DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE 
                           43                            29 
      DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE 
                           43                            29 
[1] "Del Peak 11(8p23.2)"
[1] 3
      DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE 
                           44                            28 
      DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE 
                           44                            28 
[1] "Del Peak 12(8p21.1)"
[1] 3
      DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE 
                           46                            26 
      DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE 
                           46                            26 
[1] "Del Peak 13(9p21.3)"
[1] 3
      DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE 
                           31                            41 
      DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE 
                           31                            41 
[1] "Del Peak 14(10q23.31)"
[1] 3
      DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE 
                             25                              47 
      DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE 
                             25                              47 
[1] "Del Peak 15(10q24.33)"
[1] 3
      DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE 
                             21                              51 
      DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE 
                             21                              51 
[1] "Del Peak 16(11q14.1)"
[1] 3
      DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE 
                            15                             57 
      DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE 
                            15                             57 
[1] "Del Peak 17(12p12.1)"
[1] 3
      DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE 
                            15                             57 
      DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE 
                            15                             57 
[1] "Del Peak 18(12q24.33)"
[1] 3
      DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE 
                             11                              61 
      DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE 
                             11                              61 
[1] "Del Peak 19(13q14.2)"
[1] 3
      DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE 
                            33                             39 
      DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE 
                            33                             39 
[1] "Del Peak 20(14q23.3)"
[1] 3
      DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE 
                            30                             42 
      DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE 
                            30                             42 
[1] "Del Peak 21(14q32.33)"
[1] 3
      DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE 
                             30                              42 
      DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE 
                             30                              42 
[1] "Del Peak 22(16q23.1)"
[1] 3
      DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE 
                            33                             39 
      DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE 
                            33                             39 
[1] "Del Peak 23(17p12)"
[1] 3
      DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE 
                          44                           28 
      DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE 
                          44                           28 
[1] "Del Peak 24(19p13.3)"
[1] 3
      DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE 
                            18                             54 
      DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE 
                            18                             54 
[1] "Del Peak 25(22q12.1)"
[1] 3
      DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE 
                            14                             58 
      DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE 
                            14                             58 
[1] "Del Peak 26(22q13.32)"
[1] 3
      DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE 
                             18                              54 
      DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE 
                             18                              54 
[1] "data2feature, selection=ALL"
 [1] "YEARSTOBIRTH"                     "DAYSTODEATH"                     
 [3] "DAYSTOLASTFOLLOWUP"               "VITALSTATUS"                     
 [5] "DCCUPLOADDATE"                    "PRIMARYSITEOFDESEASE"            
 [7] "GENDER"                           "DATEOFINITIALPATHOLOGICDIAGNOSIS"
 [9] "DAYSTOLASTKNOWNALIVE"             "HISTOLOGICALTYPE"                
[11] "DISTANT.METASTASIS"               "LYMPH.NODE.METASTASIS"           
[13] "COMPLETENESS.OF.RESECTION"        "TUMOR.STAGECODE"                 
[15] "NEOPLASM.DISEASESTAGE"            "BATCHNUMBER"                     

Input Data has 16 rows and 72 columns.

[1] "Batch" "16"   
[1] "Last Follow UP"
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T 
          NA          352           NA           NA           NA           NA 
TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 
          NA           NA           NA           NA           NA           NA 
TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 
          NA         1144          420            8          252            2 
TCGA-CC-5260 TCGA-CC-5261 TCGA-CC-5262 TCGA-CC-5263 TCGA-CC-5264 TCGA-CC-A1HT 
          NA           NA           NA           NA           NA           NA 
TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A115 
           2            3            4         1678           NA           NA 
TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11C 
          NA          693           NA           79           NA          652 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED 
          NA           NA         2414         2017          601         1628 
TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J 
         203         1036          183          887           NA          129 
TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK 
         110          111           60           NA           97           13 
TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3I1 TCGA-FV-A3R3 TCGA-G3-A25S 
          NA           NA           NA           NA            4           37 
TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y 
        1175         1231          434          390         1359           NA 
TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
         269          253          192          179          136           27 
Variable 1:'AGE':	nDistinctValues=38,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'DAYSTODEATH':	nDistinctValues=25,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 3:'DAYSTOLASTFOLLOWUP':	nDistinctValues=39,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 5:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 6:'PRIMARY.SITE.OF.DISEASE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 7:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'DAYOFINITIALPATHOLOGICDIAGNOSIS':	nDistinctValues=15,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 9:'DAYSTOLASTKNOWNALIVE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'HISTOLOGICAL.TYPE':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 11:'DISTANT.METASTASIS':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'LYMPH.NODE.METASTASIS':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'COMPLETENESS.OF.RESECTION':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'TUMOR.STAGECODE':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 15:'NEOPLASM.DISEASESTAGE':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 16:'BATCH.NUMBER':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                       "GENDER"                   
[3] "DISTANT.METASTASIS"        "LYMPH.NODE.METASTASIS"    
[5] "COMPLETENESS.OF.RESECTION" "TUMOR.STAGECODE"          
[7] "NEOPLASM.DISEASESTAGE"    
[1] "TUMOR.?STAGE" "6"           
[1] "stage2"
vv
 T1  T2  T3 T3A T3B  T4 
 32  13  12   8   2   5 
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 72 columns, 1 survival variables, and 7 non-survival variables.
AGE, nv=38, binary=FALSE, numeric=TRUE
GENDER, nv=2, binary=FALSE, numeric=FALSE
DISTANT.METASTASIS, nv=3, binary=FALSE, numeric=FALSE
LYMPH.NODE.METASTASIS, nv=3, binary=FALSE, numeric=FALSE
COMPLETENESS.OF.RESECTION, nv=4, binary=FALSE, numeric=FALSE
TUMOR.STAGECODE, nv=0, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=6, binary=FALSE, numeric=FALSE

Clustering(1) Variable = Amp Peak  1(1p22.3)
D1V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  1(1P22.3) CNV       12  7
  AMP PEAK  1(1P22.3) WILD-TYPE 28 19
      AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE 
                           19                            47 
      AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE 
                            7                            19 
$`AMP PEAK  1(1P22.3) CNV`
TCGA-BC-A10Q TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A216 TCGA-BC-A217 
       37.32        46.78        27.52         2.99        37.61        13.81 
TCGA-CC-5263 TCGA-CC-A3MB TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A119 TCGA-DD-A11A 
        4.24         0.10        55.17        37.74         7.33         2.60 
TCGA-DD-A11C TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-EP-A2KB TCGA-G3-A25S TCGA-G3-A25W 
       21.44        34.06        29.16         1.97         1.22        12.82 
TCGA-G3-A3CK 
        0.89 

$`AMP PEAK  1(1P22.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10X TCGA-BC-A10Y 
       48.99        11.57        10.13        27.52        25.32        23.34 
TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 
        1.12        69.57         5.03         0.26         8.28         0.07 
TCGA-CC-A3MA TCGA-CC-A3MC TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A11B 
        0.07         0.13        83.57        53.29        22.78         0.46 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED 
       51.25        90.67        79.36        66.31        19.76        53.52 
TCGA-DD-A1EE TCGA-DD-A1EI TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA 
        6.67         6.02        13.64         4.24         3.62         3.65 
TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR 
        0.62         3.19         0.43        22.85        14.40        19.07 
TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25X TCGA-G3-A25Y 
        0.13        38.63        40.47        14.27        44.68        14.86 
TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ 
        8.84         8.32         6.31         5.88         4.47 

      AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE 
                         0.10                          0.07 
      AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE 
                        55.17                         90.67 
      AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE 
                        13.81                         11.57 
[1] "0.1 - 55.2 (13.8)" "0.1 - 90.7 (11.6)"
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK  1(1P22.3) CNV"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  1(1P22.3) CNV"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK  1(1P22.3) CNV"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  1(1P22.3) CNV"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK  1(1P22.3) CNV"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  1(1P22.3) CNV"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  1(1P22.3) CNV" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  1(1P22.3) WILD-TYPE" "AMP PEAK  1(1P22.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  1(1P22.3) WILD-TYPE"       "AMP PEAK  1(1P22.3) CNV" 
[1] "hr=" "1.1"
D1V2, continuous
D1V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P22.3) CNV          7   13
  AMP PEAK  1(1P22.3) WILD-TYPE   18   34
        clus
vv       AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE
  FEMALE                       7                            18
  MALE                        13                            34
                               vv
clus                            M0 M1 MX
  AMP PEAK  1(1P22.3) CNV       14  1  5
  AMP PEAK  1(1P22.3) WILD-TYPE 34  0 18
D1V4, multiclass
    clus
vv   AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE
  M0                      14                            34
  M1                       1                             0
  MX                       5                            18
                               vv
clus                            N0 N1 NX
  AMP PEAK  1(1P22.3) CNV       11  1  7
  AMP PEAK  1(1P22.3) WILD-TYPE 38  0 14
D1V5, multiclass
    clus
vv   AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE
  N0                      11                            38
  N1                       1                             0
  NX                       7                            14
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  1(1P22.3) CNV       12  4  1  3
  AMP PEAK  1(1P22.3) WILD-TYPE 38  4  0  5
D1V6, multiclass
    clus
vv   AMP PEAK  1(1P22.3) CNV AMP PEAK  1(1P22.3) WILD-TYPE
  R0                      12                            38
  R1                       4                             4
  R2                       1                             0
  RX                       3                             5
D1V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK  1(1P22.3) CNV             5        4          3          2
  AMP PEAK  1(1P22.3) WILD-TYPE      24        8         13          2
                               vv
clus                            STAGE IIIC STAGE IVB
  AMP PEAK  1(1P22.3) CNV                1         1
  AMP PEAK  1(1P22.3) WILD-TYPE          0         0
D1V8, multiclass

Clustering(2) Variable = Amp Peak  2(1q22)
D2V1, survival
                             sevent
clus2                          0  1
  AMP PEAK  2(1Q22) CNV       31 20
  AMP PEAK  2(1Q22) WILD-TYPE  9  6
      AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE 
                         51                          15 
      AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE 
                         20                           6 
$`AMP PEAK  2(1Q22) CNV`
TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10Y 
       37.32        10.13        27.52        27.52         2.99        23.34 
TCGA-BC-A10Z TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-5258 
        1.12         5.03        37.61        13.81         8.28         0.07 
TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A114 
        4.24         0.07         0.10         0.13        55.17        37.74 
TCGA-DD-A115 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11C 
       83.57        22.78         7.33         2.60         0.46        21.44 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EE TCGA-DD-A1EH 
       51.25        90.67        79.36        66.31         6.67        34.06 
TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB 
       29.16        13.64         4.24         3.62         3.65         1.97 
TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 
        0.62         3.19         0.43        14.40        19.07         0.13 
TCGA-G3-A25S TCGA-G3-A25U TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z 
        1.22        40.47        12.82        44.68        14.86         8.84 
TCGA-G3-A3CG TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.32         4.47         0.89 

$`AMP PEAK  2(1Q22) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10X TCGA-BC-A110 TCGA-BC-A3KF 
       48.99        11.57        46.78        25.32        69.57         0.26 
TCGA-DD-A116 TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EI TCGA-ES-A2HS TCGA-G3-A25T 
       53.29        19.76        53.52         6.02        22.85        38.63 
TCGA-G3-A25V TCGA-G3-A3CH TCGA-G3-A3CI 
       14.27         6.31         5.88 

      AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE 
                       0.07                        0.26 
      AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE 
                      90.67                       69.57 
      AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE 
                       8.84                       22.85 
[1] "0.1 - 90.7 (8.8)"  "0.3 - 69.6 (22.9)"
                 TCGA-BC-4072                  TCGA-BC-4073 
"AMP PEAK  2(1Q22) WILD-TYPE" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"AMP PEAK  2(1Q22) WILD-TYPE" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-4072                  TCGA-BC-4073 
"AMP PEAK  2(1Q22) WILD-TYPE" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"AMP PEAK  2(1Q22) WILD-TYPE" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-4072                  TCGA-BC-4073 
"AMP PEAK  2(1Q22) WILD-TYPE" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
      "AMP PEAK  2(1Q22) CNV" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"AMP PEAK  2(1Q22) WILD-TYPE"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"AMP PEAK  2(1Q22) WILD-TYPE" "AMP PEAK  2(1Q22) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
      "AMP PEAK  2(1Q22) CNV"       "AMP PEAK  2(1Q22) CNV" 
[1] "hr=" "1.4"
D2V2, continuous
D2V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  2(1Q22) CNV         18   38
  AMP PEAK  2(1Q22) WILD-TYPE    7    9
        clus
vv       AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE
  FEMALE                    18                           7
  MALE                      38                           9
                             vv
clus                          M0 M1 MX
  AMP PEAK  2(1Q22) CNV       37  1 18
  AMP PEAK  2(1Q22) WILD-TYPE 11  0  5
D2V4, multiclass
    clus
vv   AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE
  M0                    37                          11
  M1                     1                           0
  MX                    18                           5
                             vv
clus                          N0 N1 NX
  AMP PEAK  2(1Q22) CNV       37  1 17
  AMP PEAK  2(1Q22) WILD-TYPE 12  0  4
D2V5, multiclass
    clus
vv   AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE
  N0                    37                          12
  N1                     1                           0
  NX                    17                           4
                             vv
clus                          R0 R1 R2 RX
  AMP PEAK  2(1Q22) CNV       37  6  1  7
  AMP PEAK  2(1Q22) WILD-TYPE 13  2  0  1
D2V6, multiclass
    clus
vv   AMP PEAK  2(1Q22) CNV AMP PEAK  2(1Q22) WILD-TYPE
  R0                    37                          13
  R1                     6                           2
  R2                     1                           0
  RX                     7                           1
D2V7, continuous
                             vv
clus                          STAGE I STAGE II STAGE IIIA STAGE IIIB STAGE IIIC
  AMP PEAK  2(1Q22) CNV            22       11         11          3          1
  AMP PEAK  2(1Q22) WILD-TYPE       7        1          5          1          0
                             vv
clus                          STAGE IVB
  AMP PEAK  2(1Q22) CNV               1
  AMP PEAK  2(1Q22) WILD-TYPE         0
D2V8, multiclass

Clustering(3) Variable = Amp Peak  3(1q42.3)
D3V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  3(1Q42.3) CNV       26 17
  AMP PEAK  3(1Q42.3) WILD-TYPE 14  9
      AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE 
                           43                            23 
      AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE 
                           17                             9 
$`AMP PEAK  3(1Q42.3) CNV`
TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10Y TCGA-BC-A112 
       37.32        10.13        27.52        27.52        23.34         5.03 
TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MC 
       37.61        13.81         8.28         4.24         0.07         0.13 
TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B 
       55.17        37.74        22.78         7.33         2.60         0.46 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EJ 
       51.25        90.67        79.36         6.67        34.06        29.16 
TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC 
       13.64         4.24         3.62         3.65         1.97         0.62 
TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S 
        3.19         0.43        14.40        19.07         0.13         1.22 
TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CJ 
       12.82        44.68        14.86         8.84         8.32         4.47 
TCGA-G3-A3CK 
        0.89 

$`AMP PEAK  3(1Q42.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Z 
       48.99        11.57        46.78         2.99        25.32         1.12 
TCGA-BC-A110 TCGA-BC-A3KF TCGA-CC-5258 TCGA-CC-A3MB TCGA-DD-A115 TCGA-DD-A116 
       69.57         0.26         0.07         0.10        83.57        53.29 
TCGA-DD-A11C TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EI TCGA-ES-A2HS 
       21.44        66.31        19.76        53.52         6.02        22.85 
TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A3CH TCGA-G3-A3CI 
       38.63        40.47        14.27         6.31         5.88 

      AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE 
                         0.07                          0.07 
      AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE 
                        90.67                         83.57 
      AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE 
                         8.84                         21.44 
[1] "0.1 - 90.7 (8.8)"  "0.1 - 83.6 (21.4)"
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "AMP PEAK  3(1Q42.3) CNV" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  3(1Q42.3) WILD-TYPE"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  3(1Q42.3) WILD-TYPE" "AMP PEAK  3(1Q42.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "AMP PEAK  3(1Q42.3) CNV"       "AMP PEAK  3(1Q42.3) CNV" 
[1] "hr=" "1.5"
D3V2, continuous
D3V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q42.3) CNV         15   32
  AMP PEAK  3(1Q42.3) WILD-TYPE   10   15
        clus
vv       AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE
  FEMALE                      15                            10
  MALE                        32                            15
                               vv
clus                            M0 M1 MX
  AMP PEAK  3(1Q42.3) CNV       30  1 16
  AMP PEAK  3(1Q42.3) WILD-TYPE 18  0  7
D3V4, multiclass
    clus
vv   AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE
  M0                      30                            18
  M1                       1                             0
  MX                      16                             7
                               vv
clus                            N0 N1 NX
  AMP PEAK  3(1Q42.3) CNV       29  1 16
  AMP PEAK  3(1Q42.3) WILD-TYPE 20  0  5
D3V5, multiclass
    clus
vv   AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE
  N0                      29                            20
  N1                       1                             0
  NX                      16                             5
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  3(1Q42.3) CNV       32  5  1  5
  AMP PEAK  3(1Q42.3) WILD-TYPE 18  3  0  3
D3V6, multiclass
    clus
vv   AMP PEAK  3(1Q42.3) CNV AMP PEAK  3(1Q42.3) WILD-TYPE
  R0                      32                            18
  R1                       5                             3
  R2                       1                             0
  RX                       5                             3
D3V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK  3(1Q42.3) CNV            18       10          8          3
  AMP PEAK  3(1Q42.3) WILD-TYPE      11        2          8          1
                               vv
clus                            STAGE IIIC STAGE IVB
  AMP PEAK  3(1Q42.3) CNV                1         1
  AMP PEAK  3(1Q42.3) WILD-TYPE          0         0
D3V8, multiclass

Clustering(4) Variable = Amp Peak  4(2p24.1)
D4V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  4(2P24.1) CNV        7  9
  AMP PEAK  4(2P24.1) WILD-TYPE 33 17
      AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE 
                           16                            50 
      AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE 
                            9                            17 
$`AMP PEAK  4(2P24.1) CNV`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10T TCGA-CC-5263 TCGA-DD-A113 
       48.99        37.32        10.13        27.52         4.24        55.17 
TCGA-DD-A115 TCGA-DD-A11A TCGA-DD-A1E9 TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A2KA 
       83.57         2.60        90.67        29.16        13.64         3.65 
TCGA-ES-A2HS TCGA-G3-A25T TCGA-G3-A25W TCGA-G3-A25Z 
       22.85        38.63        12.82         8.84 

$`AMP PEAK  4(2P24.1) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y 
       11.57        46.78        27.52         2.99        25.32        23.34 
TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KF 
        1.12        69.57         5.03        37.61        13.81         0.26 
TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A114 
        8.28         0.07         0.07         0.10         0.13        37.74 
TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D 
       53.29        22.78         7.33         0.46        21.44        51.25 
TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH 
       79.36        66.31        19.76        53.52         6.67        34.06 
TCGA-DD-A1EI TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL 
        6.02         4.24         3.62         1.97         0.62         3.19 
TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25U 
        0.43        14.40        19.07         0.13         1.22        40.47 
TCGA-G3-A25V TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI 
       14.27        44.68        14.86         8.32         6.31         5.88 
TCGA-G3-A3CJ TCGA-G3-A3CK 
        4.47         0.89 

      AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE 
                         2.60                          0.07 
      AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE 
                        90.67                         79.36 
      AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE 
                       25.185                         8.300 
[1] "2.6 - 90.7 (25.2)" "0.1 - 79.4 (8.3)" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  4(2P24.1) CNV"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  4(2P24.1) WILD-TYPE"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  4(2P24.1) CNV"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  4(2P24.1) WILD-TYPE"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  4(2P24.1) WILD-TYPE"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  4(2P24.1) CNV"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  4(2P24.1) WILD-TYPE"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  4(2P24.1) CNV"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  4(2P24.1) WILD-TYPE"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  4(2P24.1) WILD-TYPE"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  4(2P24.1) CNV"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  4(2P24.1) WILD-TYPE"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  4(2P24.1) CNV"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  4(2P24.1) WILD-TYPE"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  4(2P24.1) WILD-TYPE"       "AMP PEAK  4(2P24.1) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "AMP PEAK  4(2P24.1) CNV" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  4(2P24.1) WILD-TYPE" "AMP PEAK  4(2P24.1) WILD-TYPE" 
[1] "hr=" "1.2"
D4V2, continuous
D4V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(2P24.1) CNV          8    9
  AMP PEAK  4(2P24.1) WILD-TYPE   17   38
        clus
vv       AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE
  FEMALE                       8                            17
  MALE                         9                            38
                               vv
clus                            M0 M1 MX
  AMP PEAK  4(2P24.1) CNV       12  0  5
  AMP PEAK  4(2P24.1) WILD-TYPE 36  1 18
D4V4, multiclass
    clus
vv   AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE
  M0                      12                            36
  M1                       0                             1
  MX                       5                            18
                               vv
clus                            N0 N1 NX
  AMP PEAK  4(2P24.1) CNV       11  1  5
  AMP PEAK  4(2P24.1) WILD-TYPE 38  0 16
D4V5, multiclass
    clus
vv   AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE
  N0                      11                            38
  N1                       1                             0
  NX                       5                            16
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  4(2P24.1) CNV       12  3  0  2
  AMP PEAK  4(2P24.1) WILD-TYPE 38  5  1  6
D4V6, multiclass
    clus
vv   AMP PEAK  4(2P24.1) CNV AMP PEAK  4(2P24.1) WILD-TYPE
  R0                      12                            38
  R1                       3                             5
  R2                       0                             1
  RX                       2                             6
D4V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK  4(2P24.1) CNV             4        3          5          1
  AMP PEAK  4(2P24.1) WILD-TYPE      25        9         11          3
                               vv
clus                            STAGE IIIC STAGE IVB
  AMP PEAK  4(2P24.1) CNV                1         0
  AMP PEAK  4(2P24.1) WILD-TYPE          0         1
D4V8, multiclass

Clustering(5) Variable = Amp Peak  5(2q31.2)
D5V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  5(2Q31.2) CNV        9  8
  AMP PEAK  5(2Q31.2) WILD-TYPE 31 18
      AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE 
                           17                            49 
      AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE 
                            8                            18 
$`AMP PEAK  5(2Q31.2) CNV`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A3KG TCGA-CC-5263 
       48.99        37.32        10.13        27.52         8.28         4.24 
TCGA-DD-A113 TCGA-DD-A11C TCGA-DD-A1E9 TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A2KA 
       55.17        21.44        90.67        29.16        13.64         3.65 
TCGA-ES-A2HS TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25W TCGA-G3-A25Z 
       22.85         1.22        38.63        12.82         8.84 

$`AMP PEAK  5(2Q31.2) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y 
       11.57        46.78        27.52         2.99        25.32        23.34 
TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KF 
        1.12        69.57         5.03        37.61        13.81         0.26 
TCGA-CC-5258 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A114 TCGA-DD-A115 
        0.07         0.07         0.10         0.13        37.74        83.57 
TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11D 
       53.29        22.78         7.33         2.60         0.46        51.25 
TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH 
       79.36        66.31        19.76        53.52         6.67        34.06 
TCGA-DD-A1EI TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL 
        6.02         4.24         3.62         1.97         0.62         3.19 
TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25U TCGA-G3-A25V 
        0.43        14.40        19.07         0.13        40.47        14.27 
TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ 
       44.68        14.86         8.32         6.31         5.88         4.47 
TCGA-G3-A3CK 
        0.89 

      AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE 
                         1.22                          0.07 
      AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE 
                        90.67                         83.57 
      AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE 
                        21.44                          8.32 
[1] "1.2 - 90.7 (21.4)" "0.1 - 83.6 (8.3)" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  5(2Q31.2) CNV"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  5(2Q31.2) CNV"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  5(2Q31.2) CNV"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  5(2Q31.2) CNV"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  5(2Q31.2) CNV"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK  5(2Q31.2) CNV"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  5(2Q31.2) WILD-TYPE"       "AMP PEAK  5(2Q31.2) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "AMP PEAK  5(2Q31.2) CNV" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  5(2Q31.2) WILD-TYPE" "AMP PEAK  5(2Q31.2) WILD-TYPE" 
[1] "hr=" "1.1"
D5V2, continuous
D5V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(2Q31.2) CNV         10    8
  AMP PEAK  5(2Q31.2) WILD-TYPE   15   39
        clus
vv       AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE
  FEMALE                      10                            15
  MALE                         8                            39
                               vv
clus                            M0 M1 MX
  AMP PEAK  5(2Q31.2) CNV       12  0  6
  AMP PEAK  5(2Q31.2) WILD-TYPE 36  1 17
D5V4, multiclass
    clus
vv   AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE
  M0                      12                            36
  M1                       0                             1
  MX                       6                            17
                               vv
clus                            N0 N1 NX
  AMP PEAK  5(2Q31.2) CNV       12  1  5
  AMP PEAK  5(2Q31.2) WILD-TYPE 37  0 16
D5V5, multiclass
    clus
vv   AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE
  N0                      12                            37
  N1                       1                             0
  NX                       5                            16
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  5(2Q31.2) CNV       12  4  0  2
  AMP PEAK  5(2Q31.2) WILD-TYPE 38  4  1  6
D5V6, multiclass
    clus
vv   AMP PEAK  5(2Q31.2) CNV AMP PEAK  5(2Q31.2) WILD-TYPE
  R0                      12                            38
  R1                       4                             4
  R2                       0                             1
  RX                       2                             6
D5V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK  5(2Q31.2) CNV             5        5          3          1
  AMP PEAK  5(2Q31.2) WILD-TYPE      24        7         13          3
                               vv
clus                            STAGE IIIC STAGE IVB
  AMP PEAK  5(2Q31.2) CNV                1         0
  AMP PEAK  5(2Q31.2) WILD-TYPE          0         1
D5V8, multiclass

Clustering(6) Variable = Amp Peak  6(3q26.31)
D6V1, survival
                                sevent
clus2                             0  1
  AMP PEAK  6(3Q26.31) CNV        7  8
  AMP PEAK  6(3Q26.31) WILD-TYPE 33 18
      AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE 
                            15                             51 
      AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE 
                             8                             18 
$`AMP PEAK  6(3Q26.31) CNV`
TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A217 TCGA-BC-A3KG 
       10.13        27.52        23.34         1.12        13.81         8.28 
TCGA-CC-A3MA TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A11C TCGA-DD-A1EJ TCGA-DD-A1EL 
        0.07        37.74        83.57        21.44        29.16        13.64 
TCGA-EP-A2KA TCGA-ES-A2HS TCGA-G3-A25X 
        3.65        22.85        44.68 

$`AMP PEAK  6(3Q26.31) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W 
       48.99        11.57        37.32        46.78        27.52         2.99 
TCGA-BC-A10X TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A3KF TCGA-CC-5258 
       25.32        69.57         5.03        37.61         0.26         0.07 
TCGA-CC-5263 TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A116 TCGA-DD-A118 
        4.24         0.10         0.13        55.17        53.29        22.78 
TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA 
        7.33         2.60         0.46        51.25        90.67        79.36 
TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI 
       66.31        19.76        53.52         6.67        34.06         6.02 
TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK 
        4.24         3.62         1.97         0.62         3.19         0.43 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25U 
       14.40        19.07         0.13         1.22        38.63        40.47 
TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH 
       14.27        12.82        14.86         8.84         8.32         6.31 
TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        5.88         4.47         0.89 

      AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE 
                          0.07                           0.07 
      AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE 
                         83.57                          90.67 
      AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE 
                         21.44                           8.84 
[1] "0.1 - 83.6 (21.4)" "0.1 - 90.7 (8.8)" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK  6(3Q26.31) CNV"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK  6(3Q26.31) CNV"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK  6(3Q26.31) CNV"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK  6(3Q26.31) WILD-TYPE"       "AMP PEAK  6(3Q26.31) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK  6(3Q26.31) CNV" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK  6(3Q26.31) WILD-TYPE" "AMP PEAK  6(3Q26.31) WILD-TYPE" 
[1] "hr=" "1.5"
D6V2, continuous
D6V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  6(3Q26.31) CNV          6    9
  AMP PEAK  6(3Q26.31) WILD-TYPE   19   38
        clus
vv       AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE
  FEMALE                        6                             19
  MALE                          9                             38
                                vv
clus                             M0 M1 MX
  AMP PEAK  6(3Q26.31) CNV        9  0  6
  AMP PEAK  6(3Q26.31) WILD-TYPE 39  1 17
D6V4, multiclass
    clus
vv   AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE
  M0                        9                             39
  M1                        0                              1
  MX                        6                             17
                                vv
clus                             N0 N1 NX
  AMP PEAK  6(3Q26.31) CNV        7  1  6
  AMP PEAK  6(3Q26.31) WILD-TYPE 42  0 15
D6V5, multiclass
    clus
vv   AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE
  N0                        7                             42
  N1                        1                              0
  NX                        6                             15
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK  6(3Q26.31) CNV       13  1  0  1
  AMP PEAK  6(3Q26.31) WILD-TYPE 37  7  1  7
D6V6, multiclass
    clus
vv   AMP PEAK  6(3Q26.31) CNV AMP PEAK  6(3Q26.31) WILD-TYPE
  R0                       13                             37
  R1                        1                              7
  R2                        0                              1
  RX                        1                              7
D6V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK  6(3Q26.31) CNV             3        5          3          0
  AMP PEAK  6(3Q26.31) WILD-TYPE      26        7         13          4
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK  6(3Q26.31) CNV                1         0
  AMP PEAK  6(3Q26.31) WILD-TYPE          0         1
D6V8, multiclass

Clustering(7) Variable = Amp Peak  7(4q13.3)
D7V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  7(4Q13.3) CNV        9  2
  AMP PEAK  7(4Q13.3) WILD-TYPE 31 24
      AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE 
                           11                            55 
      AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE 
                            2                            24 
$`AMP PEAK  7(4Q13.3) CNV`
TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A217 TCGA-CC-5258 TCGA-DD-A113 TCGA-DD-A11C 
       10.13        27.52        13.81         0.07        55.17        21.44 
TCGA-DD-A1EC TCGA-DD-A1EH TCGA-EP-A12J TCGA-EP-A2KA TCGA-G3-A3CG 
       19.76        34.06         4.24         3.65         8.32 

$`AMP PEAK  7(4Q13.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W 
       48.99        11.57        37.32        46.78        27.52         2.99 
TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 
       25.32        23.34         1.12        69.57         5.03        37.61 
TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC 
        0.26         8.28         4.24         0.07         0.10         0.13 
TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A 
       37.74        83.57        53.29        22.78         7.33         2.60 
TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1ED 
        0.46        51.25        90.67        79.36        66.31        53.52 
TCGA-DD-A1EE TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A26S TCGA-EP-A2KB 
        6.67         6.02        29.16        13.64         3.62         1.97 
TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR 
        0.62         3.19         0.43        22.85        14.40        19.07 
TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W 
        0.13         1.22        38.63        40.47        14.27        12.82 
TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ 
       44.68        14.86         8.84         6.31         5.88         4.47 
TCGA-G3-A3CK 
        0.89 

      AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE 
                         0.07                          0.07 
      AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE 
                        55.17                         90.67 
      AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE 
                        13.81                         12.82 
[1] "0.1 - 55.2 (13.8)" "0.1 - 90.7 (12.8)"
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK  7(4Q13.3) CNV" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK  7(4Q13.3) WILD-TYPE"       "AMP PEAK  7(4Q13.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  7(4Q13.3) WILD-TYPE" "AMP PEAK  7(4Q13.3) WILD-TYPE" 
[1] "hr=" "1.8"
D7V2, continuous
D7V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(4Q13.3) CNV          5    7
  AMP PEAK  7(4Q13.3) WILD-TYPE   20   40
        clus
vv       AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE
  FEMALE                       5                            20
  MALE                         7                            40
                               vv
clus                            M0 M1 MX
  AMP PEAK  7(4Q13.3) CNV        8  0  4
  AMP PEAK  7(4Q13.3) WILD-TYPE 40  1 19
D7V4, multiclass
    clus
vv   AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE
  M0                       8                            40
  M1                       0                             1
  MX                       4                            19
                               vv
clus                            N0 N1 NX
  AMP PEAK  7(4Q13.3) CNV        7  0  5
  AMP PEAK  7(4Q13.3) WILD-TYPE 42  1 16
D7V5, multiclass
    clus
vv   AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE
  N0                       7                            42
  N1                       0                             1
  NX                       5                            16
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  7(4Q13.3) CNV        7  2  0  3
  AMP PEAK  7(4Q13.3) WILD-TYPE 43  6  1  5
D7V6, multiclass
    clus
vv   AMP PEAK  7(4Q13.3) CNV AMP PEAK  7(4Q13.3) WILD-TYPE
  R0                       7                            43
  R1                       2                             6
  R2                       0                             1
  RX                       3                             5
D7V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK  7(4Q13.3) CNV             4        4          1          1
  AMP PEAK  7(4Q13.3) WILD-TYPE      25        8         15          3
                               vv
clus                            STAGE IIIC STAGE IVB
  AMP PEAK  7(4Q13.3) CNV                0         0
  AMP PEAK  7(4Q13.3) WILD-TYPE          1         1
D7V8, multiclass

Clustering(8) Variable = Amp Peak  8(5p15.33)
D8V1, survival
                                sevent
clus2                             0  1
  AMP PEAK  8(5P15.33) CNV       19 13
  AMP PEAK  8(5P15.33) WILD-TYPE 21 13
      AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE 
                            32                             34 
      AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE 
                            13                             13 
$`AMP PEAK  8(5P15.33) CNV`
TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10W TCGA-BC-A10Z TCGA-BC-A216 TCGA-BC-A217 
       37.32        10.13         2.99         1.12        37.61        13.81 
TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A115 
        8.28         0.07         4.24         0.10         0.13        83.57 
TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A11A TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA 
       53.29        22.78         2.60        51.25        90.67        79.36 
TCGA-DD-A1EE TCGA-DD-A1EI TCGA-DD-A1EL TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL 
        6.67         6.02        13.64         1.97         0.62         3.19 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25W TCGA-G3-A25X 
       14.40        19.07         1.22        38.63        12.82        44.68 
TCGA-G3-A3CG TCGA-G3-A3CJ 
        8.32         4.47 

$`AMP PEAK  8(5P15.33) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10X 
       48.99        11.57        46.78        27.52        27.52        25.32 
TCGA-BC-A10Y TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A3KF TCGA-CC-A3MA TCGA-DD-A113 
       23.34        69.57         5.03         0.26         0.07        55.17 
TCGA-DD-A114 TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A1EB TCGA-DD-A1EC 
       37.74         7.33         0.46        21.44        66.31        19.76 
TCGA-DD-A1ED TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA 
       53.52        34.06        29.16         4.24         3.62         3.65 
TCGA-EP-A3RK TCGA-ES-A2HS TCGA-FV-A3R3 TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25Y 
        0.43        22.85         0.13        40.47        14.27        14.86 
TCGA-G3-A25Z TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CK 
        8.84         6.31         5.88         0.89 

      AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE 
                          0.07                           0.07 
      AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE 
                         90.67                          69.57 
      AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE 
                         9.225                         17.310 
[1] "0.1 - 90.7 (9.2)"  "0.1 - 69.6 (17.3)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
      "AMP PEAK  8(5P15.33) CNV"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK  8(5P15.33) WILD-TYPE"       "AMP PEAK  8(5P15.33) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK  8(5P15.33) WILD-TYPE" "AMP PEAK  8(5P15.33) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK  8(5P15.33) CNV" "AMP PEAK  8(5P15.33) WILD-TYPE" 
[1] "hr=" "1"  
D8V2, continuous
D8V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  8(5P15.33) CNV         11   23
  AMP PEAK  8(5P15.33) WILD-TYPE   14   24
        clus
vv       AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE
  FEMALE                       11                             14
  MALE                         23                             24
                                vv
clus                             M0 M1 MX
  AMP PEAK  8(5P15.33) CNV       26  0  8
  AMP PEAK  8(5P15.33) WILD-TYPE 22  1 15
D8V4, multiclass
    clus
vv   AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE
  M0                       26                             22
  M1                        0                              1
  MX                        8                             15
                                vv
clus                             N0 N1 NX
  AMP PEAK  8(5P15.33) CNV       25  0  9
  AMP PEAK  8(5P15.33) WILD-TYPE 24  1 12
D8V5, multiclass
    clus
vv   AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE
  N0                       25                             24
  N1                        0                              1
  NX                        9                             12
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK  8(5P15.33) CNV       24  4  0  4
  AMP PEAK  8(5P15.33) WILD-TYPE 26  4  1  4
D8V6, multiclass
    clus
vv   AMP PEAK  8(5P15.33) CNV AMP PEAK  8(5P15.33) WILD-TYPE
  R0                       24                             26
  R1                        4                              4
  R2                        0                              1
  RX                        4                              4
D8V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK  8(5P15.33) CNV            13        8          9          1
  AMP PEAK  8(5P15.33) WILD-TYPE      16        4          7          3
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK  8(5P15.33) CNV                0         0
  AMP PEAK  8(5P15.33) WILD-TYPE          1         1
D8V8, multiclass

Clustering(9) Variable = Amp Peak  9(5q35.3)
D9V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  9(5Q35.3) CNV       13 12
  AMP PEAK  9(5Q35.3) WILD-TYPE 27 14
      AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE 
                           25                            41 
      AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE 
                           12                            14 
$`AMP PEAK  9(5Q35.3) CNV`
TCGA-BC-A10Q TCGA-BC-A10T TCGA-BC-A10W TCGA-BC-A112 TCGA-BC-A216 TCGA-CC-5263 
       37.32        27.52         2.99         5.03        37.61         4.24 
TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 
        0.10         0.13        83.57        53.29        22.78         7.33 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EE TCGA-EP-A2KB TCGA-EP-A2KC 
       51.25        90.67        79.36         6.67         1.97         0.62 
TCGA-EP-A3JL TCGA-ES-A2HT TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25W TCGA-G3-A25X 
        3.19        14.40         1.22        38.63        12.82        44.68 
TCGA-G3-A3CG 
        8.32 

$`AMP PEAK  9(5Q35.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10X 
       48.99        11.57        10.13        46.78        27.52        25.32 
TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG 
       23.34         1.12        69.57        13.81         0.26         8.28 
TCGA-CC-5258 TCGA-CC-A3MA TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A11A TCGA-DD-A11B 
        0.07         0.07        55.17        37.74         2.60         0.46 
TCGA-DD-A11C TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EH TCGA-DD-A1EI 
       21.44        66.31        19.76        53.52        34.06         6.02 
TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A3RK 
       29.16        13.64         4.24         3.62         3.65         0.43 
TCGA-ES-A2HS TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25Y 
       22.85        19.07         0.13        40.47        14.27        14.86 
TCGA-G3-A25Z TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.84         6.31         5.88         4.47         0.89 

      AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE 
                         0.10                          0.07 
      AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE 
                        90.67                         69.57 
      AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE 
                        12.82                         13.64 
[1] "0.1 - 90.7 (12.8)" "0.1 - 69.6 (13.6)"
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK  9(5Q35.3) CNV"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK  9(5Q35.3) CNV" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK  9(5Q35.3) WILD-TYPE"       "AMP PEAK  9(5Q35.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK  9(5Q35.3) WILD-TYPE" "AMP PEAK  9(5Q35.3) WILD-TYPE" 
[1] "hr=" "1.1"
D9V2, continuous
D9V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(5Q35.3) CNV          7   19
  AMP PEAK  9(5Q35.3) WILD-TYPE   18   28
        clus
vv       AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE
  FEMALE                       7                            18
  MALE                        19                            28
                               vv
clus                            M0 M1 MX
  AMP PEAK  9(5Q35.3) CNV       17  1  8
  AMP PEAK  9(5Q35.3) WILD-TYPE 31  0 15
D9V4, multiclass
    clus
vv   AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE
  M0                      17                            31
  M1                       1                             0
  MX                       8                            15
                               vv
clus                            N0 N1 NX
  AMP PEAK  9(5Q35.3) CNV       17  0  9
  AMP PEAK  9(5Q35.3) WILD-TYPE 32  1 12
D9V5, multiclass
    clus
vv   AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE
  N0                      17                            32
  N1                       0                             1
  NX                       9                            12
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK  9(5Q35.3) CNV       17  5  1  1
  AMP PEAK  9(5Q35.3) WILD-TYPE 33  3  0  7
D9V6, multiclass
    clus
vv   AMP PEAK  9(5Q35.3) CNV AMP PEAK  9(5Q35.3) WILD-TYPE
  R0                      17                            33
  R1                       5                             3
  R2                       1                             0
  RX                       1                             7
D9V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK  9(5Q35.3) CNV             9        3          8          1
  AMP PEAK  9(5Q35.3) WILD-TYPE      20        9          8          3
                               vv
clus                            STAGE IIIC STAGE IVB
  AMP PEAK  9(5Q35.3) CNV                0         1
  AMP PEAK  9(5Q35.3) WILD-TYPE          1         0
D9V8, multiclass

Clustering(10) Variable = Amp Peak 10(6p22.3)
D10V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 10(6P22.3) CNV       18  9
  AMP PEAK 10(6P22.3) WILD-TYPE 22 17
      AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE 
                           27                            39 
      AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE 
                            9                            17 
$`AMP PEAK 10(6P22.3) CNV`
TCGA-BC-A10R TCGA-BC-A10U TCGA-BC-A10Z TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG 
       10.13        27.52         1.12        13.81         0.26         8.28 
TCGA-CC-5263 TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A114 TCGA-DD-A118 TCGA-DD-A119 
        4.24         0.10         0.13        37.74        22.78         7.33 
TCGA-DD-A11A TCGA-DD-A11C TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-EP-A2KB 
        2.60        21.44         6.67        34.06        29.16         1.97 
TCGA-EP-A2KC TCGA-ES-A2HS TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25U TCGA-G3-A25X 
        0.62        22.85         0.13         1.22        40.47        44.68 
TCGA-G3-A25Y TCGA-G3-A3CG TCGA-G3-A3CK 
       14.86         8.32         0.89 

$`AMP PEAK 10(6P22.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10W 
       48.99        11.57        37.32        46.78        27.52         2.99 
TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-CC-5258 
       25.32        23.34        69.57         5.03        37.61         0.07 
TCGA-CC-A3MA TCGA-DD-A113 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A11B TCGA-DD-A11D 
        0.07        55.17        83.57        53.29         0.46        51.25 
TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EI 
       90.67        79.36        66.31        19.76        53.52         6.02 
TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A3JL TCGA-EP-A3RK 
       13.64         4.24         3.62         3.65         3.19         0.43 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-G3-A25T TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Z 
       14.40        19.07        38.63        14.27        12.82         8.84 
TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ 
        6.31         5.88         4.47 

      AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE 
                         0.10                          0.07 
      AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE 
                        44.68                         90.67 
      AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE 
                         8.28                         14.40 
[1] "0.1 - 44.7 (8.3)"  "0.1 - 90.7 (14.4)"
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK 10(6P22.3) CNV" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK 10(6P22.3) CNV"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK 10(6P22.3) WILD-TYPE" "AMP PEAK 10(6P22.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK 10(6P22.3) WILD-TYPE"       "AMP PEAK 10(6P22.3) CNV" 
[1] "hr=" "2"  
D10V2, continuous
D10V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 10(6P22.3) CNV         11   17
  AMP PEAK 10(6P22.3) WILD-TYPE   14   30
        clus
vv       AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE
  FEMALE                      11                            14
  MALE                        17                            30
                               vv
clus                            M0 M1 MX
  AMP PEAK 10(6P22.3) CNV       20  1  7
  AMP PEAK 10(6P22.3) WILD-TYPE 28  0 16
D10V4, multiclass
    clus
vv   AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE
  M0                      20                            28
  M1                       1                             0
  MX                       7                            16
                               vv
clus                            N0 N1 NX
  AMP PEAK 10(6P22.3) CNV       18  1  8
  AMP PEAK 10(6P22.3) WILD-TYPE 31  0 13
D10V5, multiclass
    clus
vv   AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE
  N0                      18                            31
  N1                       1                             0
  NX                       8                            13
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK 10(6P22.3) CNV       21  3  1  3
  AMP PEAK 10(6P22.3) WILD-TYPE 29  5  0  5
D10V6, multiclass
    clus
vv   AMP PEAK 10(6P22.3) CNV AMP PEAK 10(6P22.3) WILD-TYPE
  R0                      21                            29
  R1                       3                             5
  R2                       1                             0
  RX                       3                             5
D10V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 10(6P22.3) CNV            14        5          4          1
  AMP PEAK 10(6P22.3) WILD-TYPE      15        7         12          3
                               vv
clus                            STAGE IIIC STAGE IVB
  AMP PEAK 10(6P22.3) CNV                1         1
  AMP PEAK 10(6P22.3) WILD-TYPE          0         0
D10V8, multiclass

Clustering(11) Variable = Amp Peak 11(6p21.1)
D11V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 11(6P21.1) CNV       19 11
  AMP PEAK 11(6P21.1) WILD-TYPE 21 15
      AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE 
                           30                            36 
      AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE 
                           11                            15 
$`AMP PEAK 11(6P21.1) CNV`
TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A216 TCGA-BC-A217 
       27.52        27.52        23.34         1.12        37.61        13.81 
TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5263 TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A114 
        0.26         8.28         4.24         0.10         0.13        37.74 
TCGA-DD-A115 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11C TCGA-DD-A11D 
       83.57        22.78         7.33         2.60        21.44        51.25 
TCGA-DD-A1EB TCGA-DD-A1EE TCGA-DD-A1EH TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC 
       66.31         6.67        34.06         3.65         1.97         0.62 
TCGA-ES-A2HS TCGA-G3-A25S TCGA-G3-A25U TCGA-G3-A25X TCGA-G3-A3CG TCGA-G3-A3CK 
       22.85         1.22        40.47        44.68         8.32         0.89 

$`AMP PEAK 11(6P21.1) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10W 
       48.99        11.57        37.32        10.13        46.78         2.99 
TCGA-BC-A10X TCGA-BC-A110 TCGA-BC-A112 TCGA-CC-5258 TCGA-CC-A3MA TCGA-DD-A113 
       25.32        69.57         5.03         0.07         0.07        55.17 
TCGA-DD-A116 TCGA-DD-A11B TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EC TCGA-DD-A1ED 
       53.29         0.46        90.67        79.36        19.76        53.52 
TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A3JL 
        6.02        29.16        13.64         4.24         3.62         3.19 
TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25V 
        0.43        14.40        19.07         0.13        38.63        14.27 
TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ 
       12.82        14.86         8.84         6.31         5.88         4.47 

      AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE 
                         0.10                          0.07 
      AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE 
                        83.57                         90.67 
      AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE 
                       11.065                        13.230 
[1] "0.1 - 83.6 (11.1)" "0.1 - 90.7 (13.2)"
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK 11(6P21.1) CNV"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK 11(6P21.1) CNV" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK 11(6P21.1) WILD-TYPE" "AMP PEAK 11(6P21.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"AMP PEAK 11(6P21.1) WILD-TYPE"       "AMP PEAK 11(6P21.1) CNV" 
[1] "hr=" "1.1"
D11V2, continuous
D11V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 11(6P21.1) CNV         11   20
  AMP PEAK 11(6P21.1) WILD-TYPE   14   27
        clus
vv       AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE
  FEMALE                      11                            14
  MALE                        20                            27
                               vv
clus                            M0 M1 MX
  AMP PEAK 11(6P21.1) CNV       22  1  8
  AMP PEAK 11(6P21.1) WILD-TYPE 26  0 15
D11V4, multiclass
    clus
vv   AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE
  M0                      22                            26
  M1                       1                             0
  MX                       8                            15
                               vv
clus                            N0 N1 NX
  AMP PEAK 11(6P21.1) CNV       20  0 10
  AMP PEAK 11(6P21.1) WILD-TYPE 29  1 11
D11V5, multiclass
    clus
vv   AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE
  N0                      20                            29
  N1                       0                             1
  NX                      10                            11
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK 11(6P21.1) CNV       23  4  1  3
  AMP PEAK 11(6P21.1) WILD-TYPE 27  4  0  5
D11V6, multiclass
    clus
vv   AMP PEAK 11(6P21.1) CNV AMP PEAK 11(6P21.1) WILD-TYPE
  R0                      23                            27
  R1                       4                             4
  R2                       1                             0
  RX                       3                             5
D11V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 11(6P21.1) CNV            14        5          7          1
  AMP PEAK 11(6P21.1) WILD-TYPE      15        7          9          3
                               vv
clus                            STAGE IIIC STAGE IVB
  AMP PEAK 11(6P21.1) CNV                0         1
  AMP PEAK 11(6P21.1) WILD-TYPE          1         0
D11V8, multiclass

Clustering(12) Variable = Amp Peak 12(6q12)
D12V1, survival
                             sevent
clus2                          0  1
  AMP PEAK 12(6Q12) CNV       15  8
  AMP PEAK 12(6Q12) WILD-TYPE 25 18
      AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE 
                         23                          43 
      AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE 
                          8                          18 
$`AMP PEAK 12(6Q12) CNV`
TCGA-BC-A10Q TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5263 TCGA-CC-A3MB 
       37.32        13.81         0.26         8.28         4.24         0.10 
TCGA-CC-A3MC TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A 
        0.13        37.74        83.57        22.78         7.33         2.60 
TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-EP-A2KB 
       21.44        51.25         6.67        34.06        29.16         1.97 
TCGA-EP-A2KC TCGA-ES-A2HS TCGA-G3-A25U TCGA-G3-A3CG TCGA-G3-A3CK 
        0.62        22.85        40.47         8.32         0.89 

$`AMP PEAK 12(6Q12) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U 
       48.99        11.57        10.13        46.78        27.52        27.52 
TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 
        2.99        25.32        23.34         1.12        69.57         5.03 
TCGA-BC-A216 TCGA-CC-5258 TCGA-CC-A3MA TCGA-DD-A113 TCGA-DD-A116 TCGA-DD-A11B 
       37.61         0.07         0.07        55.17        53.29         0.46 
TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EI 
       90.67        79.36        66.31        19.76        53.52         6.02 
TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A3JL TCGA-EP-A3RK 
       13.64         4.24         3.62         3.65         3.19         0.43 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25V 
       14.40        19.07         0.13         1.22        38.63        14.27 
TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CH TCGA-G3-A3CI 
       12.82        44.68        14.86         8.84         6.31         5.88 
TCGA-G3-A3CJ 
        4.47 

      AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE 
                       0.10                        0.07 
      AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE 
                      83.57                       90.67 
      AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE 
                       8.32                       13.64 
[1] "0.1 - 83.6 (8.3)"  "0.1 - 90.7 (13.6)"
                 TCGA-BC-4072                  TCGA-BC-4073 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-BC-4072                  TCGA-BC-4073 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-BC-4072                  TCGA-BC-4073 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "AMP PEAK 12(6Q12) CNV"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
      "AMP PEAK 12(6Q12) CNV" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"AMP PEAK 12(6Q12) WILD-TYPE" "AMP PEAK 12(6Q12) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"AMP PEAK 12(6Q12) WILD-TYPE"       "AMP PEAK 12(6Q12) CNV" 
[1] "hr=" "1.1"
D12V2, continuous
D12V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK 12(6Q12) CNV          9   14
  AMP PEAK 12(6Q12) WILD-TYPE   16   33
        clus
vv       AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE
  FEMALE                     9                          16
  MALE                      14                          33
                             vv
clus                          M0 M1 MX
  AMP PEAK 12(6Q12) CNV       18  1  4
  AMP PEAK 12(6Q12) WILD-TYPE 30  0 19
D12V4, multiclass
    clus
vv   AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE
  M0                    18                          30
  M1                     1                           0
  MX                     4                          19
                             vv
clus                          N0 N1 NX
  AMP PEAK 12(6Q12) CNV       15  1  6
  AMP PEAK 12(6Q12) WILD-TYPE 34  0 15
D12V5, multiclass
    clus
vv   AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE
  N0                    15                          34
  N1                     1                           0
  NX                     6                          15
                             vv
clus                          R0 R1 R2 RX
  AMP PEAK 12(6Q12) CNV       18  2  1  2
  AMP PEAK 12(6Q12) WILD-TYPE 32  6  0  6
D12V6, multiclass
    clus
vv   AMP PEAK 12(6Q12) CNV AMP PEAK 12(6Q12) WILD-TYPE
  R0                    18                          32
  R1                     2                           6
  R2                     1                           0
  RX                     2                           6
D12V7, continuous
                             vv
clus                          STAGE I STAGE II STAGE IIIA STAGE IIIB STAGE IIIC
  AMP PEAK 12(6Q12) CNV            11        3          5          1          1
  AMP PEAK 12(6Q12) WILD-TYPE      18        9         11          3          0
                             vv
clus                          STAGE IVB
  AMP PEAK 12(6Q12) CNV               1
  AMP PEAK 12(6Q12) WILD-TYPE         0
D12V8, multiclass

Clustering(13) Variable = Amp Peak 13(7q21.2)
D13V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 13(7Q21.2) CNV       15  9
  AMP PEAK 13(7Q21.2) WILD-TYPE 25 17
      AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE 
                           24                            42 
      AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE 
                            9                            17 
$`AMP PEAK 13(7Q21.2) CNV`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10U TCGA-CC-A3MA TCGA-CC-A3MB 
       48.99        37.32        10.13        27.52         0.07         0.10 
TCGA-DD-A118 TCGA-DD-A11A TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EC TCGA-DD-A1EE 
       22.78         2.60        51.25        90.67        19.76         6.67 
TCGA-DD-A1EJ TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KC TCGA-EP-A3JL TCGA-ES-A2HS 
       29.16         3.62         3.65         0.62         3.19        22.85 
TCGA-FV-A2QR TCGA-G3-A25T TCGA-G3-A25V TCGA-G3-A25X TCGA-G3-A3CG TCGA-G3-A3CJ 
       19.07        38.63        14.27        44.68         8.32         4.47 

$`AMP PEAK 13(7Q21.2) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y 
       11.57        46.78        27.52         2.99        25.32        23.34 
TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KF 
        1.12        69.57         5.03        37.61        13.81         0.26 
TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A114 
        8.28         0.07         4.24         0.13        55.17        37.74 
TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A1EA 
       83.57        53.29         7.33         0.46        21.44        79.36 
TCGA-DD-A1EB TCGA-DD-A1ED TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EL TCGA-EP-A12J 
       66.31        53.52        34.06         6.02        13.64         4.24 
TCGA-EP-A2KB TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25U 
        1.97         0.43        14.40         0.13         1.22        40.47 
TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CK 
       12.82        14.86         8.84         6.31         5.88         0.89 

      AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE 
                         0.07                          0.07 
      AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE 
                        90.67                         83.57 
      AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE 
                       16.670                        12.195 
[1] "0.1 - 90.7 (16.7)" "0.1 - 83.6 (12.2)"
                   TCGA-BC-4072                    TCGA-BC-4073 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK 13(7Q21.2) CNV"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK 13(7Q21.2) CNV"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK 13(7Q21.2) CNV"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK 13(7Q21.2) CNV"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "AMP PEAK 13(7Q21.2) CNV"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "AMP PEAK 13(7Q21.2) CNV"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"AMP PEAK 13(7Q21.2) WILD-TYPE"       "AMP PEAK 13(7Q21.2) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"AMP PEAK 13(7Q21.2) WILD-TYPE" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "AMP PEAK 13(7Q21.2) CNV" "AMP PEAK 13(7Q21.2) WILD-TYPE" 
[1] "hr=" "1.2"
D13V2, continuous
D13V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(7Q21.2) CNV         11   16
  AMP PEAK 13(7Q21.2) WILD-TYPE   14   31
        clus
vv       AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE
  FEMALE                      11                            14
  MALE                        16                            31
                               vv
clus                            M0 M1 MX
  AMP PEAK 13(7Q21.2) CNV       18  0  9
  AMP PEAK 13(7Q21.2) WILD-TYPE 30  1 14
D13V4, multiclass
    clus
vv   AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE
  M0                      18                            30
  M1                       0                             1
  MX                       9                            14
                               vv
clus                            N0 N1 NX
  AMP PEAK 13(7Q21.2) CNV       19  1  7
  AMP PEAK 13(7Q21.2) WILD-TYPE 30  0 14
D13V5, multiclass
    clus
vv   AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE
  N0                      19                            30
  N1                       1                             0
  NX                       7                            14
                               vv
clus                            R0 R1 R2 RX
  AMP PEAK 13(7Q21.2) CNV       18  4  0  3
  AMP PEAK 13(7Q21.2) WILD-TYPE 32  4  1  5
D13V6, multiclass
    clus
vv   AMP PEAK 13(7Q21.2) CNV AMP PEAK 13(7Q21.2) WILD-TYPE
  R0                      18                            32
  R1                       4                             4
  R2                       0                             1
  RX                       3                             5
D13V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 13(7Q21.2) CNV            12        4          6          1
  AMP PEAK 13(7Q21.2) WILD-TYPE      17        8         10          3
                               vv
clus                            STAGE IIIC STAGE IVB
  AMP PEAK 13(7Q21.2) CNV                1         0
  AMP PEAK 13(7Q21.2) WILD-TYPE          0         1
D13V8, multiclass

Clustering(14) Variable = Amp Peak 14(8q11.21)
D14V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 14(8Q11.21) CNV       20 10
  AMP PEAK 14(8Q11.21) WILD-TYPE 20 16
      AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE 
                            30                             36 
      AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE 
                            10                             16 
$`AMP PEAK 14(8Q11.21) CNV`
TCGA-BC-4072 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A3KF TCGA-CC-5258 
       48.99        10.13        46.78        27.52         0.26         0.07 
TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11C 
        0.07         0.10         0.13         7.33         2.60        21.44 
TCGA-DD-A1E9 TCGA-DD-A1EC TCGA-DD-A1EE TCGA-DD-A1EI TCGA-DD-A1EL TCGA-EP-A12J 
       90.67        19.76         6.67         6.02        13.64         4.24 
TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS 
        3.65         1.97         0.62         3.19         0.43        22.85 
TCGA-ES-A2HT TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CJ 
       14.40        14.27        12.82         8.84         8.32         4.47 

$`AMP PEAK 14(8Q11.21) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10T TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y 
       11.57        37.32        27.52         2.99        25.32        23.34 
TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KG 
        1.12        69.57         5.03        37.61        13.81         8.28 
TCGA-CC-5263 TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 
        4.24        55.17        37.74        83.57        53.29        22.78 
TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1ED TCGA-DD-A1EH 
        0.46        51.25        79.36        66.31        53.52        34.06 
TCGA-DD-A1EJ TCGA-EP-A26S TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25T 
       29.16         3.62        19.07         0.13         1.22        38.63 
TCGA-G3-A25U TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CK 
       40.47        44.68        14.86         6.31         5.88         0.89 

      AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE 
                          0.07                           0.13 
      AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE 
                         90.67                          83.57 
      AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE 
                          7.00                          24.33 
[1] "0.1 - 90.7 (7.0)"  "0.1 - 83.6 (24.3)"
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 14(8Q11.21) WILD-TYPE"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 14(8Q11.21) CNV"       "AMP PEAK 14(8Q11.21) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 14(8Q11.21) WILD-TYPE" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 14(8Q11.21) CNV" "AMP PEAK 14(8Q11.21) WILD-TYPE" 
[1] "hr=" "1.5"
D14V2, continuous
D14V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 14(8Q11.21) CNV          7   25
  AMP PEAK 14(8Q11.21) WILD-TYPE   18   22
        clus
vv       AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE
  FEMALE                        7                             18
  MALE                         25                             22
                                vv
clus                             M0 M1 MX
  AMP PEAK 14(8Q11.21) CNV       20  1 11
  AMP PEAK 14(8Q11.21) WILD-TYPE 28  0 12
D14V4, multiclass
    clus
vv   AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE
  M0                       20                             28
  M1                        1                              0
  MX                       11                             12
                                vv
clus                             N0 N1 NX
  AMP PEAK 14(8Q11.21) CNV       20  0 12
  AMP PEAK 14(8Q11.21) WILD-TYPE 29  1  9
D14V5, multiclass
    clus
vv   AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE
  N0                       20                             29
  N1                        0                              1
  NX                       12                              9
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 14(8Q11.21) CNV       22  3  1  3
  AMP PEAK 14(8Q11.21) WILD-TYPE 28  5  0  5
D14V6, multiclass
    clus
vv   AMP PEAK 14(8Q11.21) CNV AMP PEAK 14(8Q11.21) WILD-TYPE
  R0                       22                             28
  R1                        3                              5
  R2                        1                              0
  RX                        3                              5
D14V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 14(8Q11.21) CNV            15        3          9          1
  AMP PEAK 14(8Q11.21) WILD-TYPE      14        9          7          3
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK 14(8Q11.21) CNV                0         1
  AMP PEAK 14(8Q11.21) WILD-TYPE          1         0
D14V8, multiclass

Clustering(15) Variable = Amp Peak 15(8q24.13)
D15V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 15(8Q24.13) CNV       26 12
  AMP PEAK 15(8Q24.13) WILD-TYPE 14 14
      AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE 
                            38                             28 
      AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE 
                            12                             14 
$`AMP PEAK 15(8Q24.13) CNV`
TCGA-BC-4072 TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A3KF 
       48.99        46.78        27.52        27.52         2.99         0.26 
TCGA-CC-5258 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A116 
        0.07         0.07         0.10         0.13        55.17        53.29 
TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11C TCGA-DD-A1E9 TCGA-DD-A1EC 
       22.78         7.33         2.60        21.44        90.67        19.76 
TCGA-DD-A1EE TCGA-DD-A1EI TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A2KA TCGA-EP-A2KB 
        6.67         6.02        13.64         4.24         3.65         1.97 
TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-G3-A25T 
        0.62         3.19         0.43        22.85        14.40        38.63 
TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Z TCGA-G3-A3CG 
       40.47        14.27        12.82        44.68         8.84         8.32 
TCGA-G3-A3CH TCGA-G3-A3CJ 
        6.31         4.47 

$`AMP PEAK 15(8Q24.13) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z 
       11.57        37.32        10.13        25.32        23.34         1.12 
TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-5263 
       69.57         5.03        37.61        13.81         8.28         4.24 
TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1EA TCGA-DD-A1EB 
       37.74        83.57         0.46        51.25        79.36        66.31 
TCGA-DD-A1ED TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-EP-A26S TCGA-FV-A2QR TCGA-FV-A3R3 
       53.52        34.06        29.16         3.62        19.07         0.13 
TCGA-G3-A25S TCGA-G3-A25Y TCGA-G3-A3CI TCGA-G3-A3CK 
        1.22        14.86         5.88         0.89 

      AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE 
                          0.07                           0.13 
      AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE 
                         90.67                          83.57 
      AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE 
                         8.580                         16.965 
[1] "0.1 - 90.7 (8.6)"  "0.1 - 83.6 (17.0)"
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 15(8Q24.13) WILD-TYPE"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 15(8Q24.13) WILD-TYPE" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 15(8Q24.13) CNV"       "AMP PEAK 15(8Q24.13) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 15(8Q24.13) CNV" "AMP PEAK 15(8Q24.13) WILD-TYPE" 
[1] "hr=" "1.2"
D15V2, continuous
D15V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 15(8Q24.13) CNV         11   32
  AMP PEAK 15(8Q24.13) WILD-TYPE   14   15
        clus
vv       AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE
  FEMALE                       11                             14
  MALE                         32                             15
                                vv
clus                             M0 M1 MX
  AMP PEAK 15(8Q24.13) CNV       29  1 13
  AMP PEAK 15(8Q24.13) WILD-TYPE 19  0 10
D15V4, multiclass
    clus
vv   AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE
  M0                       29                             19
  M1                        1                              0
  MX                       13                             10
                                vv
clus                             N0 N1 NX
  AMP PEAK 15(8Q24.13) CNV       30  0 13
  AMP PEAK 15(8Q24.13) WILD-TYPE 19  1  8
D15V5, multiclass
    clus
vv   AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE
  N0                       30                             19
  N1                        0                              1
  NX                       13                              8
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 15(8Q24.13) CNV       29  5  1  4
  AMP PEAK 15(8Q24.13) WILD-TYPE 21  3  0  4
D15V6, multiclass
    clus
vv   AMP PEAK 15(8Q24.13) CNV AMP PEAK 15(8Q24.13) WILD-TYPE
  R0                       29                             21
  R1                        5                              3
  R2                        1                              0
  RX                        4                              4
D15V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 15(8Q24.13) CNV            17        8         11          2
  AMP PEAK 15(8Q24.13) WILD-TYPE      12        4          5          2
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK 15(8Q24.13) CNV                0         1
  AMP PEAK 15(8Q24.13) WILD-TYPE          1         0
D15V8, multiclass

Clustering(16) Variable = Amp Peak 16(10p15.1)
D16V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 16(10P15.1) CNV        7  6
  AMP PEAK 16(10P15.1) WILD-TYPE 33 20
      AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE 
                            13                             53 
      AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE 
                             6                             20 
$`AMP PEAK 16(10P15.1) CNV`
TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A217 TCGA-CC-A3MA TCGA-CC-A3MB 
       37.32        10.13        27.52        13.81         0.07         0.10 
TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A1EL TCGA-EP-A2KA TCGA-EP-A2KB TCGA-ES-A2HS 
       55.17        37.74        13.64         3.65         1.97        22.85 
TCGA-G3-A25X 
       44.68 

$`AMP PEAK 16(10P15.1) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10X 
       48.99        11.57        46.78        27.52         2.99        25.32 
TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A3KF 
       23.34         1.12        69.57         5.03        37.61         0.26 
TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MC TCGA-DD-A115 TCGA-DD-A116 
        8.28         0.07         4.24         0.13        83.57        53.29 
TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D 
       22.78         7.33         2.60         0.46        21.44        51.25 
TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE 
       90.67        79.36        66.31        19.76        53.52         6.67 
TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KC 
       34.06         6.02        29.16         4.24         3.62         0.62 
TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S 
        3.19         0.43        14.40        19.07         0.13         1.22 
TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z 
       38.63        40.47        14.27        12.82        14.86         8.84 
TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.32         6.31         5.88         4.47         0.89 

      AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE 
                          0.07                           0.07 
      AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE 
                         55.17                          90.67 
      AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE 
                         13.81                          11.57 
[1] "0.1 - 55.2 (13.8)" "0.1 - 90.7 (11.6)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 16(10P15.1) CNV"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 16(10P15.1) CNV" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 16(10P15.1) CNV" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "AMP PEAK 16(10P15.1) CNV"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 16(10P15.1) CNV"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 16(10P15.1) CNV" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 16(10P15.1) CNV"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 16(10P15.1) CNV" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 16(10P15.1) CNV" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "AMP PEAK 16(10P15.1) CNV"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 16(10P15.1) CNV"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 16(10P15.1) CNV" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 16(10P15.1) CNV"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 16(10P15.1) CNV" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 16(10P15.1) CNV" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "AMP PEAK 16(10P15.1) CNV"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 16(10P15.1) CNV"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 16(10P15.1) WILD-TYPE"       "AMP PEAK 16(10P15.1) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 16(10P15.1) CNV" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 16(10P15.1) WILD-TYPE" "AMP PEAK 16(10P15.1) WILD-TYPE" 
[1] "hr=" "1.5"
D16V2, continuous
D16V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(10P15.1) CNV          6    8
  AMP PEAK 16(10P15.1) WILD-TYPE   19   39
        clus
vv       AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE
  FEMALE                        6                             19
  MALE                          8                             39
                                vv
clus                             M0 M1 MX
  AMP PEAK 16(10P15.1) CNV        8  0  6
  AMP PEAK 16(10P15.1) WILD-TYPE 40  1 17
D16V4, multiclass
    clus
vv   AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE
  M0                        8                             40
  M1                        0                              1
  MX                        6                             17
                                vv
clus                             N0 N1 NX
  AMP PEAK 16(10P15.1) CNV        6  0  7
  AMP PEAK 16(10P15.1) WILD-TYPE 43  1 14
D16V5, multiclass
    clus
vv   AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE
  N0                        6                             43
  N1                        0                              1
  NX                        7                             14
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 16(10P15.1) CNV       11  2  0  1
  AMP PEAK 16(10P15.1) WILD-TYPE 39  6  1  7
D16V6, multiclass
    clus
vv   AMP PEAK 16(10P15.1) CNV AMP PEAK 16(10P15.1) WILD-TYPE
  R0                       11                             39
  R1                        2                              6
  R2                        0                              1
  RX                        1                              7
D16V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 16(10P15.1) CNV             2        5          4          0
  AMP PEAK 16(10P15.1) WILD-TYPE      27        7         12          4
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK 16(10P15.1) CNV                0         0
  AMP PEAK 16(10P15.1) WILD-TYPE          1         1
D16V8, multiclass

Clustering(17) Variable = Amp Peak 17(11q13.3)
D17V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 17(11Q13.3) CNV        8  3
  AMP PEAK 17(11Q13.3) WILD-TYPE 32 23
      AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE 
                            11                             55 
      AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE 
                             3                             23 
$`AMP PEAK 17(11Q13.3) CNV`
TCGA-BC-4073 TCGA-BC-A10T TCGA-CC-A3MB TCGA-DD-A115 TCGA-DD-A119 TCGA-DD-A11A 
       11.57        27.52         0.10        83.57         7.33         2.60 
TCGA-DD-A1EB TCGA-EP-A2KA TCGA-G3-A25S TCGA-G3-A25W TCGA-G3-A3CG 
       66.31         3.65         1.22        12.82         8.32 

$`AMP PEAK 17(11Q13.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W 
       48.99        37.32        10.13        46.78        27.52         2.99 
TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 
       25.32        23.34         1.12        69.57         5.03        37.61 
TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MA 
       13.81         0.26         8.28         0.07         4.24         0.07 
TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A11B 
        0.13        55.17        37.74        53.29        22.78         0.46 
TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EC TCGA-DD-A1ED 
       21.44        51.25        90.67        79.36        19.76        53.52 
TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J 
        6.67        34.06         6.02        29.16        13.64         4.24 
TCGA-EP-A26S TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS 
        3.62         1.97         0.62         3.19         0.43        22.85 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V 
       14.40        19.07         0.13        38.63        40.47        14.27 
TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ 
       44.68        14.86         8.84         6.31         5.88         4.47 
TCGA-G3-A3CK 
        0.89 

      AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE 
                          0.10                           0.07 
      AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE 
                         83.57                          90.67 
      AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE 
                          8.32                          14.27 
[1] "0.1 - 83.6 (8.3)"  "0.1 - 90.7 (14.3)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 17(11Q13.3) CNV" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 17(11Q13.3) WILD-TYPE"       "AMP PEAK 17(11Q13.3) CNV" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 17(11Q13.3) WILD-TYPE" "AMP PEAK 17(11Q13.3) WILD-TYPE" 
[1] "hr=" "1.5"
D17V2, continuous
D17V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(11Q13.3) CNV          3    9
  AMP PEAK 17(11Q13.3) WILD-TYPE   22   38
        clus
vv       AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE
  FEMALE                        3                             22
  MALE                          9                             38
                                vv
clus                             M0 M1 MX
  AMP PEAK 17(11Q13.3) CNV        8  1  3
  AMP PEAK 17(11Q13.3) WILD-TYPE 40  0 20
D17V4, multiclass
    clus
vv   AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE
  M0                        8                             40
  M1                        1                              0
  MX                        3                             20
                                vv
clus                             N0 N1 NX
  AMP PEAK 17(11Q13.3) CNV       10  0  2
  AMP PEAK 17(11Q13.3) WILD-TYPE 39  1 19
D17V5, multiclass
    clus
vv   AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE
  N0                       10                             39
  N1                        0                              1
  NX                        2                             19
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 17(11Q13.3) CNV        6  4  1  1
  AMP PEAK 17(11Q13.3) WILD-TYPE 44  4  0  7
D17V6, multiclass
    clus
vv   AMP PEAK 17(11Q13.3) CNV AMP PEAK 17(11Q13.3) WILD-TYPE
  R0                        6                             44
  R1                        4                              4
  R2                        1                              0
  RX                        1                              7
D17V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 17(11Q13.3) CNV             4        0          5          1
  AMP PEAK 17(11Q13.3) WILD-TYPE      25       12         11          3
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK 17(11Q13.3) CNV                0         1
  AMP PEAK 17(11Q13.3) WILD-TYPE          1         0
D17V8, multiclass

Clustering(18) Variable = Amp Peak 18(12q23.1)
D18V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 18(12Q23.1) CNV        9  3
  AMP PEAK 18(12Q23.1) WILD-TYPE 31 23
      AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE 
                            12                             54 
      AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE 
                             3                             23 
$`AMP PEAK 18(12Q23.1) CNV`
TCGA-BC-A10T TCGA-BC-A216 TCGA-BC-A3KF TCGA-DD-A116 TCGA-DD-A119 TCGA-DD-A11A 
       27.52        37.61         0.26        53.29         7.33         2.60 
TCGA-DD-A11C TCGA-DD-A1EJ TCGA-EP-A2KA TCGA-EP-A3JL TCGA-G3-A25T TCGA-G3-A25X 
       21.44        29.16         3.65         3.19        38.63        44.68 

$`AMP PEAK 18(12Q23.1) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10U 
       48.99        11.57        37.32        10.13        46.78        27.52 
TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 
        2.99        25.32        23.34         1.12        69.57         5.03 
TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB 
       13.81         8.28         0.07         4.24         0.07         0.10 
TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A118 TCGA-DD-A11B 
        0.13        55.17        37.74        83.57        22.78         0.46 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED 
       51.25        90.67        79.36        66.31        19.76        53.52 
TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S 
        6.67        34.06         6.02        13.64         4.24         3.62 
TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR 
        1.97         0.62         0.43        22.85        14.40        19.07 
TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Y 
        0.13         1.22        40.47        14.27        12.82        14.86 
TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.84         8.32         6.31         5.88         4.47         0.89 

      AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE 
                          0.26                           0.07 
      AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE 
                         53.29                          90.67 
      AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE 
                        24.480                         12.195 
[1] "0.3 - 53.3 (24.5)" "0.1 - 90.7 (12.2)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 18(12Q23.1) WILD-TYPE"       "AMP PEAK 18(12Q23.1) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 18(12Q23.1) CNV" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 18(12Q23.1) WILD-TYPE" "AMP PEAK 18(12Q23.1) WILD-TYPE" 
[1] "hr=" "1.7"
D18V2, continuous
D18V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(12Q23.1) CNV          5    8
  AMP PEAK 18(12Q23.1) WILD-TYPE   20   39
        clus
vv       AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE
  FEMALE                        5                             20
  MALE                          8                             39
                                vv
clus                             M0 M1 MX
  AMP PEAK 18(12Q23.1) CNV        9  1  3
  AMP PEAK 18(12Q23.1) WILD-TYPE 39  0 20
D18V4, multiclass
    clus
vv   AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE
  M0                        9                             39
  M1                        1                              0
  MX                        3                             20
                                vv
clus                             N0 N1 NX
  AMP PEAK 18(12Q23.1) CNV        7  1  5
  AMP PEAK 18(12Q23.1) WILD-TYPE 42  0 16
D18V5, multiclass
    clus
vv   AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE
  N0                        7                             42
  N1                        1                              0
  NX                        5                             16
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 18(12Q23.1) CNV        8  1  1  2
  AMP PEAK 18(12Q23.1) WILD-TYPE 42  7  0  6
D18V6, multiclass
    clus
vv   AMP PEAK 18(12Q23.1) CNV AMP PEAK 18(12Q23.1) WILD-TYPE
  R0                        8                             42
  R1                        1                              7
  R2                        1                              0
  RX                        2                              6
D18V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 18(12Q23.1) CNV             4        2          4          0
  AMP PEAK 18(12Q23.1) WILD-TYPE      25       10         12          4
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK 18(12Q23.1) CNV                1         1
  AMP PEAK 18(12Q23.1) WILD-TYPE          0         0
D18V8, multiclass

Clustering(19) Variable = Amp Peak 19(13q32.3)
D19V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 19(13Q32.3) CNV       10  4
  AMP PEAK 19(13Q32.3) WILD-TYPE 30 22
      AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE 
                            14                             52 
      AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE 
                             4                             22 
$`AMP PEAK 19(13Q32.3) CNV`
TCGA-BC-A10W TCGA-BC-A10Z TCGA-BC-A216 TCGA-BC-A3KF TCGA-CC-5258 TCGA-CC-5263 
        2.99         1.12        37.61         0.26         0.07         4.24 
TCGA-CC-A3MA TCGA-DD-A113 TCGA-DD-A11A TCGA-DD-A11C TCGA-DD-A1EJ TCGA-DD-A1EL 
        0.07        55.17         2.60        21.44        29.16        13.64 
TCGA-EP-A2KA TCGA-EP-A3JL 
        3.65         3.19 

$`AMP PEAK 19(13Q32.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T 
       48.99        11.57        37.32        10.13        46.78        27.52 
TCGA-BC-A10U TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A217 
       27.52        25.32        23.34        69.57         5.03        13.81 
TCGA-BC-A3KG TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 
        8.28         0.10         0.13        37.74        83.57        53.29 
TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA 
       22.78         7.33         0.46        51.25        90.67        79.36 
TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI 
       66.31        19.76        53.52         6.67        34.06         6.02 
TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3RK TCGA-ES-A2HS 
        4.24         3.62         1.97         0.62         0.43        22.85 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25U 
       14.40        19.07         0.13         1.22        38.63        40.47 
TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG 
       14.27        12.82        44.68        14.86         8.84         8.32 
TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        6.31         5.88         4.47         0.89 

      AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE 
                          0.07                           0.10 
      AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE 
                         55.17                          90.67 
      AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE 
                         3.420                         14.335 
[1] "0.1 - 55.2 (3.4)"  "0.1 - 90.7 (14.3)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 19(13Q32.3) CNV"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 19(13Q32.3) CNV"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 19(13Q32.3) CNV"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 19(13Q32.3) CNV"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 19(13Q32.3) CNV"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 19(13Q32.3) CNV"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 19(13Q32.3) CNV" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 19(13Q32.3) WILD-TYPE"       "AMP PEAK 19(13Q32.3) CNV" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 19(13Q32.3) WILD-TYPE" "AMP PEAK 19(13Q32.3) WILD-TYPE" 
[1] "hr=" "1.4"
D19V2, continuous
D19V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 19(13Q32.3) CNV          6    9
  AMP PEAK 19(13Q32.3) WILD-TYPE   19   38
        clus
vv       AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE
  FEMALE                        6                             19
  MALE                          9                             38
                                vv
clus                             M0 M1 MX
  AMP PEAK 19(13Q32.3) CNV       11  0  4
  AMP PEAK 19(13Q32.3) WILD-TYPE 37  1 19
D19V4, multiclass
    clus
vv   AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE
  M0                       11                             37
  M1                        0                              1
  MX                        4                             19
                                vv
clus                             N0 N1 NX
  AMP PEAK 19(13Q32.3) CNV        9  1  5
  AMP PEAK 19(13Q32.3) WILD-TYPE 40  0 16
D19V5, multiclass
    clus
vv   AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE
  N0                        9                             40
  N1                        1                              0
  NX                        5                             16
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 19(13Q32.3) CNV        9  1  0  4
  AMP PEAK 19(13Q32.3) WILD-TYPE 41  7  1  4
D19V6, multiclass
    clus
vv   AMP PEAK 19(13Q32.3) CNV AMP PEAK 19(13Q32.3) WILD-TYPE
  R0                        9                             41
  R1                        1                              7
  R2                        0                              1
  RX                        4                              4
D19V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 19(13Q32.3) CNV             5        4          4          0
  AMP PEAK 19(13Q32.3) WILD-TYPE      24        8         12          4
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK 19(13Q32.3) CNV                1         0
  AMP PEAK 19(13Q32.3) WILD-TYPE          0         1
D19V8, multiclass

Clustering(20) Variable = Amp Peak 20(15q26.3)
D20V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 20(15Q26.3) CNV        6  5
  AMP PEAK 20(15Q26.3) WILD-TYPE 34 21
      AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE 
                            11                             55 
      AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE 
                             5                             21 
$`AMP PEAK 20(15Q26.3) CNV`
TCGA-BC-A10Q TCGA-BC-A10Y TCGA-BC-A217 TCGA-BC-A3KF TCGA-CC-5263 TCGA-DD-A11A 
       37.32        23.34        13.81         0.26         4.24         2.60 
TCGA-EP-A2KA TCGA-ES-A2HS TCGA-G3-A25T TCGA-G3-A25Y TCGA-G3-A3CH 
        3.65        22.85        38.63        14.86         6.31 

$`AMP PEAK 20(15Q26.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U 
       48.99        11.57        10.13        46.78        27.52        27.52 
TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 
        2.99        25.32         1.12        69.57         5.03        37.61 
TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A113 
        8.28         0.07         0.07         0.10         0.13        55.17 
TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11B 
       37.74        83.57        53.29        22.78         7.33         0.46 
TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC 
       21.44        51.25        90.67        79.36        66.31        19.76 
TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL 
       53.52         6.67        34.06         6.02        29.16        13.64 
TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK 
        4.24         3.62         1.97         0.62         3.19         0.43 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25U TCGA-G3-A25V 
       14.40        19.07         0.13         1.22        40.47        14.27 
TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CI TCGA-G3-A3CJ 
       12.82        44.68         8.84         8.32         5.88         4.47 
TCGA-G3-A3CK 
        0.89 

      AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE 
                          0.26                           0.07 
      AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE 
                         38.63                          90.67 
      AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE 
                         13.81                          12.82 
[1] "0.3 - 38.6 (13.8)" "0.1 - 90.7 (12.8)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 20(15Q26.3) WILD-TYPE"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 20(15Q26.3) CNV"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 20(15Q26.3) WILD-TYPE"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 20(15Q26.3) WILD-TYPE"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 20(15Q26.3) WILD-TYPE"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 20(15Q26.3) CNV"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 20(15Q26.3) WILD-TYPE"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 20(15Q26.3) WILD-TYPE"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 20(15Q26.3) WILD-TYPE"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 20(15Q26.3) CNV"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 20(15Q26.3) WILD-TYPE"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 20(15Q26.3) WILD-TYPE"       "AMP PEAK 20(15Q26.3) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "AMP PEAK 20(15Q26.3) CNV" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 20(15Q26.3) WILD-TYPE" "AMP PEAK 20(15Q26.3) WILD-TYPE" 
[1] "hr=" "2.1"
D20V2, continuous
D20V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(15Q26.3) CNV          6    6
  AMP PEAK 20(15Q26.3) WILD-TYPE   19   41
        clus
vv       AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE
  FEMALE                        6                             19
  MALE                          6                             41
                                vv
clus                             M0 M1 MX
  AMP PEAK 20(15Q26.3) CNV        8  0  4
  AMP PEAK 20(15Q26.3) WILD-TYPE 40  1 19
D20V4, multiclass
    clus
vv   AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE
  M0                        8                             40
  M1                        0                              1
  MX                        4                             19
                                vv
clus                             N0 N1 NX
  AMP PEAK 20(15Q26.3) CNV        6  0  6
  AMP PEAK 20(15Q26.3) WILD-TYPE 43  1 15
D20V5, multiclass
    clus
vv   AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE
  N0                        6                             43
  N1                        0                              1
  NX                        6                             15
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 20(15Q26.3) CNV        9  1  0  1
  AMP PEAK 20(15Q26.3) WILD-TYPE 41  7  1  7
D20V6, multiclass
    clus
vv   AMP PEAK 20(15Q26.3) CNV AMP PEAK 20(15Q26.3) WILD-TYPE
  R0                        9                             41
  R1                        1                              7
  R2                        0                              1
  RX                        1                              7
D20V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 20(15Q26.3) CNV             4        2          3          1
  AMP PEAK 20(15Q26.3) WILD-TYPE      25       10         13          3
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK 20(15Q26.3) CNV                0         0
  AMP PEAK 20(15Q26.3) WILD-TYPE          1         1
D20V8, multiclass

Clustering(21) Variable = Amp Peak 21(17p11.2)
D21V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 21(17P11.2) CNV        5  4
  AMP PEAK 21(17P11.2) WILD-TYPE 35 22
      AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE 
                             9                             57 
      AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE 
                             4                             22 
$`AMP PEAK 21(17P11.2) CNV`
TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A3KF TCGA-DD-A115 TCGA-DD-A119 TCGA-DD-A11A 
       11.57        37.32         0.26        83.57         7.33         2.60 
TCGA-EP-A2KA TCGA-EP-A2KB TCGA-ES-A2HS 
        3.65         1.97        22.85 

$`AMP PEAK 21(17P11.2) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10W 
       48.99        10.13        46.78        27.52        27.52         2.99 
TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 
       25.32        23.34         1.12        69.57         5.03        37.61 
TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB 
       13.81         8.28         0.07         4.24         0.07         0.10 
TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A11B 
        0.13        55.17        37.74        53.29        22.78         0.46 
TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC 
       21.44        51.25        90.67        79.36        66.31        19.76 
TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL 
       53.52         6.67        34.06         6.02        29.16        13.64 
TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HT 
        4.24         3.62         0.62         3.19         0.43        14.40 
TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V 
       19.07         0.13         1.22        38.63        40.47        14.27 
TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH 
       12.82        44.68        14.86         8.84         8.32         6.31 
TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        5.88         4.47         0.89 

      AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE 
                          0.26                           0.07 
      AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE 
                         83.57                          90.67 
      AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE 
                          7.33                          13.81 
[1] "0.3 - 83.6 (7.3)"  "0.1 - 90.7 (13.8)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 21(17P11.2) CNV" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 21(17P11.2) CNV" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 21(17P11.2) CNV" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 21(17P11.2) CNV"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 21(17P11.2) CNV" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 21(17P11.2) CNV" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 21(17P11.2) CNV" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 21(17P11.2) CNV"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 21(17P11.2) CNV" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 21(17P11.2) CNV" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 21(17P11.2) CNV" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 21(17P11.2) CNV"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 21(17P11.2) WILD-TYPE"       "AMP PEAK 21(17P11.2) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"AMP PEAK 21(17P11.2) WILD-TYPE" "AMP PEAK 21(17P11.2) WILD-TYPE" 
[1] "hr=" "1.3"
D21V2, continuous
D21V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(17P11.2) CNV          5    6
  AMP PEAK 21(17P11.2) WILD-TYPE   20   41
        clus
vv       AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE
  FEMALE                        5                             20
  MALE                          6                             41
                                vv
clus                             M0 M1 MX
  AMP PEAK 21(17P11.2) CNV        5  1  5
  AMP PEAK 21(17P11.2) WILD-TYPE 43  0 18
D21V4, multiclass
    clus
vv   AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE
  M0                        5                             43
  M1                        1                              0
  MX                        5                             18
                                vv
clus                             N0 N1 NX
  AMP PEAK 21(17P11.2) CNV        6  0  5
  AMP PEAK 21(17P11.2) WILD-TYPE 43  1 16
D21V5, multiclass
    clus
vv   AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE
  N0                        6                             43
  N1                        0                              1
  NX                        5                             16
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 21(17P11.2) CNV        6  2  1  2
  AMP PEAK 21(17P11.2) WILD-TYPE 44  6  0  6
D21V6, multiclass
    clus
vv   AMP PEAK 21(17P11.2) CNV AMP PEAK 21(17P11.2) WILD-TYPE
  R0                        6                             44
  R1                        2                              6
  R2                        1                              0
  RX                        2                              6
D21V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 21(17P11.2) CNV             4        0          4          1
  AMP PEAK 21(17P11.2) WILD-TYPE      25       12         12          3
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK 21(17P11.2) CNV                0         1
  AMP PEAK 21(17P11.2) WILD-TYPE          1         0
D21V8, multiclass

Clustering(22) Variable = Amp Peak 22(17q23.1)
D22V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 22(17Q23.1) CNV       17 14
  AMP PEAK 22(17Q23.1) WILD-TYPE 23 12
      AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE 
                            31                             35 
      AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE 
                            14                             12 
$`AMP PEAK 22(17Q23.1) CNV`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10Y TCGA-BC-A10Z 
       48.99        37.32        27.52         2.99        23.34         1.12 
TCGA-BC-A112 TCGA-BC-A217 TCGA-CC-5263 TCGA-CC-A3MC TCGA-DD-A114 TCGA-DD-A115 
        5.03        13.81         4.24         0.13        37.74        83.57 
TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EI TCGA-DD-A1EJ 
        7.33         2.60        79.36        66.31         6.02        29.16 
TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC TCGA-ES-A2HS TCGA-FV-A2QR TCGA-G3-A25S 
        3.65         1.97         0.62        22.85        19.07         1.22 
TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Z TCGA-G3-A3CJ 
       38.63        40.47        12.82        44.68         8.84         4.47 
TCGA-G3-A3CK 
        0.89 

$`AMP PEAK 22(17Q23.1) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10X TCGA-BC-A110 
       11.57        10.13        46.78        27.52        25.32        69.57 
TCGA-BC-A216 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-A3MA TCGA-CC-A3MB 
       37.61         0.26         8.28         0.07         0.07         0.10 
TCGA-DD-A113 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D 
       55.17        53.29        22.78         0.46        21.44        51.25 
TCGA-DD-A1E9 TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EL 
       90.67        19.76        53.52         6.67        34.06        13.64 
TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A3R3 
        4.24         3.62         3.19         0.43        14.40         0.13 
TCGA-G3-A25V TCGA-G3-A25Y TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI 
       14.27        14.86         8.32         6.31         5.88 

      AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE 
                          0.13                           0.07 
      AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE 
                         83.57                          90.67 
      AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE 
                         12.82                          13.64 
[1] "0.1 - 83.6 (12.8)" "0.1 - 90.7 (13.6)"
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 22(17Q23.1) WILD-TYPE"       "AMP PEAK 22(17Q23.1) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 22(17Q23.1) CNV" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 22(17Q23.1) WILD-TYPE" "AMP PEAK 22(17Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 22(17Q23.1) CNV"       "AMP PEAK 22(17Q23.1) CNV" 
[1] "hr=" "1.4"
D22V2, continuous
D22V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(17Q23.1) CNV         12   22
  AMP PEAK 22(17Q23.1) WILD-TYPE   13   25
        clus
vv       AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE
  FEMALE                       12                             13
  MALE                         22                             25
                                vv
clus                             M0 M1 MX
  AMP PEAK 22(17Q23.1) CNV       23  1 10
  AMP PEAK 22(17Q23.1) WILD-TYPE 25  0 13
D22V4, multiclass
    clus
vv   AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE
  M0                       23                             25
  M1                        1                              0
  MX                       10                             13
                                vv
clus                             N0 N1 NX
  AMP PEAK 22(17Q23.1) CNV       22  1 10
  AMP PEAK 22(17Q23.1) WILD-TYPE 27  0 11
D22V5, multiclass
    clus
vv   AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE
  N0                       22                             27
  N1                        1                              0
  NX                       10                             11
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 22(17Q23.1) CNV       23  5  1  5
  AMP PEAK 22(17Q23.1) WILD-TYPE 27  3  0  3
D22V6, multiclass
    clus
vv   AMP PEAK 22(17Q23.1) CNV AMP PEAK 22(17Q23.1) WILD-TYPE
  R0                       23                             27
  R1                        5                              3
  R2                        1                              0
  RX                        5                              3
D22V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 22(17Q23.1) CNV            12        7          6          2
  AMP PEAK 22(17Q23.1) WILD-TYPE      17        5         10          2
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK 22(17Q23.1) CNV                1         1
  AMP PEAK 22(17Q23.1) WILD-TYPE          0         0
D22V8, multiclass

Clustering(23) Variable = Amp Peak 23(17q25.3)
D23V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 23(17Q25.3) CNV       17 16
  AMP PEAK 23(17Q25.3) WILD-TYPE 23 10
      AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE 
                            33                             33 
      AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE 
                            16                             10 
$`AMP PEAK 23(17Q25.3) CNV`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10Y 
       48.99        37.32        27.52        27.52         2.99        23.34 
TCGA-BC-A10Z TCGA-BC-A112 TCGA-BC-A217 TCGA-CC-5263 TCGA-CC-A3MB TCGA-CC-A3MC 
        1.12         5.03        13.81         4.24         0.10         0.13 
TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11C 
       37.74        83.57        53.29         7.33         2.60        21.44 
TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-EP-A2KB TCGA-EP-A2KC 
       79.36        66.31         6.02        29.16         1.97         0.62 
TCGA-ES-A2HS TCGA-FV-A2QR TCGA-G3-A25S TCGA-G3-A25U TCGA-G3-A25W TCGA-G3-A25X 
       22.85        19.07         1.22        40.47        12.82        44.68 
TCGA-G3-A25Z TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.84         4.47         0.89 

$`AMP PEAK 23(17Q25.3) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10X TCGA-BC-A110 TCGA-BC-A216 
       11.57        10.13        46.78        25.32        69.57        37.61 
TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-A3MA TCGA-DD-A113 TCGA-DD-A118 
        0.26         8.28         0.07         0.07        55.17        22.78 
TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE 
        0.46        51.25        90.67        19.76        53.52         6.67 
TCGA-DD-A1EH TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A3JL 
       34.06        13.64         4.24         3.62         3.65         3.19 
TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25V TCGA-G3-A25Y 
        0.43        14.40         0.13        38.63        14.27        14.86 
TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI 
        8.32         6.31         5.88 

      AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE 
                          0.10                           0.07 
      AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE 
                         83.57                          90.67 
      AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE 
                         13.81                          11.57 
[1] "0.1 - 83.6 (13.8)" "0.1 - 90.7 (11.6)"
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-4072                     TCGA-BC-4073 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"AMP PEAK 23(17Q25.3) WILD-TYPE"       "AMP PEAK 23(17Q25.3) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "AMP PEAK 23(17Q25.3) CNV" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"AMP PEAK 23(17Q25.3) WILD-TYPE" "AMP PEAK 23(17Q25.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
      "AMP PEAK 23(17Q25.3) CNV"       "AMP PEAK 23(17Q25.3) CNV" 
[1] "hr=" "1.6"
D23V2, continuous
D23V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 23(17Q25.3) CNV         10   26
  AMP PEAK 23(17Q25.3) WILD-TYPE   15   21
        clus
vv       AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE
  FEMALE                       10                             15
  MALE                         26                             21
                                vv
clus                             M0 M1 MX
  AMP PEAK 23(17Q25.3) CNV       25  1 10
  AMP PEAK 23(17Q25.3) WILD-TYPE 23  0 13
D23V4, multiclass
    clus
vv   AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE
  M0                       25                             23
  M1                        1                              0
  MX                       10                             13
                                vv
clus                             N0 N1 NX
  AMP PEAK 23(17Q25.3) CNV       24  1 10
  AMP PEAK 23(17Q25.3) WILD-TYPE 25  0 11
D23V5, multiclass
    clus
vv   AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE
  N0                       24                             25
  N1                        1                              0
  NX                       10                             11
                                vv
clus                             R0 R1 R2 RX
  AMP PEAK 23(17Q25.3) CNV       23  6  1  6
  AMP PEAK 23(17Q25.3) WILD-TYPE 27  2  0  2
D23V6, multiclass
    clus
vv   AMP PEAK 23(17Q25.3) CNV AMP PEAK 23(17Q25.3) WILD-TYPE
  R0                       23                             27
  R1                        6                              2
  R2                        1                              0
  RX                        6                              2
D23V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 23(17Q25.3) CNV            13        6          7          2
  AMP PEAK 23(17Q25.3) WILD-TYPE      16        6          9          2
                                vv
clus                             STAGE IIIC STAGE IVB
  AMP PEAK 23(17Q25.3) CNV                1         1
  AMP PEAK 23(17Q25.3) WILD-TYPE          0         0
D23V8, multiclass

Clustering(24) Variable = Amp Peak 24(19p13.12)
D24V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 24(19P13.12) CNV        9  7
  AMP PEAK 24(19P13.12) WILD-TYPE 31 19
      AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE 
                             16                              50 
      AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE 
                              7                              19 
$`AMP PEAK 24(19P13.12) CNV`
TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A112 TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A118 
       37.32        10.13         5.03         0.13        55.17        22.78 
TCGA-DD-A119 TCGA-DD-A1E9 TCGA-DD-A1EC TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC 
        7.33        90.67        19.76         3.65         1.97         0.62 
TCGA-EP-A3JL TCGA-ES-A2HS TCGA-G3-A25T TCGA-G3-A25X 
        3.19        22.85        38.63        44.68 

$`AMP PEAK 24(19P13.12) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10W 
       48.99        11.57        46.78        27.52        27.52         2.99 
TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A216 TCGA-BC-A217 
       25.32        23.34         1.12        69.57        37.61        13.81 
TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB 
        0.26         8.28         0.07         4.24         0.07         0.10 
TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11C 
       37.74        83.57        53.29         2.60         0.46        21.44 
TCGA-DD-A11D TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH 
       51.25        79.36        66.31        53.52         6.67        34.06 
TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A3RK 
        6.02        29.16        13.64         4.24         3.62         0.43 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25U TCGA-G3-A25V 
       14.40        19.07         0.13         1.22        40.47        14.27 
TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI 
       12.82        14.86         8.84         8.32         6.31         5.88 
TCGA-G3-A3CJ TCGA-G3-A3CK 
        4.47         0.89 

      AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE 
                           0.13                            0.07 
      AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE 
                          90.67                           83.57 
      AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE 
                         14.945                          13.230 
[1] "0.1 - 90.7 (14.9)" "0.1 - 83.6 (13.2)"
                     TCGA-BC-4072                      TCGA-BC-4073 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"AMP PEAK 24(19P13.12) WILD-TYPE"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"AMP PEAK 24(19P13.12) WILD-TYPE"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"AMP PEAK 24(19P13.12) WILD-TYPE"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"AMP PEAK 24(19P13.12) WILD-TYPE"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"AMP PEAK 24(19P13.12) WILD-TYPE"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"AMP PEAK 24(19P13.12) WILD-TYPE"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"AMP PEAK 24(19P13.12) WILD-TYPE"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"AMP PEAK 24(19P13.12) WILD-TYPE"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
      "AMP PEAK 24(19P13.12) CNV"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"AMP PEAK 24(19P13.12) WILD-TYPE"       "AMP PEAK 24(19P13.12) CNV" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "AMP PEAK 24(19P13.12) CNV" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"AMP PEAK 24(19P13.12) WILD-TYPE" "AMP PEAK 24(19P13.12) WILD-TYPE" 
[1] "hr=" "1.1"
D24V2, continuous
D24V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 24(19P13.12) CNV          9    9
  AMP PEAK 24(19P13.12) WILD-TYPE   16   38
        clus
vv       AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE
  FEMALE                         9                              16
  MALE                           9                              38
                                 vv
clus                              M0 M1 MX
  AMP PEAK 24(19P13.12) CNV        8  1  9
  AMP PEAK 24(19P13.12) WILD-TYPE 40  0 14
D24V4, multiclass
    clus
vv   AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE
  M0                         8                              40
  M1                         1                               0
  MX                         9                              14
                                 vv
clus                              N0 N1 NX
  AMP PEAK 24(19P13.12) CNV       10  0  8
  AMP PEAK 24(19P13.12) WILD-TYPE 39  1 13
D24V5, multiclass
    clus
vv   AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE
  N0                        10                              39
  N1                         0                               1
  NX                         8                              13
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 24(19P13.12) CNV       14  1  1  1
  AMP PEAK 24(19P13.12) WILD-TYPE 36  7  0  7
D24V6, multiclass
    clus
vv   AMP PEAK 24(19P13.12) CNV AMP PEAK 24(19P13.12) WILD-TYPE
  R0                        14                              36
  R1                         1                               7
  R2                         1                               0
  RX                         1                               7
D24V7, continuous
                                 vv
clus                              STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 24(19P13.12) CNV             7        5          2          0
  AMP PEAK 24(19P13.12) WILD-TYPE      22        7         14          4
                                 vv
clus                              STAGE IIIC STAGE IVB
  AMP PEAK 24(19P13.12) CNV                0         1
  AMP PEAK 24(19P13.12) WILD-TYPE          1         0
D24V8, multiclass

Clustering(25) Variable = Amp Peak 25(19q13.11)
D25V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 25(19Q13.11) CNV       11 11
  AMP PEAK 25(19Q13.11) WILD-TYPE 29 15
      AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE 
                             22                              44 
      AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE 
                             11                              15 
$`AMP PEAK 25(19Q13.11) CNV`
TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A112 
       37.32        10.13        27.52        23.34         1.12         5.03 
TCGA-BC-A217 TCGA-BC-A3KG TCGA-DD-A113 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A1E9 
       13.81         8.28        55.17        22.78         7.33        90.67 
TCGA-DD-A1EC TCGA-DD-A1EI TCGA-DD-A1EL TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC 
       19.76         6.02        13.64         3.65         1.97         0.62 
TCGA-EP-A3JL TCGA-ES-A2HS TCGA-G3-A25T TCGA-G3-A25X 
        3.19        22.85        38.63        44.68 

$`AMP PEAK 25(19Q13.11) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10X 
       48.99        11.57        46.78        27.52         2.99        25.32 
TCGA-BC-A110 TCGA-BC-A216 TCGA-BC-A3KF TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MA 
       69.57        37.61         0.26         0.07         4.24         0.07 
TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A11A 
        0.10         0.13        37.74        83.57        53.29         2.60 
TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1ED 
        0.46        21.44        51.25        79.36        66.31        53.52 
TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A3RK 
        6.67        34.06        29.16         4.24         3.62         0.43 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25U TCGA-G3-A25V 
       14.40        19.07         0.13         1.22        40.47        14.27 
TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI 
       12.82        14.86         8.84         8.32         6.31         5.88 
TCGA-G3-A3CJ TCGA-G3-A3CK 
        4.47         0.89 

      AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE 
                           0.62                            0.07 
      AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE 
                          90.67                           83.57 
      AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE 
                         13.725                          12.195 
[1] "0.6 - 90.7 (13.7)" "0.1 - 83.6 (12.2)"
                     TCGA-BC-4072                      TCGA-BC-4073 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
      "AMP PEAK 25(19Q13.11) CNV"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"AMP PEAK 25(19Q13.11) WILD-TYPE"       "AMP PEAK 25(19Q13.11) CNV" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "AMP PEAK 25(19Q13.11) CNV" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"AMP PEAK 25(19Q13.11) WILD-TYPE" "AMP PEAK 25(19Q13.11) WILD-TYPE" 
[1] "hr=" "1.4"
D25V2, continuous
D25V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 25(19Q13.11) CNV         11   12
  AMP PEAK 25(19Q13.11) WILD-TYPE   14   35
        clus
vv       AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE
  FEMALE                        11                              14
  MALE                          12                              35
                                 vv
clus                              M0 M1 MX
  AMP PEAK 25(19Q13.11) CNV       11  1 11
  AMP PEAK 25(19Q13.11) WILD-TYPE 37  0 12
D25V4, multiclass
    clus
vv   AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE
  M0                        11                              37
  M1                         1                               0
  MX                        11                              12
                                 vv
clus                              N0 N1 NX
  AMP PEAK 25(19Q13.11) CNV       12  0 11
  AMP PEAK 25(19Q13.11) WILD-TYPE 37  1 10
D25V5, multiclass
    clus
vv   AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE
  N0                        12                              37
  N1                         0                               1
  NX                        11                              10
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 25(19Q13.11) CNV       18  2  1  1
  AMP PEAK 25(19Q13.11) WILD-TYPE 32  6  0  7
D25V6, multiclass
    clus
vv   AMP PEAK 25(19Q13.11) CNV AMP PEAK 25(19Q13.11) WILD-TYPE
  R0                        18                              32
  R1                         2                               6
  R2                         1                               0
  RX                         1                               7
D25V7, continuous
                                 vv
clus                              STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 25(19Q13.11) CNV             9        7          1          0
  AMP PEAK 25(19Q13.11) WILD-TYPE      20        5         15          4
                                 vv
clus                              STAGE IIIC STAGE IVB
  AMP PEAK 25(19Q13.11) CNV                0         1
  AMP PEAK 25(19Q13.11) WILD-TYPE          1         0
D25V8, multiclass

Clustering(26) Variable = Amp Peak 26(20q13.13)
D26V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 26(20Q13.13) CNV       13  8
  AMP PEAK 26(20Q13.13) WILD-TYPE 27 18
      AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE 
                             21                              45 
      AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE 
                              8                              18 
$`AMP PEAK 26(20Q13.13) CNV`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10Y TCGA-BC-A217 
       48.99        37.32        10.13        27.52        23.34        13.81 
TCGA-BC-A3KF TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A 
        0.26         0.10         0.13        22.78         7.33         2.60 
TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-EP-A2KB TCGA-EP-A3JL 
        0.46        21.44        34.06        29.16         1.97         3.19 
TCGA-ES-A2HS TCGA-G3-A25S TCGA-G3-A25W 
       22.85         1.22        12.82 

$`AMP PEAK 26(20Q13.13) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Z 
       11.57        46.78        27.52         2.99        25.32         1.12 
TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 
       69.57         5.03        37.61         8.28         0.07         4.24 
TCGA-CC-A3MA TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A11D 
        0.07        55.17        37.74        83.57        53.29        51.25 
TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE 
       90.67        79.36        66.31        19.76        53.52         6.67 
TCGA-DD-A1EI TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KC 
        6.02        13.64         4.24         3.62         3.65         0.62 
TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25U 
        0.43        14.40        19.07         0.13        38.63        40.47 
TCGA-G3-A25V TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH 
       14.27        44.68        14.86         8.84         8.32         6.31 
TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        5.88         4.47         0.89 

      AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE 
                           0.10                            0.07 
      AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE 
                          48.99                           90.67 
      AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE 
                          12.82                           13.64 
[1] "0.1 - 49.0 (12.8)" "0.1 - 90.7 (13.6)"
                     TCGA-BC-4072                      TCGA-BC-4073 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "AMP PEAK 26(20Q13.13) CNV"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
      "AMP PEAK 26(20Q13.13) CNV" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"AMP PEAK 26(20Q13.13) WILD-TYPE"       "AMP PEAK 26(20Q13.13) CNV" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"AMP PEAK 26(20Q13.13) WILD-TYPE" "AMP PEAK 26(20Q13.13) WILD-TYPE" 
[1] "hr=" "1.9"
D26V2, continuous
D26V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 26(20Q13.13) CNV          9   15
  AMP PEAK 26(20Q13.13) WILD-TYPE   16   32
        clus
vv       AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE
  FEMALE                         9                              16
  MALE                          15                              32
                                 vv
clus                              M0 M1 MX
  AMP PEAK 26(20Q13.13) CNV       16  1  7
  AMP PEAK 26(20Q13.13) WILD-TYPE 32  0 16
D26V4, multiclass
    clus
vv   AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE
  M0                        16                              32
  M1                         1                               0
  MX                         7                              16
                                 vv
clus                              N0 N1 NX
  AMP PEAK 26(20Q13.13) CNV       14  1  9
  AMP PEAK 26(20Q13.13) WILD-TYPE 35  0 12
D26V5, multiclass
    clus
vv   AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE
  N0                        14                              35
  N1                         1                               0
  NX                         9                              12
                                 vv
clus                              R0 R1 R2 RX
  AMP PEAK 26(20Q13.13) CNV       13  4  1  4
  AMP PEAK 26(20Q13.13) WILD-TYPE 37  4  0  4
D26V6, multiclass
    clus
vv   AMP PEAK 26(20Q13.13) CNV AMP PEAK 26(20Q13.13) WILD-TYPE
  R0                        13                              37
  R1                         4                               4
  R2                         1                               0
  RX                         4                               4
D26V7, continuous
                                 vv
clus                              STAGE I STAGE II STAGE IIIA STAGE IIIB
  AMP PEAK 26(20Q13.13) CNV             9        2          5          2
  AMP PEAK 26(20Q13.13) WILD-TYPE      20       10         11          2
                                 vv
clus                              STAGE IIIC STAGE IVB
  AMP PEAK 26(20Q13.13) CNV                1         1
  AMP PEAK 26(20Q13.13) WILD-TYPE          0         0
D26V8, multiclass

Clustering(27) Variable = Del Peak  1(1p36.32)
D27V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  1(1P36.32) CNV       17 15
  DEL PEAK  1(1P36.32) WILD-TYPE 23 11
      DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE 
                            32                             34 
      DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE 
                            15                             11 
$`DEL PEAK  1(1P36.32) CNV`
TCGA-BC-A10Q TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10W TCGA-BC-A10Y TCGA-BC-A217 
       37.32        46.78        27.52         2.99        23.34        13.81 
TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-DD-A113 TCGA-DD-A116 TCGA-DD-A118 
        4.24         0.07         0.10        55.17        53.29        22.78 
TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1E9 
        7.33         2.60         0.46        21.44        51.25        90.67 
TCGA-DD-A1EB TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3RK 
       66.31        34.06        29.16         1.97         0.62         0.43 
TCGA-ES-A2HS TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25V TCGA-G3-A25W 
       22.85        19.07         0.13         1.22        14.27        12.82 
TCGA-G3-A25X TCGA-G3-A25Y 
       44.68        14.86 

$`DEL PEAK  1(1P36.32) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10U TCGA-BC-A10X TCGA-BC-A10Z 
       48.99        11.57        10.13        27.52        25.32         1.12 
TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 
       69.57         5.03        37.61         0.26         8.28         0.07 
TCGA-CC-A3MC TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A1EA TCGA-DD-A1EC TCGA-DD-A1ED 
        0.13        37.74        83.57        79.36        19.76        53.52 
TCGA-DD-A1EE TCGA-DD-A1EI TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA 
        6.67         6.02        13.64         4.24         3.62         3.65 
TCGA-EP-A3JL TCGA-ES-A2HT TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25Z TCGA-G3-A3CG 
        3.19        14.40        38.63        40.47         8.84         8.32 
TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        6.31         5.88         4.47         0.89 

      DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE 
                          0.07                           0.07 
      DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE 
                         90.67                          83.57 
      DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE 
                        16.965                          8.580 
[1] "0.1 - 90.7 (17.0)" "0.1 - 83.6 (8.6)" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "DEL PEAK  1(1P36.32) CNV" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK  1(1P36.32) WILD-TYPE"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK  1(1P36.32) CNV"       "DEL PEAK  1(1P36.32) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK  1(1P36.32) WILD-TYPE" "DEL PEAK  1(1P36.32) WILD-TYPE" 
[1] "hr=" "1.3"
D27V2, continuous
D27V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.32) CNV         12   23
  DEL PEAK  1(1P36.32) WILD-TYPE   13   24
        clus
vv       DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE
  FEMALE                       12                             13
  MALE                         23                             24
                                vv
clus                             M0 M1 MX
  DEL PEAK  1(1P36.32) CNV       24  1 10
  DEL PEAK  1(1P36.32) WILD-TYPE 24  0 13
D27V4, multiclass
    clus
vv   DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE
  M0                       24                             24
  M1                        1                              0
  MX                       10                             13
                                vv
clus                             N0 N1 NX
  DEL PEAK  1(1P36.32) CNV       23  1 11
  DEL PEAK  1(1P36.32) WILD-TYPE 26  0 10
D27V5, multiclass
    clus
vv   DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE
  N0                       23                             26
  N1                        1                              0
  NX                       11                             10
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK  1(1P36.32) CNV       22  4  1  6
  DEL PEAK  1(1P36.32) WILD-TYPE 28  4  0  2
D27V6, multiclass
    clus
vv   DEL PEAK  1(1P36.32) CNV DEL PEAK  1(1P36.32) WILD-TYPE
  R0                       22                             28
  R1                        4                              4
  R2                        1                              0
  RX                        6                              2
D27V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK  1(1P36.32) CNV            15        4          5          4
  DEL PEAK  1(1P36.32) WILD-TYPE      14        8         11          0
                                vv
clus                             STAGE IIIC STAGE IVB
  DEL PEAK  1(1P36.32) CNV                1         1
  DEL PEAK  1(1P36.32) WILD-TYPE          0         0
D27V8, multiclass

Clustering(28) Variable = Del Peak  2(1p35.2)
D28V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  2(1P35.2) CNV       13 12
  DEL PEAK  2(1P35.2) WILD-TYPE 27 14
      DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE 
                           25                            41 
      DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE 
                           12                            14 
$`DEL PEAK  2(1P35.2) CNV`
TCGA-BC-A10Q TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10W TCGA-BC-A112 TCGA-CC-5258 
       37.32        46.78        27.52         2.99         5.03         0.07 
TCGA-CC-A3MA TCGA-CC-A3MB TCGA-DD-A113 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 
        0.07         0.10        55.17        53.29        22.78         7.33 
TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A1E9 TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-EP-A2KB 
        2.60         0.46        90.67        34.06        29.16         1.97 
TCGA-EP-A2KC TCGA-EP-A3RK TCGA-ES-A2HS TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25W 
        0.62         0.43        22.85         0.13         1.22        12.82 
TCGA-G3-A25Y 
       14.86 

$`DEL PEAK  2(1P35.2) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10U TCGA-BC-A10X TCGA-BC-A10Y 
       48.99        11.57        10.13        27.52        25.32        23.34 
TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG 
        1.12        69.57        37.61        13.81         0.26         8.28 
TCGA-CC-5263 TCGA-CC-A3MC TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A11C TCGA-DD-A11D 
        4.24         0.13        37.74        83.57        21.44        51.25 
TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EI 
       79.36        66.31        19.76        53.52         6.67         6.02 
TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A3JL TCGA-ES-A2HT 
       13.64         4.24         3.62         3.65         3.19        14.40 
TCGA-FV-A2QR TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25X TCGA-G3-A25Z 
       19.07        38.63        40.47        14.27        44.68         8.84 
TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.32         6.31         5.88         4.47         0.89 

      DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE 
                         0.07                          0.13 
      DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE 
                        90.67                         83.57 
      DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE 
                         7.33                         13.81 
[1] "0.1 - 90.7 (7.3)"  "0.1 - 83.6 (13.8)"
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK  2(1P35.2) CNV" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
      "DEL PEAK  2(1P35.2) CNV"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  2(1P35.2) WILD-TYPE"       "DEL PEAK  2(1P35.2) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  2(1P35.2) WILD-TYPE" "DEL PEAK  2(1P35.2) WILD-TYPE" 
[1] "hr=" "1.5"
D28V2, continuous
D28V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P35.2) CNV          9   18
  DEL PEAK  2(1P35.2) WILD-TYPE   16   29
        clus
vv       DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE
  FEMALE                       9                            16
  MALE                        18                            29
                               vv
clus                            M0 M1 MX
  DEL PEAK  2(1P35.2) CNV       16  1 10
  DEL PEAK  2(1P35.2) WILD-TYPE 32  0 13
D28V4, multiclass
    clus
vv   DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE
  M0                      16                            32
  M1                       1                             0
  MX                      10                            13
                               vv
clus                            N0 N1 NX
  DEL PEAK  2(1P35.2) CNV       16  1 10
  DEL PEAK  2(1P35.2) WILD-TYPE 33  0 11
D28V5, multiclass
    clus
vv   DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE
  N0                      16                            33
  N1                       1                             0
  NX                      10                            11
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  2(1P35.2) CNV       17  4  1  4
  DEL PEAK  2(1P35.2) WILD-TYPE 33  4  0  4
D28V6, multiclass
    clus
vv   DEL PEAK  2(1P35.2) CNV DEL PEAK  2(1P35.2) WILD-TYPE
  R0                      17                            33
  R1                       4                             4
  R2                       1                             0
  RX                       4                             4
D28V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK  2(1P35.2) CNV            10        3          4          3
  DEL PEAK  2(1P35.2) WILD-TYPE      19        9         12          1
                               vv
clus                            STAGE IIIC STAGE IVB
  DEL PEAK  2(1P35.2) CNV                1         1
  DEL PEAK  2(1P35.2) WILD-TYPE          0         0
D28V8, multiclass

Clustering(29) Variable = Del Peak  3(2q22.1)
D29V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  3(2Q22.1) CNV        1  4
  DEL PEAK  3(2Q22.1) WILD-TYPE 39 22
      DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE 
                            5                            61 
      DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE 
                            4                            22 
$`DEL PEAK  3(2Q22.1) CNV`
TCGA-BC-A10R TCGA-BC-A10Y TCGA-BC-A3KF TCGA-DD-A115 TCGA-DD-A1EL 
       10.13        23.34         0.26        83.57        13.64 

$`DEL PEAK  3(2Q22.1) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U 
       48.99        11.57        37.32        46.78        27.52        27.52 
TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 
        2.99        25.32         1.12        69.57         5.03        37.61 
TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB 
       13.81         8.28         0.07         4.24         0.07         0.10 
TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 
        0.13        55.17        37.74        53.29        22.78         7.33 
TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA 
        2.60         0.46        21.44        51.25        90.67        79.36 
TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI 
       66.31        19.76        53.52         6.67        34.06         6.02 
TCGA-DD-A1EJ TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC 
       29.16         4.24         3.62         3.65         1.97         0.62 
TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 
        3.19         0.43        22.85        14.40        19.07         0.13 
TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X 
        1.22        38.63        40.47        14.27        12.82        44.68 
TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ 
       14.86         8.84         8.32         6.31         5.88         4.47 
TCGA-G3-A3CK 
        0.89 

      DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE 
                         0.26                          0.07 
      DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE 
                        83.57                         90.67 
      DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE 
                        13.64                         12.82 
[1] "0.3 - 83.6 (13.6)" "0.1 - 90.7 (12.8)"
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK  3(2Q22.1) CNV" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK  3(2Q22.1) CNV" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK  3(2Q22.1) CNV" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"DEL PEAK  3(2Q22.1) WILD-TYPE"       "DEL PEAK  3(2Q22.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  3(2Q22.1) WILD-TYPE" "DEL PEAK  3(2Q22.1) WILD-TYPE" 
[1] "hr=" "1.7"
D29V2, continuous
D29V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  3(2Q22.1) CNV          3    4
  DEL PEAK  3(2Q22.1) WILD-TYPE   22   43
        clus
vv       DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE
  FEMALE                       3                            22
  MALE                         4                            43
                               vv
clus                            M0 M1 MX
  DEL PEAK  3(2Q22.1) CNV        4  0  3
  DEL PEAK  3(2Q22.1) WILD-TYPE 44  1 20
D29V4, multiclass
    clus
vv   DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE
  M0                       4                            44
  M1                       0                             1
  MX                       3                            20
                               vv
clus                            N0 N1 NX
  DEL PEAK  3(2Q22.1) CNV        4  0  3
  DEL PEAK  3(2Q22.1) WILD-TYPE 45  1 18
D29V5, multiclass
    clus
vv   DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE
  N0                       4                            45
  N1                       0                             1
  NX                       3                            18
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  3(2Q22.1) CNV        6  0  0  1
  DEL PEAK  3(2Q22.1) WILD-TYPE 44  8  1  7
D29V6, multiclass
    clus
vv   DEL PEAK  3(2Q22.1) CNV DEL PEAK  3(2Q22.1) WILD-TYPE
  R0                       6                            44
  R1                       0                             8
  R2                       0                             1
  RX                       1                             7
D29V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK  3(2Q22.1) CNV             1        2          2          0
  DEL PEAK  3(2Q22.1) WILD-TYPE      28       10         14          4
                               vv
clus                            STAGE IIIC STAGE IVB
  DEL PEAK  3(2Q22.1) CNV                0         0
  DEL PEAK  3(2Q22.1) WILD-TYPE          1         1
D29V8, multiclass

Clustering(30) Variable = Del Peak  4(2q37.3)
D30V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  4(2Q37.3) CNV        7  3
  DEL PEAK  4(2Q37.3) WILD-TYPE 33 23
      DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE 
                           10                            56 
      DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE 
                            3                            23 
$`DEL PEAK  4(2Q37.3) CNV`
TCGA-BC-4073 TCGA-BC-A10Y TCGA-BC-A216 TCGA-BC-A3KF TCGA-DD-A113 TCGA-DD-A115 
       11.57        23.34        37.61         0.26        55.17        83.57 
TCGA-DD-A11A TCGA-DD-A11C TCGA-DD-A1EB TCGA-DD-A1EL 
        2.60        21.44        66.31        13.64 

$`DEL PEAK  4(2Q37.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U 
       48.99        37.32        10.13        46.78        27.52        27.52 
TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A217 
        2.99        25.32         1.12        69.57         5.03        13.81 
TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC 
        8.28         0.07         4.24         0.07         0.10         0.13 
TCGA-DD-A114 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11D 
       37.74        53.29        22.78         7.33         0.46        51.25 
TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH 
       90.67        79.36        19.76        53.52         6.67        34.06 
TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB 
        6.02        29.16         4.24         3.62         3.65         1.97 
TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR 
        0.62         3.19         0.43        22.85        14.40        19.07 
TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W 
        0.13         1.22        38.63        40.47        14.27        12.82 
TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI 
       44.68        14.86         8.84         8.32         6.31         5.88 
TCGA-G3-A3CJ TCGA-G3-A3CK 
        4.47         0.89 

      DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE 
                         0.26                          0.07 
      DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE 
                        83.57                         90.67 
      DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE 
                       22.390                         9.485 
[1] "0.3 - 83.6 (22.4)" "0.1 - 90.7 (9.5)" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
      "DEL PEAK  4(2Q37.3) CNV" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"DEL PEAK  4(2Q37.3) WILD-TYPE"       "DEL PEAK  4(2Q37.3) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  4(2Q37.3) WILD-TYPE" "DEL PEAK  4(2Q37.3) WILD-TYPE" 
[1] "hr=" "2.2"
D30V2, continuous
D30V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q37.3) CNV          5    7
  DEL PEAK  4(2Q37.3) WILD-TYPE   20   40
        clus
vv       DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE
  FEMALE                       5                            20
  MALE                         7                            40
                               vv
clus                            M0 M1 MX
  DEL PEAK  4(2Q37.3) CNV        9  0  3
  DEL PEAK  4(2Q37.3) WILD-TYPE 39  1 20
D30V4, multiclass
    clus
vv   DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE
  M0                       9                            39
  M1                       0                             1
  MX                       3                            20
                               vv
clus                            N0 N1 NX
  DEL PEAK  4(2Q37.3) CNV        9  0  3
  DEL PEAK  4(2Q37.3) WILD-TYPE 40  1 18
D30V5, multiclass
    clus
vv   DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE
  N0                       9                            40
  N1                       0                             1
  NX                       3                            18
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  4(2Q37.3) CNV        9  1  0  2
  DEL PEAK  4(2Q37.3) WILD-TYPE 41  7  1  6
D30V6, multiclass
    clus
vv   DEL PEAK  4(2Q37.3) CNV DEL PEAK  4(2Q37.3) WILD-TYPE
  R0                       9                            41
  R1                       1                             7
  R2                       0                             1
  RX                       2                             6
D30V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK  4(2Q37.3) CNV             4        3          4          0
  DEL PEAK  4(2Q37.3) WILD-TYPE      25        9         12          4
                               vv
clus                            STAGE IIIC STAGE IVB
  DEL PEAK  4(2Q37.3) CNV                0         0
  DEL PEAK  4(2Q37.3) WILD-TYPE          1         1
D30V8, multiclass

Clustering(31) Variable = Del Peak  5(3p13)
D31V1, survival
                             sevent
clus2                          0  1
  DEL PEAK  5(3P13) CNV        9  5
  DEL PEAK  5(3P13) WILD-TYPE 31 21
      DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE 
                         14                          52 
      DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE 
                          5                          21 
$`DEL PEAK  5(3P13) CNV`
TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A112 TCGA-BC-A217 TCGA-CC-5263 
       11.57        37.32        10.13         5.03        13.81         4.24 
TCGA-CC-A3MA TCGA-CC-A3MB TCGA-DD-A113 TCGA-DD-A11A TCGA-DD-A1E9 TCGA-FV-A3R3 
        0.07         0.10        55.17         2.60        90.67         0.13 
TCGA-G3-A25T TCGA-G3-A25X 
       38.63        44.68 

$`DEL PEAK  5(3P13) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10X 
       48.99        46.78        27.52        27.52         2.99        25.32 
TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A216 TCGA-BC-A3KF TCGA-BC-A3KG 
       23.34         1.12        69.57        37.61         0.26         8.28 
TCGA-CC-5258 TCGA-CC-A3MC TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 
        0.07         0.13        37.74        83.57        53.29        22.78 
TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1EA TCGA-DD-A1EB 
        7.33         0.46        21.44        51.25        79.36        66.31 
TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ 
       19.76        53.52         6.67        34.06         6.02        29.16 
TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC 
       13.64         4.24         3.62         3.65         1.97         0.62 
TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-G3-A25S 
        3.19         0.43        22.85        14.40        19.07         1.22 
TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG 
       40.47        14.27        12.82        14.86         8.84         8.32 
TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        6.31         5.88         4.47         0.89 

      DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE 
                       0.07                        0.07 
      DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE 
                      90.67                       83.57 
      DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE 
                     10.850                      13.955 
[1] "0.1 - 90.7 (10.9)" "0.1 - 83.6 (14.0)"
                 TCGA-BC-4072                  TCGA-BC-4073 
"DEL PEAK  5(3P13) WILD-TYPE"       "DEL PEAK  5(3P13) CNV" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "DEL PEAK  5(3P13) CNV"       "DEL PEAK  5(3P13) CNV" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "DEL PEAK  5(3P13) CNV"       "DEL PEAK  5(3P13) CNV" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A115                  TCGA-DD-A116 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-4072                  TCGA-BC-4073 
"DEL PEAK  5(3P13) WILD-TYPE"       "DEL PEAK  5(3P13) CNV" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "DEL PEAK  5(3P13) CNV"       "DEL PEAK  5(3P13) CNV" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "DEL PEAK  5(3P13) CNV"       "DEL PEAK  5(3P13) CNV" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A115                  TCGA-DD-A116 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-4072                  TCGA-BC-4073 
"DEL PEAK  5(3P13) WILD-TYPE"       "DEL PEAK  5(3P13) CNV" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "DEL PEAK  5(3P13) CNV"       "DEL PEAK  5(3P13) CNV" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "DEL PEAK  5(3P13) CNV"       "DEL PEAK  5(3P13) CNV" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A115                  TCGA-DD-A116 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "DEL PEAK  5(3P13) CNV" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"DEL PEAK  5(3P13) WILD-TYPE" "DEL PEAK  5(3P13) WILD-TYPE" 
[1] "hr=" "1.5"
D31V2, continuous
D31V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  5(3P13) CNV          7    8
  DEL PEAK  5(3P13) WILD-TYPE   18   39
        clus
vv       DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE
  FEMALE                     7                          18
  MALE                       8                          39
                             vv
clus                          M0 M1 MX
  DEL PEAK  5(3P13) CNV       10  0  5
  DEL PEAK  5(3P13) WILD-TYPE 38  1 18
D31V4, multiclass
    clus
vv   DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE
  M0                    10                          38
  M1                     0                           1
  MX                     5                          18
                             vv
clus                          N0 N1 NX
  DEL PEAK  5(3P13) CNV       10  0  5
  DEL PEAK  5(3P13) WILD-TYPE 39  1 16
D31V5, multiclass
    clus
vv   DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE
  N0                    10                          39
  N1                     0                           1
  NX                     5                          16
                             vv
clus                          R0 R1 R2 RX
  DEL PEAK  5(3P13) CNV       11  2  0  2
  DEL PEAK  5(3P13) WILD-TYPE 39  6  1  6
D31V6, multiclass
    clus
vv   DEL PEAK  5(3P13) CNV DEL PEAK  5(3P13) WILD-TYPE
  R0                    11                          39
  R1                     2                           6
  R2                     0                           1
  RX                     2                           6
D31V7, continuous
                             vv
clus                          STAGE I STAGE II STAGE IIIA STAGE IIIB STAGE IIIC
  DEL PEAK  5(3P13) CNV             3        4          4          1          0
  DEL PEAK  5(3P13) WILD-TYPE      26        8         12          3          1
                             vv
clus                          STAGE IVB
  DEL PEAK  5(3P13) CNV               0
  DEL PEAK  5(3P13) WILD-TYPE         1
D31V8, multiclass

Clustering(32) Variable = Del Peak  6(4q24)
D32V1, survival
                             sevent
clus2                          0  1
  DEL PEAK  6(4Q24) CNV       16 14
  DEL PEAK  6(4Q24) WILD-TYPE 24 12
      DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE 
                         30                          36 
      DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE 
                         14                          12 
$`DEL PEAK  6(4Q24) CNV`
TCGA-BC-4072 TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A112 
       48.99        27.52        27.52        23.34         1.12         5.03 
TCGA-BC-A217 TCGA-BC-A3KF TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MB TCGA-CC-A3MC 
       13.81         0.26         0.07         4.24         0.10         0.13 
TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A116 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B 
       55.17        37.74        53.29         7.33         2.60         0.46 
TCGA-DD-A11C TCGA-DD-A1EB TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL 
       21.44        66.31        34.06         6.02        29.16        13.64 
TCGA-EP-A2KB TCGA-EP-A2KC TCGA-G3-A25S TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z 
        1.97         0.62         1.22        44.68        14.86         8.84 

$`DEL PEAK  6(4Q24) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10W TCGA-BC-A10X 
       11.57        37.32        10.13        46.78         2.99        25.32 
TCGA-BC-A110 TCGA-BC-A216 TCGA-BC-A3KG TCGA-CC-A3MA TCGA-DD-A115 TCGA-DD-A118 
       69.57        37.61         8.28         0.07        83.57        22.78 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE 
       51.25        90.67        79.36        19.76        53.52         6.67 
TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS 
        4.24         3.62         3.65         3.19         0.43        22.85 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V 
       14.40        19.07         0.13        38.63        40.47        14.27 
TCGA-G3-A25W TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
       12.82         8.32         6.31         5.88         4.47         0.89 

      DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE 
                       0.07                        0.07 
      DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE 
                      66.31                       90.67 
      DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE 
                     11.240                      13.545 
[1] "0.1 - 66.3 (11.2)" "0.1 - 90.7 (13.5)"
                 TCGA-BC-4072                  TCGA-BC-4073 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A118                  TCGA-DD-A119 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-4072                  TCGA-BC-4073 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A118                  TCGA-DD-A119 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-4072                  TCGA-BC-4073 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A118                  TCGA-DD-A119 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
"DEL PEAK  6(4Q24) WILD-TYPE"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "DEL PEAK  6(4Q24) CNV"       "DEL PEAK  6(4Q24) CNV" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
      "DEL PEAK  6(4Q24) CNV" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"DEL PEAK  6(4Q24) WILD-TYPE" "DEL PEAK  6(4Q24) WILD-TYPE" 
[1] "hr=" "2.2"
D32V2, continuous
D32V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  6(4Q24) CNV         10   23
  DEL PEAK  6(4Q24) WILD-TYPE   15   24
        clus
vv       DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE
  FEMALE                    10                          15
  MALE                      23                          24
                             vv
clus                          M0 M1 MX
  DEL PEAK  6(4Q24) CNV       24  1  8
  DEL PEAK  6(4Q24) WILD-TYPE 24  0 15
D32V4, multiclass
    clus
vv   DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE
  M0                    24                          24
  M1                     1                           0
  MX                     8                          15
                             vv
clus                          N0 N1 NX
  DEL PEAK  6(4Q24) CNV       23  1  8
  DEL PEAK  6(4Q24) WILD-TYPE 26  0 13
D32V5, multiclass
    clus
vv   DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE
  N0                    23                          26
  N1                     1                           0
  NX                     8                          13
                             vv
clus                          R0 R1 R2 RX
  DEL PEAK  6(4Q24) CNV       22  4  1  6
  DEL PEAK  6(4Q24) WILD-TYPE 28  4  0  2
D32V6, multiclass
    clus
vv   DEL PEAK  6(4Q24) CNV DEL PEAK  6(4Q24) WILD-TYPE
  R0                    22                          28
  R1                     4                           4
  R2                     1                           0
  RX                     6                           2
D32V7, continuous
                             vv
clus                          STAGE I STAGE II STAGE IIIA STAGE IIIB STAGE IIIC
  DEL PEAK  6(4Q24) CNV            12        8          6          1          1
  DEL PEAK  6(4Q24) WILD-TYPE      17        4         10          3          0
                             vv
clus                          STAGE IVB
  DEL PEAK  6(4Q24) CNV               1
  DEL PEAK  6(4Q24) WILD-TYPE         0
D32V8, multiclass

Clustering(33) Variable = Del Peak  7(4q35.1)
D33V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  7(4Q35.1) CNV       16 13
  DEL PEAK  7(4Q35.1) WILD-TYPE 24 13
      DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE 
                           29                            37 
      DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE 
                           13                            13 
$`DEL PEAK  7(4Q35.1) CNV`
TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10W TCGA-BC-A10Z TCGA-BC-A112 TCGA-BC-A217 
       10.13        27.52         2.99         1.12         5.03        13.81 
TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC 
        0.26         8.28         0.07         0.07         0.10         0.13 
TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A116 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B 
       55.17        37.74        53.29         7.33         2.60         0.46 
TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A2KB TCGA-EP-A2KC 
       34.06         6.02        29.16        13.64         1.97         0.62 
TCGA-FV-A2QR TCGA-G3-A25S TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z 
       19.07         1.22        44.68        14.86         8.84 

$`DEL PEAK  7(4Q35.1) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10X 
       48.99        11.57        37.32        46.78        27.52        25.32 
TCGA-BC-A10Y TCGA-BC-A110 TCGA-BC-A216 TCGA-CC-5263 TCGA-DD-A115 TCGA-DD-A118 
       23.34        69.57        37.61         4.24        83.57        22.78 
TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC 
       21.44        51.25        90.67        79.36        66.31        19.76 
TCGA-DD-A1ED TCGA-DD-A1EE TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A3JL 
       53.52         6.67         4.24         3.62         3.65         3.19 
TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25U 
        0.43        22.85        14.40         0.13        38.63        40.47 
TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ 
       14.27        12.82         8.32         6.31         5.88         4.47 
TCGA-G3-A3CK 
        0.89 

      DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE 
                         0.07                          0.13 
      DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE 
                        55.17                         90.67 
      DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE 
                         7.33                         21.44 
[1] "0.1 - 55.2 (7.3)"  "0.1 - 90.7 (21.4)"
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  7(4Q35.1) WILD-TYPE"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK  7(4Q35.1) CNV"       "DEL PEAK  7(4Q35.1) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
      "DEL PEAK  7(4Q35.1) CNV" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  7(4Q35.1) WILD-TYPE" "DEL PEAK  7(4Q35.1) WILD-TYPE" 
[1] "hr=" "3"  
D33V2, continuous
D33V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(4Q35.1) CNV         10   23
  DEL PEAK  7(4Q35.1) WILD-TYPE   15   24
        clus
vv       DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE
  FEMALE                      10                            15
  MALE                        23                            24
                               vv
clus                            M0 M1 MX
  DEL PEAK  7(4Q35.1) CNV       24  1  8
  DEL PEAK  7(4Q35.1) WILD-TYPE 24  0 15
D33V4, multiclass
    clus
vv   DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE
  M0                      24                            24
  M1                       1                             0
  MX                       8                            15
                               vv
clus                            N0 N1 NX
  DEL PEAK  7(4Q35.1) CNV       23  1  8
  DEL PEAK  7(4Q35.1) WILD-TYPE 26  0 13
D33V5, multiclass
    clus
vv   DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE
  N0                      23                            26
  N1                       1                             0
  NX                       8                            13
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  7(4Q35.1) CNV       23  3  1  5
  DEL PEAK  7(4Q35.1) WILD-TYPE 27  5  0  3
D33V6, multiclass
    clus
vv   DEL PEAK  7(4Q35.1) CNV DEL PEAK  7(4Q35.1) WILD-TYPE
  R0                      23                            27
  R1                       3                             5
  R2                       1                             0
  RX                       5                             3
D33V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK  7(4Q35.1) CNV            11        9          6          1
  DEL PEAK  7(4Q35.1) WILD-TYPE      18        3         10          3
                               vv
clus                            STAGE IIIC STAGE IVB
  DEL PEAK  7(4Q35.1) CNV                1         1
  DEL PEAK  7(4Q35.1) WILD-TYPE          0         0
D33V8, multiclass

Clustering(34) Variable = Del Peak  8(5q23.1)
D34V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  8(5Q23.1) CNV        3  5
  DEL PEAK  8(5Q23.1) WILD-TYPE 37 21
      DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE 
                            8                            58 
      DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE 
                            5                            21 
$`DEL PEAK  8(5Q23.1) CNV`
TCGA-BC-A10R TCGA-BC-A10S TCGA-CC-5263 TCGA-DD-A116 TCGA-DD-A11A TCGA-DD-A1EH 
       10.13        46.78         4.24        53.29         2.60        34.06 
TCGA-DD-A1EJ TCGA-ES-A2HS 
       29.16        22.85 

$`DEL PEAK  8(5Q23.1) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10W 
       48.99        11.57        37.32        27.52        27.52         2.99 
TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 
       25.32        23.34         1.12        69.57         5.03        37.61 
TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-A3MA TCGA-CC-A3MB 
       13.81         0.26         8.28         0.07         0.07         0.10 
TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A118 TCGA-DD-A119 
        0.13        55.17        37.74        83.57        22.78         7.33 
TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB 
        0.46        21.44        51.25        90.67        79.36        66.31 
TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EI TCGA-DD-A1EL TCGA-EP-A12J 
       19.76        53.52         6.67         6.02        13.64         4.24 
TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK 
        3.62         3.65         1.97         0.62         3.19         0.43 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25U 
       14.40        19.07         0.13         1.22        38.63        40.47 
TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG 
       14.27        12.82        44.68        14.86         8.84         8.32 
TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        6.31         5.88         4.47         0.89 

      DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE 
                         2.60                          0.07 
      DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE 
                        53.29                         90.67 
      DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE 
                       26.005                        12.195 
[1] "2.6 - 53.3 (26.0)" "0.1 - 90.7 (12.2)"
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  8(5Q23.1) WILD-TYPE"       "DEL PEAK  8(5Q23.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"DEL PEAK  8(5Q23.1) WILD-TYPE"       "DEL PEAK  8(5Q23.1) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  8(5Q23.1) WILD-TYPE"       "DEL PEAK  8(5Q23.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  8(5Q23.1) WILD-TYPE"       "DEL PEAK  8(5Q23.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"DEL PEAK  8(5Q23.1) WILD-TYPE"       "DEL PEAK  8(5Q23.1) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  8(5Q23.1) WILD-TYPE"       "DEL PEAK  8(5Q23.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK  8(5Q23.1) WILD-TYPE"       "DEL PEAK  8(5Q23.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A113                    TCGA-DD-A114 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
"DEL PEAK  8(5Q23.1) WILD-TYPE"       "DEL PEAK  8(5Q23.1) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK  8(5Q23.1) CNV" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
"DEL PEAK  8(5Q23.1) WILD-TYPE"       "DEL PEAK  8(5Q23.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
"DEL PEAK  8(5Q23.1) WILD-TYPE" "DEL PEAK  8(5Q23.1) WILD-TYPE" 
[1] "hr=" "1.5"
D34V2, continuous
D34V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(5Q23.1) CNV          2    7
  DEL PEAK  8(5Q23.1) WILD-TYPE   23   40
        clus
vv       DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE
  FEMALE                       2                            23
  MALE                         7                            40
                               vv
clus                            M0 M1 MX
  DEL PEAK  8(5Q23.1) CNV        6  0  3
  DEL PEAK  8(5Q23.1) WILD-TYPE 42  1 20
D34V4, multiclass
    clus
vv   DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE
  M0                       6                            42
  M1                       0                             1
  MX                       3                            20
                               vv
clus                            N0 N1 NX
  DEL PEAK  8(5Q23.1) CNV        5  1  3
  DEL PEAK  8(5Q23.1) WILD-TYPE 44  0 18
D34V5, multiclass
    clus
vv   DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE
  N0                       5                            44
  N1                       1                             0
  NX                       3                            18
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK  8(5Q23.1) CNV        7  0  0  2
  DEL PEAK  8(5Q23.1) WILD-TYPE 43  8  1  6
D34V6, multiclass
    clus
vv   DEL PEAK  8(5Q23.1) CNV DEL PEAK  8(5Q23.1) WILD-TYPE
  R0                       7                            43
  R1                       0                             8
  R2                       0                             1
  RX                       2                             6
D34V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK  8(5Q23.1) CNV             2        0          3          1
  DEL PEAK  8(5Q23.1) WILD-TYPE      27       12         13          3
                               vv
clus                            STAGE IIIC STAGE IVB
  DEL PEAK  8(5Q23.1) CNV                1         0
  DEL PEAK  8(5Q23.1) WILD-TYPE          0         1
D34V8, multiclass

Clustering(35) Variable = Del Peak  9(6q26)
D35V1, survival
                             sevent
clus2                          0  1
  DEL PEAK  9(6Q26) CNV       16  9
  DEL PEAK  9(6Q26) WILD-TYPE 24 17
      DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE 
                         25                          41 
      DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE 
                          9                          17 
$`DEL PEAK  9(6Q26) CNV`
TCGA-BC-A10Q TCGA-BC-A3KF TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MC TCGA-DD-A113 
       37.32         0.26         4.24         0.07         0.13        55.17 
TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11C 
       37.74        83.57        22.78         7.33         2.60        21.44 
TCGA-DD-A1E9 TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-EP-A12J 
       90.67         6.67        34.06         6.02        29.16         4.24 
TCGA-EP-A3RK TCGA-ES-A2HS TCGA-FV-A2QR TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A25X 
        0.43        22.85        19.07         1.22        38.63        44.68 
TCGA-G3-A25Y 
       14.86 

$`DEL PEAK  9(6Q26) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U 
       48.99        11.57        10.13        46.78        27.52        27.52 
TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 
        2.99        25.32        23.34         1.12        69.57         5.03 
TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-A3MB TCGA-DD-A116 
       37.61        13.81         8.28         0.07         0.10        53.29 
TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED 
        0.46        51.25        79.36        66.31        19.76        53.52 
TCGA-DD-A1EL TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL 
       13.64         3.62         3.65         1.97         0.62         3.19 
TCGA-ES-A2HT TCGA-FV-A3R3 TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Z 
       14.40         0.13        40.47        14.27        12.82         8.84 
TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.32         6.31         5.88         4.47         0.89 

      DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE 
                       0.07                        0.07 
      DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE 
                      90.67                       79.36 
      DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE 
                      19.07                       11.57 
[1] "0.1 - 90.7 (19.1)" "0.1 - 79.4 (11.6)"
                 TCGA-BC-4072                  TCGA-BC-4073 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-4072                  TCGA-BC-4073 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-4072                  TCGA-BC-4073 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10Q                  TCGA-BC-A10R 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10S                  TCGA-BC-A10T 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10U                  TCGA-BC-A10W 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10X                  TCGA-BC-A10Y 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A10Z                  TCGA-BC-A110 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A112                  TCGA-BC-A216 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-BC-A217                  TCGA-BC-A3KF 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-BC-A3KG                  TCGA-CC-5258 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-CC-5263                  TCGA-CC-A3MA 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-CC-A3MB                  TCGA-CC-A3MC 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A113                  TCGA-DD-A114 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A115                  TCGA-DD-A116 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A118                  TCGA-DD-A119 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A11A                  TCGA-DD-A11B 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A11C                  TCGA-DD-A11D 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A1E9                  TCGA-DD-A1EA 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A1EB                  TCGA-DD-A1EC 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-DD-A1ED                  TCGA-DD-A1EE 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A1EH                  TCGA-DD-A1EI 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-DD-A1EJ                  TCGA-DD-A1EL 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A12J                  TCGA-EP-A26S 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A2KA                  TCGA-EP-A2KB 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A2KC                  TCGA-EP-A3JL 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-EP-A3RK                  TCGA-ES-A2HS 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-ES-A2HT                  TCGA-FV-A2QR 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-FV-A3R3                  TCGA-G3-A25S 
"DEL PEAK  9(6Q26) WILD-TYPE"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-G3-A25T                  TCGA-G3-A25U 
      "DEL PEAK  9(6Q26) CNV" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A25V                  TCGA-G3-A25W 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A25X                  TCGA-G3-A25Y 
      "DEL PEAK  9(6Q26) CNV"       "DEL PEAK  9(6Q26) CNV" 
                 TCGA-G3-A25Z                  TCGA-G3-A3CG 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A3CH                  TCGA-G3-A3CI 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
                 TCGA-G3-A3CJ                  TCGA-G3-A3CK 
"DEL PEAK  9(6Q26) WILD-TYPE" "DEL PEAK  9(6Q26) WILD-TYPE" 
[1] "hr=" "1.6"
D35V2, continuous
D35V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  9(6Q26) CNV          8   19
  DEL PEAK  9(6Q26) WILD-TYPE   17   28
        clus
vv       DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE
  FEMALE                     8                          17
  MALE                      19                          28
                             vv
clus                          M0 M1 MX
  DEL PEAK  9(6Q26) CNV       22  1  4
  DEL PEAK  9(6Q26) WILD-TYPE 26  0 19
D35V4, multiclass
    clus
vv   DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE
  M0                    22                          26
  M1                     1                           0
  MX                     4                          19
                             vv
clus                          N0 N1 NX
  DEL PEAK  9(6Q26) CNV       20  1  5
  DEL PEAK  9(6Q26) WILD-TYPE 29  0 16
D35V5, multiclass
    clus
vv   DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE
  N0                    20                          29
  N1                     1                           0
  NX                     5                          16
                             vv
clus                          R0 R1 R2 RX
  DEL PEAK  9(6Q26) CNV       18  2  1  4
  DEL PEAK  9(6Q26) WILD-TYPE 32  6  0  4
D35V6, multiclass
    clus
vv   DEL PEAK  9(6Q26) CNV DEL PEAK  9(6Q26) WILD-TYPE
  R0                    18                          32
  R1                     2                           6
  R2                     1                           0
  RX                     4                           4
D35V7, continuous
                             vv
clus                          STAGE I STAGE II STAGE IIIA STAGE IIIB STAGE IIIC
  DEL PEAK  9(6Q26) CNV            11        4          7          2          1
  DEL PEAK  9(6Q26) WILD-TYPE      18        8          9          2          0
                             vv
clus                          STAGE IVB
  DEL PEAK  9(6Q26) CNV               1
  DEL PEAK  9(6Q26) WILD-TYPE         0
D35V8, multiclass

Clustering(36) Variable = Del Peak 10(8p23.3)
D36V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 10(8P23.3) CNV       22 17
  DEL PEAK 10(8P23.3) WILD-TYPE 18  9
      DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE 
                           39                            27 
      DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE 
                           17                             9 
$`DEL PEAK 10(8P23.3) CNV`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U 
       48.99        37.32        10.13        46.78        27.52        27.52 
TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 
        5.03        37.61        13.81         0.26         8.28         0.07 
TCGA-CC-5263 TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 
        4.24         0.13        55.17        83.57        53.29        22.78 
TCGA-DD-A119 TCGA-DD-A11C TCGA-DD-A1E9 TCGA-DD-A1EE TCGA-DD-A1EI TCGA-EP-A12J 
        7.33        21.44        90.67         6.67         6.02         4.24 
TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS 
        3.62         3.65         0.62         3.19         0.43        22.85 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-G3-A25S TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X 
       14.40        19.07         1.22        14.27        12.82        44.68 
TCGA-G3-A25Y TCGA-G3-A3CG TCGA-G3-A3CJ 
       14.86         8.32         4.47 

$`DEL PEAK 10(8P23.3) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 
       11.57         2.99        25.32        23.34         1.12        69.57 
TCGA-CC-A3MA TCGA-CC-A3MB TCGA-DD-A114 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11D 
        0.07         0.10        37.74         2.60         0.46        51.25 
TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EH TCGA-DD-A1EJ 
       79.36        66.31        19.76        53.52        34.06        29.16 
TCGA-DD-A1EL TCGA-EP-A2KB TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25Z 
       13.64         1.97         0.13        38.63        40.47         8.84 
TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CK 
        6.31         5.88         0.89 

      DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE 
                         0.07                          0.07 
      DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE 
                        90.67                         79.36 
      DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE 
                        12.82                         13.64 
[1] "0.1 - 90.7 (12.8)" "0.1 - 79.4 (13.6)"
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK 10(8P23.3) CNV"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 10(8P23.3) WILD-TYPE"       "DEL PEAK 10(8P23.3) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 10(8P23.3) WILD-TYPE" "DEL PEAK 10(8P23.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 10(8P23.3) CNV" "DEL PEAK 10(8P23.3) WILD-TYPE" 
[1] "hr=" "1.4"
D36V2, continuous
D36V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(8P23.3) CNV         13   30
  DEL PEAK 10(8P23.3) WILD-TYPE   12   17
        clus
vv       DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE
  FEMALE                      13                            12
  MALE                        30                            17
                               vv
clus                            M0 M1 MX
  DEL PEAK 10(8P23.3) CNV       27  1 15
  DEL PEAK 10(8P23.3) WILD-TYPE 21  0  8
D36V4, multiclass
    clus
vv   DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE
  M0                      27                            21
  M1                       1                             0
  MX                      15                             8
                               vv
clus                            N0 N1 NX
  DEL PEAK 10(8P23.3) CNV       27  0 16
  DEL PEAK 10(8P23.3) WILD-TYPE 22  1  5
D36V5, multiclass
    clus
vv   DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE
  N0                      27                            22
  N1                       0                             1
  NX                      16                             5
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 10(8P23.3) CNV       26  6  1  5
  DEL PEAK 10(8P23.3) WILD-TYPE 24  2  0  3
D36V6, multiclass
    clus
vv   DEL PEAK 10(8P23.3) CNV DEL PEAK 10(8P23.3) WILD-TYPE
  R0                      26                            24
  R1                       6                             2
  R2                       1                             0
  RX                       5                             3
D36V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 10(8P23.3) CNV            16        8         10          2
  DEL PEAK 10(8P23.3) WILD-TYPE      13        4          6          2
                               vv
clus                            STAGE IIIC STAGE IVB
  DEL PEAK 10(8P23.3) CNV                0         1
  DEL PEAK 10(8P23.3) WILD-TYPE          1         0
D36V8, multiclass

Clustering(37) Variable = Del Peak 11(8p23.2)
D37V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 11(8P23.2) CNV       23 17
  DEL PEAK 11(8P23.2) WILD-TYPE 17  9
      DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE 
                           40                            26 
      DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE 
                           17                             9 
$`DEL PEAK 11(8P23.2) CNV`
TCGA-BC-4072 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A112 
       48.99        10.13        46.78        27.52        27.52         5.03 
TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 
       37.61        13.81         0.26         8.28         0.07         4.24 
TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 
        0.13        55.17        83.57        53.29        22.78         7.33 
TCGA-DD-A11C TCGA-DD-A1E9 TCGA-DD-A1EE TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL 
       21.44        90.67         6.67         6.02        29.16        13.64 
TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK 
        4.24         3.62         3.65         0.62         3.19         0.43 
TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-G3-A25S TCGA-G3-A25V TCGA-G3-A25W 
       22.85        14.40        19.07         1.22        14.27        12.82 
TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A3CG TCGA-G3-A3CJ 
       44.68        14.86         8.32         4.47 

$`DEL PEAK 11(8P23.2) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z 
       11.57        37.32         2.99        25.32        23.34         1.12 
TCGA-BC-A110 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-DD-A114 TCGA-DD-A11A TCGA-DD-A11B 
       69.57         0.07         0.10        37.74         2.60         0.46 
TCGA-DD-A11D TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EH 
       51.25        79.36        66.31        19.76        53.52        34.06 
TCGA-EP-A2KB TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25Z TCGA-G3-A3CH 
        1.97         0.13        38.63        40.47         8.84         6.31 
TCGA-G3-A3CI TCGA-G3-A3CK 
        5.88         0.89 

      DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE 
                         0.07                          0.07 
      DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE 
                        90.67                         79.36 
      DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE 
                       13.230                        15.665 
[1] "0.1 - 90.7 (13.2)" "0.1 - 79.4 (15.7)"
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK 11(8P23.2) CNV"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 11(8P23.2) WILD-TYPE"       "DEL PEAK 11(8P23.2) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 11(8P23.2) WILD-TYPE" "DEL PEAK 11(8P23.2) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 11(8P23.2) CNV" "DEL PEAK 11(8P23.2) WILD-TYPE" 
[1] "hr=" "1.4"
D37V2, continuous
D37V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(8P23.2) CNV         13   31
  DEL PEAK 11(8P23.2) WILD-TYPE   12   16
        clus
vv       DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE
  FEMALE                      13                            12
  MALE                        31                            16
                               vv
clus                            M0 M1 MX
  DEL PEAK 11(8P23.2) CNV       29  1 14
  DEL PEAK 11(8P23.2) WILD-TYPE 19  0  9
D37V4, multiclass
    clus
vv   DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE
  M0                      29                            19
  M1                       1                             0
  MX                      14                             9
                               vv
clus                            N0 N1 NX
  DEL PEAK 11(8P23.2) CNV       28  1 15
  DEL PEAK 11(8P23.2) WILD-TYPE 21  0  6
D37V5, multiclass
    clus
vv   DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE
  N0                      28                            21
  N1                       1                             0
  NX                      15                             6
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 11(8P23.2) CNV       28  5  1  5
  DEL PEAK 11(8P23.2) WILD-TYPE 22  3  0  3
D37V6, multiclass
    clus
vv   DEL PEAK 11(8P23.2) CNV DEL PEAK 11(8P23.2) WILD-TYPE
  R0                      28                            22
  R1                       5                             3
  R2                       1                             0
  RX                       5                             3
D37V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 11(8P23.2) CNV            16        9         10          2
  DEL PEAK 11(8P23.2) WILD-TYPE      13        3          6          2
                               vv
clus                            STAGE IIIC STAGE IVB
  DEL PEAK 11(8P23.2) CNV                1         1
  DEL PEAK 11(8P23.2) WILD-TYPE          0         0
D37V8, multiclass

Clustering(38) Variable = Del Peak 12(8p21.1)
D38V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 12(8P21.1) CNV       24 18
  DEL PEAK 12(8P21.1) WILD-TYPE 16  8
      DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE 
                           42                            24 
      DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE 
                           18                             8 
$`DEL PEAK 12(8P21.1) CNV`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U 
       48.99        37.32        10.13        46.78        27.52        27.52 
TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 
        5.03        37.61        13.81         0.26         8.28         0.07 
TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A115 TCGA-DD-A116 
        4.24         0.07         0.13        55.17        83.57        53.29 
TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11C TCGA-DD-A1E9 TCGA-DD-A1EE TCGA-DD-A1EI 
       22.78         7.33        21.44        90.67         6.67         6.02 
TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KC 
       29.16        13.64         4.24         3.62         3.65         0.62 
TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-G3-A25S 
        3.19         0.43        22.85        14.40        19.07         1.22 
TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A3CG TCGA-G3-A3CJ 
       14.27        12.82        44.68        14.86         8.32         4.47 

$`DEL PEAK 12(8P21.1) WILD-TYPE`
TCGA-BC-4073 TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 
       11.57         2.99        25.32        23.34         1.12        69.57 
TCGA-CC-A3MB TCGA-DD-A114 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1EA 
        0.10        37.74         2.60         0.46        51.25        79.36 
TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EH TCGA-EP-A2KB TCGA-FV-A3R3 
       66.31        19.76        53.52        34.06         1.97         0.13 
TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25Z TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CK 
       38.63        40.47         8.84         6.31         5.88         0.89 

      DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE 
                         0.07                          0.10 
      DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE 
                        90.67                         79.36 
      DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE 
                       13.230                        15.665 
[1] "0.1 - 90.7 (13.2)" "0.1 - 79.4 (15.7)"
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
      "DEL PEAK 12(8P21.1) CNV"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 12(8P21.1) WILD-TYPE"       "DEL PEAK 12(8P21.1) CNV" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 12(8P21.1) WILD-TYPE" "DEL PEAK 12(8P21.1) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 12(8P21.1) CNV" "DEL PEAK 12(8P21.1) WILD-TYPE" 
[1] "hr=" "1.5"
D38V2, continuous
D38V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(8P21.1) CNV         14   32
  DEL PEAK 12(8P21.1) WILD-TYPE   11   15
        clus
vv       DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE
  FEMALE                      14                            11
  MALE                        32                            15
                               vv
clus                            M0 M1 MX
  DEL PEAK 12(8P21.1) CNV       30  1 15
  DEL PEAK 12(8P21.1) WILD-TYPE 18  0  8
D38V4, multiclass
    clus
vv   DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE
  M0                      30                            18
  M1                       1                             0
  MX                      15                             8
                               vv
clus                            N0 N1 NX
  DEL PEAK 12(8P21.1) CNV       29  1 16
  DEL PEAK 12(8P21.1) WILD-TYPE 20  0  5
D38V5, multiclass
    clus
vv   DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE
  N0                      29                            20
  N1                       1                             0
  NX                      16                             5
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 12(8P21.1) CNV       29  6  1  5
  DEL PEAK 12(8P21.1) WILD-TYPE 21  2  0  3
D38V6, multiclass
    clus
vv   DEL PEAK 12(8P21.1) CNV DEL PEAK 12(8P21.1) WILD-TYPE
  R0                      29                            21
  R1                       6                             2
  R2                       1                             0
  RX                       5                             3
D38V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 12(8P21.1) CNV            16        9         11          2
  DEL PEAK 12(8P21.1) WILD-TYPE      13        3          5          2
                               vv
clus                            STAGE IIIC STAGE IVB
  DEL PEAK 12(8P21.1) CNV                1         1
  DEL PEAK 12(8P21.1) WILD-TYPE          0         0
D38V8, multiclass

Clustering(39) Variable = Del Peak 13(9p21.3)
D39V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 13(9P21.3) CNV       16 13
  DEL PEAK 13(9P21.3) WILD-TYPE 24 13
      DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE 
                           29                            37 
      DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE 
                           13                            13 
$`DEL PEAK 13(9P21.3) CNV`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10U 
       48.99        11.57        37.32        10.13        46.78        27.52 
TCGA-BC-A112 TCGA-BC-A3KF TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MB TCGA-CC-A3MC 
        5.03         0.26         0.07         4.24         0.10         0.13 
TCGA-DD-A113 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B 
       55.17        83.57        53.29         7.33         2.60         0.46 
TCGA-DD-A11C TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A2KA TCGA-EP-A2KB 
       21.44         6.02        29.16        13.64         3.65         1.97 
TCGA-EP-A2KC TCGA-EP-A3RK TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A3CJ 
        0.62         0.43         1.22        38.63         4.47 

$`DEL PEAK 13(9P21.3) WILD-TYPE`
TCGA-BC-A10T TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 
       27.52         2.99        25.32        23.34         1.12        69.57 
TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-A3MA TCGA-DD-A114 TCGA-DD-A118 
       37.61        13.81         8.28         0.07        37.74        22.78 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED 
       51.25        90.67        79.36        66.31        19.76        53.52 
TCGA-DD-A1EE TCGA-DD-A1EH TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A3JL TCGA-ES-A2HS 
        6.67        34.06         4.24         3.62         3.19        22.85 
TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W 
       14.40        19.07         0.13        40.47        14.27        12.82 
TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI 
       44.68        14.86         8.84         8.32         6.31         5.88 
TCGA-G3-A3CK 
        0.89 

      DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE 
                         0.07                          0.07 
      DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE 
                        83.57                         90.67 
      DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE 
                         6.02                         14.86 
[1] "0.1 - 83.6 (6.0)"  "0.1 - 90.7 (14.9)"
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-4072                    TCGA-BC-4073 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-BC-A10Q                    TCGA-BC-A10R 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-BC-A10S                    TCGA-BC-A10T 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A10U                    TCGA-BC-A10W 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A10X                    TCGA-BC-A10Y 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A10Z                    TCGA-BC-A110 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A112                    TCGA-BC-A216 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-BC-A217                    TCGA-BC-A3KF 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-BC-A3KG                    TCGA-CC-5258 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-CC-5263                    TCGA-CC-A3MA 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-CC-A3MB                    TCGA-CC-A3MC 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A113                    TCGA-DD-A114 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A115                    TCGA-DD-A116 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A118                    TCGA-DD-A119 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A11A                    TCGA-DD-A11B 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A11C                    TCGA-DD-A11D 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1E9                    TCGA-DD-A1EA 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1EB                    TCGA-DD-A1EC 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1ED                    TCGA-DD-A1EE 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-DD-A1EH                    TCGA-DD-A1EI 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-DD-A1EJ                    TCGA-DD-A1EL 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-EP-A12J                    TCGA-EP-A26S 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-EP-A2KA                    TCGA-EP-A2KB 
      "DEL PEAK 13(9P21.3) CNV"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-EP-A2KC                    TCGA-EP-A3JL 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-EP-A3RK                    TCGA-ES-A2HS 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-ES-A2HT                    TCGA-FV-A2QR 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-FV-A3R3                    TCGA-G3-A25S 
"DEL PEAK 13(9P21.3) WILD-TYPE"       "DEL PEAK 13(9P21.3) CNV" 
                   TCGA-G3-A25T                    TCGA-G3-A25U 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A25V                    TCGA-G3-A25W 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A25X                    TCGA-G3-A25Y 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A25Z                    TCGA-G3-A3CG 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A3CH                    TCGA-G3-A3CI 
"DEL PEAK 13(9P21.3) WILD-TYPE" "DEL PEAK 13(9P21.3) WILD-TYPE" 
                   TCGA-G3-A3CJ                    TCGA-G3-A3CK 
      "DEL PEAK 13(9P21.3) CNV" "DEL PEAK 13(9P21.3) WILD-TYPE" 
[1] "hr=" "1.8"
D39V2, continuous
D39V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(9P21.3) CNV         10   21
  DEL PEAK 13(9P21.3) WILD-TYPE   15   26
        clus
vv       DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE
  FEMALE                      10                            15
  MALE                        21                            26
                               vv
clus                            M0 M1 MX
  DEL PEAK 13(9P21.3) CNV       19  1 11
  DEL PEAK 13(9P21.3) WILD-TYPE 29  0 12
D39V4, multiclass
    clus
vv   DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE
  M0                      19                            29
  M1                       1                             0
  MX                      11                            12
                               vv
clus                            N0 N1 NX
  DEL PEAK 13(9P21.3) CNV       20  1 10
  DEL PEAK 13(9P21.3) WILD-TYPE 29  0 11
D39V5, multiclass
    clus
vv   DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE
  N0                      20                            29
  N1                       1                             0
  NX                      10                            11
                               vv
clus                            R0 R1 R2 RX
  DEL PEAK 13(9P21.3) CNV       19  5  1  4
  DEL PEAK 13(9P21.3) WILD-TYPE 31  3  0  4
D39V6, multiclass
    clus
vv   DEL PEAK 13(9P21.3) CNV DEL PEAK 13(9P21.3) WILD-TYPE
  R0                      19                            31
  R1                       5                             3
  R2                       1                             0
  RX                       4                             4
D39V7, continuous
                               vv
clus                            STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 13(9P21.3) CNV             8        6         10          0
  DEL PEAK 13(9P21.3) WILD-TYPE      21        6          6          4
                               vv
clus                            STAGE IIIC STAGE IVB
  DEL PEAK 13(9P21.3) CNV                1         1
  DEL PEAK 13(9P21.3) WILD-TYPE          0         0
D39V8, multiclass

Clustering(40) Variable = Del Peak 14(10q23.31)
D40V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 14(10Q23.31) CNV       13  9
  DEL PEAK 14(10Q23.31) WILD-TYPE 27 17
      DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE 
                             22                              44 
      DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE 
                              9                              17 
$`DEL PEAK 14(10Q23.31) CNV`
TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10W TCGA-BC-A10Y TCGA-BC-A216 
       11.57        37.32        10.13         2.99        23.34        37.61 
TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC 
       13.81         8.28         4.24         0.07         0.10         0.13 
TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A118 TCGA-DD-A11A TCGA-DD-A11C TCGA-DD-A1EL 
       37.74        83.57        22.78         2.60        21.44        13.64 
TCGA-FV-A2QR TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25X 
       19.07        38.63        40.47        44.68 

$`DEL PEAK 14(10Q23.31) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10X TCGA-BC-A10Z 
       48.99        46.78        27.52        27.52        25.32         1.12 
TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A3KF TCGA-CC-5258 TCGA-DD-A113 TCGA-DD-A116 
       69.57         5.03         0.26         0.07        55.17        53.29 
TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB 
        7.33         0.46        51.25        90.67        79.36        66.31 
TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ 
       19.76        53.52         6.67        34.06         6.02        29.16 
TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL 
        4.24         3.62         3.65         1.97         0.62         3.19 
TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25V 
        0.43        22.85        14.40         0.13         1.22        14.27 
TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI 
       12.82        14.86         8.84         8.32         6.31         5.88 
TCGA-G3-A3CJ TCGA-G3-A3CK 
        4.47         0.89 

      DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE 
                           0.07                            0.07 
      DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE 
                          83.57                           90.67 
      DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE 
                          16.44                            8.58 
[1] "0.1 - 83.6 (16.4)" "0.1 - 90.7 (8.6)" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 14(10Q23.31) WILD-TYPE"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "DEL PEAK 14(10Q23.31) CNV"       "DEL PEAK 14(10Q23.31) CNV" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "DEL PEAK 14(10Q23.31) CNV" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 14(10Q23.31) WILD-TYPE" "DEL PEAK 14(10Q23.31) WILD-TYPE" 
[1] "hr=" "1.2"
D40V2, continuous
D40V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 14(10Q23.31) CNV          9   16
  DEL PEAK 14(10Q23.31) WILD-TYPE   16   31
        clus
vv       DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE
  FEMALE                         9                              16
  MALE                          16                              31
                                 vv
clus                              M0 M1 MX
  DEL PEAK 14(10Q23.31) CNV       20  0  5
  DEL PEAK 14(10Q23.31) WILD-TYPE 28  1 18
D40V4, multiclass
    clus
vv   DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE
  M0                        20                              28
  M1                         0                               1
  MX                         5                              18
                                 vv
clus                              N0 N1 NX
  DEL PEAK 14(10Q23.31) CNV       18  0  6
  DEL PEAK 14(10Q23.31) WILD-TYPE 31  1 15
D40V5, multiclass
    clus
vv   DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE
  N0                        18                              31
  N1                         0                               1
  NX                         6                              15
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 14(10Q23.31) CNV       16  3  0  5
  DEL PEAK 14(10Q23.31) WILD-TYPE 34  5  1  3
D40V6, multiclass
    clus
vv   DEL PEAK 14(10Q23.31) CNV DEL PEAK 14(10Q23.31) WILD-TYPE
  R0                        16                              34
  R1                         3                               5
  R2                         0                               1
  RX                         5                               3
D40V7, continuous
                                 vv
clus                              STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 14(10Q23.31) CNV             5        6          9          1
  DEL PEAK 14(10Q23.31) WILD-TYPE      24        6          7          3
                                 vv
clus                              STAGE IIIC STAGE IVB
  DEL PEAK 14(10Q23.31) CNV                0         0
  DEL PEAK 14(10Q23.31) WILD-TYPE          1         1
D40V8, multiclass

Clustering(41) Variable = Del Peak 15(10q24.33)
D41V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 15(10Q24.33) CNV        9  9
  DEL PEAK 15(10Q24.33) WILD-TYPE 31 17
      DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE 
                             18                              48 
      DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE 
                              9                              17 
$`DEL PEAK 15(10Q24.33) CNV`
TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10W TCGA-BC-A112 TCGA-BC-A217 
       11.57        37.32        10.13         2.99         5.03        13.81 
TCGA-CC-A3MA TCGA-CC-A3MC TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A11A TCGA-DD-A11C 
        0.07         0.13        37.74        83.57         2.60        21.44 
TCGA-DD-A1EL TCGA-FV-A2QR TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25X TCGA-G3-A25Y 
       13.64        19.07        38.63        40.47        44.68        14.86 

$`DEL PEAK 15(10Q24.33) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10X TCGA-BC-A10Y 
       48.99        46.78        27.52        27.52        25.32        23.34 
TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A216 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 
        1.12        69.57        37.61         0.26         8.28         0.07 
TCGA-CC-5263 TCGA-CC-A3MB TCGA-DD-A113 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 
        4.24         0.10        55.17        53.29        22.78         7.33 
TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC 
        0.46        51.25        90.67        79.36        66.31        19.76 
TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-EP-A12J 
       53.52         6.67        34.06         6.02        29.16         4.24 
TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK 
        3.62         3.65         1.97         0.62         3.19         0.43 
TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A3R3 TCGA-G3-A25S TCGA-G3-A25V TCGA-G3-A25W 
       22.85        14.40         0.13         1.22        14.27        12.82 
TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.84         8.32         6.31         5.88         4.47         0.89 

      DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE 
                           0.07                            0.07 
      DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE 
                          83.57                           90.67 
      DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE 
                         14.335                           8.580 
[1] "0.1 - 83.6 (14.3)" "0.1 - 90.7 (8.6)" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 15(10Q24.33) CNV"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "DEL PEAK 15(10Q24.33) CNV"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "DEL PEAK 15(10Q24.33) CNV"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 15(10Q24.33) CNV"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "DEL PEAK 15(10Q24.33) CNV"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "DEL PEAK 15(10Q24.33) CNV"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 15(10Q24.33) CNV"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "DEL PEAK 15(10Q24.33) CNV" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 15(10Q24.33) WILD-TYPE"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "DEL PEAK 15(10Q24.33) CNV"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "DEL PEAK 15(10Q24.33) CNV"       "DEL PEAK 15(10Q24.33) CNV" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 15(10Q24.33) WILD-TYPE" "DEL PEAK 15(10Q24.33) WILD-TYPE" 
[1] "hr=" "1.5"
D41V2, continuous
D41V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 15(10Q24.33) CNV          7   14
  DEL PEAK 15(10Q24.33) WILD-TYPE   18   33
        clus
vv       DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE
  FEMALE                         7                              18
  MALE                          14                              33
                                 vv
clus                              M0 M1 MX
  DEL PEAK 15(10Q24.33) CNV       16  0  5
  DEL PEAK 15(10Q24.33) WILD-TYPE 32  1 18
D41V4, multiclass
    clus
vv   DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE
  M0                        16                              32
  M1                         0                               1
  MX                         5                              18
                                 vv
clus                              N0 N1 NX
  DEL PEAK 15(10Q24.33) CNV       15  0  5
  DEL PEAK 15(10Q24.33) WILD-TYPE 34  1 16
D41V5, multiclass
    clus
vv   DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE
  N0                        15                              34
  N1                         0                               1
  NX                         5                              16
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 15(10Q24.33) CNV       13  3  0  4
  DEL PEAK 15(10Q24.33) WILD-TYPE 37  5  1  4
D41V6, multiclass
    clus
vv   DEL PEAK 15(10Q24.33) CNV DEL PEAK 15(10Q24.33) WILD-TYPE
  R0                        13                              37
  R1                         3                               5
  R2                         0                               1
  RX                         4                               4
D41V7, continuous
                                 vv
clus                              STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 15(10Q24.33) CNV             5        5          6          1
  DEL PEAK 15(10Q24.33) WILD-TYPE      24        7         10          3
                                 vv
clus                              STAGE IIIC STAGE IVB
  DEL PEAK 15(10Q24.33) CNV                0         0
  DEL PEAK 15(10Q24.33) WILD-TYPE          1         1
D41V8, multiclass

Clustering(42) Variable = Del Peak 16(11q14.1)
D42V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 16(11Q14.1) CNV        8  6
  DEL PEAK 16(11Q14.1) WILD-TYPE 32 20
      DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE 
                            14                             52 
      DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE 
                             6                             20 
$`DEL PEAK 16(11Q14.1) CNV`
TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10S TCGA-BC-A112 TCGA-BC-A217 TCGA-BC-A3KF 
       11.57        37.32        46.78         5.03        13.81         0.26 
TCGA-CC-5263 TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A11A TCGA-DD-A1E9 TCGA-DD-A1EJ 
        4.24         0.13        55.17         2.60        90.67        29.16 
TCGA-EP-A2KC TCGA-G3-A25S 
        0.62         1.22 

$`DEL PEAK 16(11Q14.1) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10X 
       48.99        10.13        27.52        27.52         2.99        25.32 
TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A216 TCGA-BC-A3KG TCGA-CC-5258 
       23.34         1.12        69.57        37.61         8.28         0.07 
TCGA-CC-A3MA TCGA-CC-A3MB TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 
        0.07         0.10        37.74        83.57        53.29        22.78 
TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1EA TCGA-DD-A1EB 
        7.33         0.46        21.44        51.25        79.36        66.31 
TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EL 
       19.76        53.52         6.67        34.06         6.02        13.64 
TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A3JL TCGA-EP-A3RK 
        4.24         3.62         3.65         1.97         3.19         0.43 
TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25U 
       22.85        14.40        19.07         0.13        38.63        40.47 
TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG 
       14.27        12.82        44.68        14.86         8.84         8.32 
TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        6.31         5.88         4.47         0.89 

      DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE 
                          0.13                           0.07 
      DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE 
                         90.67                          83.57 
      DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE 
                         8.300                         13.955 
[1] "0.1 - 90.7 (8.3)"  "0.1 - 83.6 (14.0)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 16(11Q14.1) WILD-TYPE"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 16(11Q14.1) CNV"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 16(11Q14.1) WILD-TYPE"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 16(11Q14.1) WILD-TYPE"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 16(11Q14.1) WILD-TYPE"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 16(11Q14.1) CNV"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 16(11Q14.1) WILD-TYPE"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 16(11Q14.1) WILD-TYPE"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 16(11Q14.1) WILD-TYPE"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 16(11Q14.1) CNV"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 16(11Q14.1) WILD-TYPE"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "DEL PEAK 16(11Q14.1) CNV" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 16(11Q14.1) WILD-TYPE"       "DEL PEAK 16(11Q14.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 16(11Q14.1) WILD-TYPE" "DEL PEAK 16(11Q14.1) WILD-TYPE" 
[1] "hr=" "1.1"
D42V2, continuous
D42V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 16(11Q14.1) CNV          5   10
  DEL PEAK 16(11Q14.1) WILD-TYPE   20   37
        clus
vv       DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE
  FEMALE                        5                             20
  MALE                         10                             37
                                vv
clus                             M0 M1 MX
  DEL PEAK 16(11Q14.1) CNV       10  0  5
  DEL PEAK 16(11Q14.1) WILD-TYPE 38  1 18
D42V4, multiclass
    clus
vv   DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE
  M0                       10                             38
  M1                        0                              1
  MX                        5                             18
                                vv
clus                             N0 N1 NX
  DEL PEAK 16(11Q14.1) CNV        8  1  6
  DEL PEAK 16(11Q14.1) WILD-TYPE 41  0 15
D42V5, multiclass
    clus
vv   DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE
  N0                        8                             41
  N1                        1                              0
  NX                        6                             15
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 16(11Q14.1) CNV       10  3  0  2
  DEL PEAK 16(11Q14.1) WILD-TYPE 40  5  1  6
D42V6, multiclass
    clus
vv   DEL PEAK 16(11Q14.1) CNV DEL PEAK 16(11Q14.1) WILD-TYPE
  R0                       10                             40
  R1                        3                              5
  R2                        0                              1
  RX                        2                              6
D42V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 16(11Q14.1) CNV             5        2          4          0
  DEL PEAK 16(11Q14.1) WILD-TYPE      24       10         12          4
                                vv
clus                             STAGE IIIC STAGE IVB
  DEL PEAK 16(11Q14.1) CNV                1         0
  DEL PEAK 16(11Q14.1) WILD-TYPE          0         1
D42V8, multiclass

Clustering(43) Variable = Del Peak 17(12p12.1)
D43V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 17(12P12.1) CNV        9  4
  DEL PEAK 17(12P12.1) WILD-TYPE 31 22
      DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE 
                            13                             53 
      DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE 
                             4                             22 
$`DEL PEAK 17(12P12.1) CNV`
TCGA-BC-4073 TCGA-BC-A10Y TCGA-BC-A217 TCGA-BC-A3KF TCGA-CC-A3MA TCGA-CC-A3MC 
       11.57        23.34        13.81         0.26         0.07         0.13 
TCGA-DD-A119 TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A2KC TCGA-G3-A25S 
        7.33        34.06        29.16        13.64         0.62         1.22 
TCGA-G3-A25Z 
        8.84 

$`DEL PEAK 17(12P12.1) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U 
       48.99        37.32        10.13        46.78        27.52        27.52 
TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 
        2.99        25.32         1.12        69.57         5.03        37.61 
TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MB TCGA-DD-A113 TCGA-DD-A114 
        8.28         0.07         4.24         0.10        55.17        37.74 
TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11C 
       83.57        53.29        22.78         2.60         0.46        21.44 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED 
       51.25        90.67        79.36        66.31        19.76        53.52 
TCGA-DD-A1EE TCGA-DD-A1EI TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB 
        6.67         6.02         4.24         3.62         3.65         1.97 
TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 
        3.19         0.43        22.85        14.40        19.07         0.13 
TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y 
       38.63        40.47        14.27        12.82        44.68        14.86 
TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.32         6.31         5.88         4.47         0.89 

      DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE 
                          0.07                           0.07 
      DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE 
                         34.06                          90.67 
      DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE 
                          8.84                          14.40 
[1] "0.1 - 34.1 (8.8)"  "0.1 - 90.7 (14.4)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 17(12P12.1) CNV"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
      "DEL PEAK 17(12P12.1) CNV" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 17(12P12.1) CNV"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "DEL PEAK 17(12P12.1) CNV" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "DEL PEAK 17(12P12.1) CNV" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 17(12P12.1) CNV"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
      "DEL PEAK 17(12P12.1) CNV" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 17(12P12.1) CNV"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "DEL PEAK 17(12P12.1) CNV" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "DEL PEAK 17(12P12.1) CNV" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 17(12P12.1) CNV"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
      "DEL PEAK 17(12P12.1) CNV" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 17(12P12.1) CNV"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
      "DEL PEAK 17(12P12.1) CNV" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 17(12P12.1) WILD-TYPE"       "DEL PEAK 17(12P12.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "DEL PEAK 17(12P12.1) CNV" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 17(12P12.1) WILD-TYPE" "DEL PEAK 17(12P12.1) WILD-TYPE" 
[1] "hr=" "1.9"
D43V2, continuous
D43V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 17(12P12.1) CNV          4   11
  DEL PEAK 17(12P12.1) WILD-TYPE   21   36
        clus
vv       DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE
  FEMALE                        4                             21
  MALE                         11                             36
                                vv
clus                             M0 M1 MX
  DEL PEAK 17(12P12.1) CNV       10  1  4
  DEL PEAK 17(12P12.1) WILD-TYPE 38  0 19
D43V4, multiclass
    clus
vv   DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE
  M0                       10                             38
  M1                        1                              0
  MX                        4                             19
                                vv
clus                             N0 N1 NX
  DEL PEAK 17(12P12.1) CNV       10  1  4
  DEL PEAK 17(12P12.1) WILD-TYPE 39  0 17
D43V5, multiclass
    clus
vv   DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE
  N0                       10                             39
  N1                        1                              0
  NX                        4                             17
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 17(12P12.1) CNV       11  2  1  0
  DEL PEAK 17(12P12.1) WILD-TYPE 39  6  0  8
D43V6, multiclass
    clus
vv   DEL PEAK 17(12P12.1) CNV DEL PEAK 17(12P12.1) WILD-TYPE
  R0                       11                             39
  R1                        2                              6
  R2                        1                              0
  RX                        0                              8
D43V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 17(12P12.1) CNV             4        3          4          1
  DEL PEAK 17(12P12.1) WILD-TYPE      25        9         12          3
                                vv
clus                             STAGE IIIC STAGE IVB
  DEL PEAK 17(12P12.1) CNV                1         1
  DEL PEAK 17(12P12.1) WILD-TYPE          0         0
D43V8, multiclass

Clustering(44) Variable = Del Peak 18(12q24.33)
D44V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 18(12Q24.33) CNV        5  3
  DEL PEAK 18(12Q24.33) WILD-TYPE 35 23
      DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE 
                              8                              58 
      DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE 
                              3                              23 
$`DEL PEAK 18(12Q24.33) CNV`
TCGA-BC-A217 TCGA-CC-A3MA TCGA-CC-A3MC TCGA-DD-A1EH TCGA-DD-A1EL TCGA-EP-A2KC 
       13.81         0.07         0.13        34.06        13.64         0.62 
TCGA-G3-A25W TCGA-G3-A25Y 
       12.82        14.86 

$`DEL PEAK 18(12Q24.33) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T 
       48.99        11.57        37.32        10.13        46.78        27.52 
TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 
       27.52         2.99        25.32        23.34         1.12        69.57 
TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 
        5.03        37.61         0.26         8.28         0.07         4.24 
TCGA-CC-A3MB TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 
        0.10        55.17        37.74        83.57        53.29        22.78 
TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1E9 
        7.33         2.60         0.46        21.44        51.25        90.67 
TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EI 
       79.36        66.31        19.76        53.52         6.67         6.02 
TCGA-DD-A1EJ TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A3JL 
       29.16         4.24         3.62         3.65         1.97         3.19 
TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25S 
        0.43        22.85        14.40        19.07         0.13         1.22 
TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25X TCGA-G3-A25Z TCGA-G3-A3CG 
       38.63        40.47        14.27        44.68         8.84         8.32 
TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        6.31         5.88         4.47         0.89 

      DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE 
                           0.07                            0.07 
      DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE 
                          34.06                           90.67 
      DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE 
                          13.23                           12.92 
[1] "0.1 - 34.1 (13.2)" "0.1 - 90.7 (12.9)"
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 18(12Q24.33) CNV" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
      "DEL PEAK 18(12Q24.33) CNV" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
      "DEL PEAK 18(12Q24.33) CNV" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 18(12Q24.33) CNV" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
      "DEL PEAK 18(12Q24.33) CNV" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
      "DEL PEAK 18(12Q24.33) CNV" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 18(12Q24.33) CNV" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
      "DEL PEAK 18(12Q24.33) CNV" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
      "DEL PEAK 18(12Q24.33) CNV" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
"DEL PEAK 18(12Q24.33) WILD-TYPE"       "DEL PEAK 18(12Q24.33) CNV" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 18(12Q24.33) WILD-TYPE" "DEL PEAK 18(12Q24.33) WILD-TYPE" 
[1] "hr=" "2.5"
D44V2, continuous
D44V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 18(12Q24.33) CNV          5    6
  DEL PEAK 18(12Q24.33) WILD-TYPE   20   41
        clus
vv       DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE
  FEMALE                         5                              20
  MALE                           6                              41
                                 vv
clus                              M0 M1 MX
  DEL PEAK 18(12Q24.33) CNV        9  0  2
  DEL PEAK 18(12Q24.33) WILD-TYPE 39  1 21
D44V4, multiclass
    clus
vv   DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE
  M0                         9                              39
  M1                         0                               1
  MX                         2                              21
                                 vv
clus                              N0 N1 NX
  DEL PEAK 18(12Q24.33) CNV        9  0  2
  DEL PEAK 18(12Q24.33) WILD-TYPE 40  1 19
D44V5, multiclass
    clus
vv   DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE
  N0                         9                              40
  N1                         0                               1
  NX                         2                              19
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 18(12Q24.33) CNV        9  0  0  1
  DEL PEAK 18(12Q24.33) WILD-TYPE 41  8  1  7
D44V6, multiclass
    clus
vv   DEL PEAK 18(12Q24.33) CNV DEL PEAK 18(12Q24.33) WILD-TYPE
  R0                         9                              41
  R1                         0                               8
  R2                         0                               1
  RX                         1                               7
D44V7, continuous
                                 vv
clus                              STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 18(12Q24.33) CNV             2        3          3          3
  DEL PEAK 18(12Q24.33) WILD-TYPE      27        9         13          1
                                 vv
clus                              STAGE IIIC STAGE IVB
  DEL PEAK 18(12Q24.33) CNV                0         0
  DEL PEAK 18(12Q24.33) WILD-TYPE          1         1
D44V8, multiclass

Clustering(45) Variable = Del Peak 19(13q14.2)
D45V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 19(13Q14.2) CNV       15 12
  DEL PEAK 19(13Q14.2) WILD-TYPE 25 14
      DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE 
                            27                             39 
      DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE 
                            12                             14 
$`DEL PEAK 19(13Q14.2) CNV`
TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10W TCGA-BC-A10Y TCGA-BC-A10Z 
       37.32        10.13        27.52         2.99        23.34         1.12 
TCGA-BC-A112 TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5263 TCGA-CC-A3MA 
        5.03        13.81         0.26         8.28         4.24         0.07 
TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 
        0.13        55.17        37.74        83.57        53.29        22.78 
TCGA-DD-A11A TCGA-DD-A11C TCGA-DD-A1EI TCGA-EP-A3RK TCGA-G3-A25S TCGA-G3-A25T 
        2.60        21.44         6.02         0.43         1.22        38.63 
TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A3CH 
       44.68        14.86         6.31 

$`DEL PEAK 19(13Q14.2) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10X TCGA-BC-A110 
       48.99        11.57        46.78        27.52        25.32        69.57 
TCGA-BC-A216 TCGA-CC-5258 TCGA-CC-A3MB TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11D 
       37.61         0.07         0.10         7.33         0.46        51.25 
TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE 
       90.67        79.36        66.31        19.76        53.52         6.67 
TCGA-DD-A1EH TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA 
       34.06        29.16        13.64         4.24         3.62         3.65 
TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR 
        1.97         0.62         3.19        22.85        14.40        19.07 
TCGA-FV-A3R3 TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Z TCGA-G3-A3CG 
        0.13        40.47        14.27        12.82         8.84         8.32 
TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        5.88         4.47         0.89 

      DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE 
                          0.07                           0.07 
      DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE 
                         83.57                          90.67 
      DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE 
                         10.13                          13.64 
[1] "0.1 - 83.6 (10.1)" "0.1 - 90.7 (13.6)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 19(13Q14.2) WILD-TYPE"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 19(13Q14.2) CNV"       "DEL PEAK 19(13Q14.2) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 19(13Q14.2) CNV" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 19(13Q14.2) WILD-TYPE" "DEL PEAK 19(13Q14.2) WILD-TYPE" 
[1] "hr=" "1.5"
D45V2, continuous
D45V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 19(13Q14.2) CNV         12   21
  DEL PEAK 19(13Q14.2) WILD-TYPE   13   26
        clus
vv       DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE
  FEMALE                       12                             13
  MALE                         21                             26
                                vv
clus                             M0 M1 MX
  DEL PEAK 19(13Q14.2) CNV       24  0  9
  DEL PEAK 19(13Q14.2) WILD-TYPE 24  1 14
D45V4, multiclass
    clus
vv   DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE
  M0                       24                             24
  M1                        0                              1
  MX                        9                             14
                                vv
clus                             N0 N1 NX
  DEL PEAK 19(13Q14.2) CNV       23  0  9
  DEL PEAK 19(13Q14.2) WILD-TYPE 26  1 12
D45V5, multiclass
    clus
vv   DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE
  N0                       23                             26
  N1                        0                              1
  NX                        9                             12
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 19(13Q14.2) CNV       21  4  0  5
  DEL PEAK 19(13Q14.2) WILD-TYPE 29  4  1  3
D45V6, multiclass
    clus
vv   DEL PEAK 19(13Q14.2) CNV DEL PEAK 19(13Q14.2) WILD-TYPE
  R0                       21                             29
  R1                        4                              4
  R2                        0                              1
  RX                        5                              3
D45V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 19(13Q14.2) CNV             8        8          9          2
  DEL PEAK 19(13Q14.2) WILD-TYPE      21        4          7          2
                                vv
clus                             STAGE IIIC STAGE IVB
  DEL PEAK 19(13Q14.2) CNV                0         0
  DEL PEAK 19(13Q14.2) WILD-TYPE          1         1
D45V8, multiclass

Clustering(46) Variable = Del Peak 20(14q23.3)
D46V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 20(14Q23.3) CNV       20  6
  DEL PEAK 20(14Q23.3) WILD-TYPE 20 20
      DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE 
                            26                             40 
      DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE 
                             6                             20 
$`DEL PEAK 20(14Q23.3) CNV`
TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10Z TCGA-BC-A112 TCGA-BC-A216 TCGA-BC-A3KF 
       11.57        37.32         1.12         5.03        37.61         0.26 
TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A113 
        8.28         0.07         0.07         0.10         0.13        55.17 
TCGA-DD-A115 TCGA-DD-A118 TCGA-DD-A11A TCGA-DD-A11C TCGA-DD-A1E9 TCGA-DD-A1EI 
       83.57        22.78         2.60        21.44        90.67         6.02 
TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A2KB TCGA-EP-A3RK TCGA-G3-A25S 
       29.16        13.64         4.24         1.97         0.43         1.22 
TCGA-G3-A25X TCGA-G3-A3CH 
       44.68         6.31 

$`DEL PEAK 20(14Q23.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10W 
       48.99        10.13        46.78        27.52        27.52         2.99 
TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A110 TCGA-BC-A217 TCGA-CC-5263 TCGA-DD-A114 
       25.32        23.34        69.57        13.81         4.24        37.74 
TCGA-DD-A116 TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1EA TCGA-DD-A1EB 
       53.29         7.33         0.46        51.25        79.36        66.31 
TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-EP-A26S TCGA-EP-A2KA 
       19.76        53.52         6.67        34.06         3.62         3.65 
TCGA-EP-A2KC TCGA-EP-A3JL TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 
        0.62         3.19        22.85        14.40        19.07         0.13 
TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z 
       38.63        40.47        14.27        12.82        14.86         8.84 
TCGA-G3-A3CG TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.32         5.88         4.47         0.89 

      DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE 
                          0.07                           0.13 
      DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE 
                         90.67                          79.36 
      DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE 
                         6.165                         14.630 
[1] "0.1 - 90.7 (6.2)"  "0.1 - 79.4 (14.6)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 20(14Q23.3) CNV"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 20(14Q23.3) WILD-TYPE"       "DEL PEAK 20(14Q23.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 20(14Q23.3) CNV" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 20(14Q23.3) WILD-TYPE" "DEL PEAK 20(14Q23.3) WILD-TYPE" 
[1] "hr=" "2.4"
D46V2, continuous
D46V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 20(14Q23.3) CNV         10   20
  DEL PEAK 20(14Q23.3) WILD-TYPE   15   27
        clus
vv       DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE
  FEMALE                       10                             15
  MALE                         20                             27
                                vv
clus                             M0 M1 MX
  DEL PEAK 20(14Q23.3) CNV       23  0  7
  DEL PEAK 20(14Q23.3) WILD-TYPE 25  1 16
D46V4, multiclass
    clus
vv   DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE
  M0                       23                             25
  M1                        0                              1
  MX                        7                             16
                                vv
clus                             N0 N1 NX
  DEL PEAK 20(14Q23.3) CNV       22  1  7
  DEL PEAK 20(14Q23.3) WILD-TYPE 27  0 14
D46V5, multiclass
    clus
vv   DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE
  N0                       22                             27
  N1                        1                              0
  NX                        7                             14
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 20(14Q23.3) CNV       20  3  0  5
  DEL PEAK 20(14Q23.3) WILD-TYPE 30  5  1  3
D46V6, multiclass
    clus
vv   DEL PEAK 20(14Q23.3) CNV DEL PEAK 20(14Q23.3) WILD-TYPE
  R0                       20                             30
  R1                        3                              5
  R2                        0                              1
  RX                        5                              3
D46V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 20(14Q23.3) CNV            10        6         10          1
  DEL PEAK 20(14Q23.3) WILD-TYPE      19        6          6          3
                                vv
clus                             STAGE IIIC STAGE IVB
  DEL PEAK 20(14Q23.3) CNV                1         0
  DEL PEAK 20(14Q23.3) WILD-TYPE          0         1
D46V8, multiclass

Clustering(47) Variable = Del Peak 21(14q32.33)
D47V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 21(14Q32.33) CNV       18  8
  DEL PEAK 21(14Q32.33) WILD-TYPE 22 18
      DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE 
                             26                              40 
      DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE 
                              8                              18 
$`DEL PEAK 21(14Q32.33) CNV`
TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10Z TCGA-BC-A112 TCGA-BC-A217 
       37.32        10.13        27.52         1.12         5.03        13.81 
TCGA-BC-A3KF TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC 
        0.26         8.28         0.07         0.07         0.10         0.13 
TCGA-DD-A113 TCGA-DD-A115 TCGA-DD-A11A TCGA-DD-A11C TCGA-DD-A1E9 TCGA-DD-A1EI 
       55.17        83.57         2.60        21.44        90.67         6.02 
TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A2KB TCGA-EP-A3RK TCGA-G3-A25S 
       29.16        13.64         4.24         1.97         0.43         1.22 
TCGA-G3-A25X TCGA-G3-A3CH 
       44.68         6.31 

$`DEL PEAK 21(14Q32.33) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W TCGA-BC-A10X 
       48.99        11.57        46.78        27.52         2.99        25.32 
TCGA-BC-A10Y TCGA-BC-A110 TCGA-BC-A216 TCGA-CC-5263 TCGA-DD-A114 TCGA-DD-A116 
       23.34        69.57        37.61         4.24        37.74        53.29 
TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11D TCGA-DD-A1EA TCGA-DD-A1EB 
       22.78         7.33         0.46        51.25        79.36        66.31 
TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-EP-A26S TCGA-EP-A2KA 
       19.76        53.52         6.67        34.06         3.62         3.65 
TCGA-EP-A2KC TCGA-EP-A3JL TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 
        0.62         3.19        22.85        14.40        19.07         0.13 
TCGA-G3-A25T TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z 
       38.63        40.47        14.27        12.82        14.86         8.84 
TCGA-G3-A3CG TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
        8.32         5.88         4.47         0.89 

      DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE 
                           0.07                            0.13 
      DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE 
                          90.67                           79.36 
      DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE 
                          6.165                          16.965 
[1] "0.1 - 90.7 (6.2)"  "0.1 - 79.4 (17.0)"
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
      "DEL PEAK 21(14Q32.33) CNV"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 21(14Q32.33) WILD-TYPE"       "DEL PEAK 21(14Q32.33) CNV" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
      "DEL PEAK 21(14Q32.33) CNV" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
"DEL PEAK 21(14Q32.33) WILD-TYPE" "DEL PEAK 21(14Q32.33) WILD-TYPE" 
[1] "hr=" "1.4"
D47V2, continuous
D47V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 21(14Q32.33) CNV         10   20
  DEL PEAK 21(14Q32.33) WILD-TYPE   15   27
        clus
vv       DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE
  FEMALE                        10                              15
  MALE                          20                              27
                                 vv
clus                              M0 M1 MX
  DEL PEAK 21(14Q32.33) CNV       22  0  8
  DEL PEAK 21(14Q32.33) WILD-TYPE 26  1 15
D47V4, multiclass
    clus
vv   DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE
  M0                        22                              26
  M1                         0                               1
  MX                         8                              15
                                 vv
clus                              N0 N1 NX
  DEL PEAK 21(14Q32.33) CNV       20  1  9
  DEL PEAK 21(14Q32.33) WILD-TYPE 29  0 12
D47V5, multiclass
    clus
vv   DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE
  N0                        20                              29
  N1                         1                               0
  NX                         9                              12
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 21(14Q32.33) CNV       20  3  0  5
  DEL PEAK 21(14Q32.33) WILD-TYPE 30  5  1  3
D47V6, multiclass
    clus
vv   DEL PEAK 21(14Q32.33) CNV DEL PEAK 21(14Q32.33) WILD-TYPE
  R0                        20                              30
  R1                         3                               5
  R2                         0                               1
  RX                         5                               3
D47V7, continuous
                                 vv
clus                              STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 21(14Q32.33) CNV             9        7          8          1
  DEL PEAK 21(14Q32.33) WILD-TYPE      20        5          8          3
                                 vv
clus                              STAGE IIIC STAGE IVB
  DEL PEAK 21(14Q32.33) CNV                1         0
  DEL PEAK 21(14Q32.33) WILD-TYPE          0         1
D47V8, multiclass

Clustering(48) Variable = Del Peak 22(16q23.1)
D48V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 22(16Q23.1) CNV       18 12
  DEL PEAK 22(16Q23.1) WILD-TYPE 22 14
      DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE 
                            30                             36 
      DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE 
                            12                             14 
$`DEL PEAK 22(16Q23.1) CNV`
TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z 
       10.13        46.78         2.99        25.32        23.34         1.12 
TCGA-BC-A216 TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MA 
       37.61        13.81         8.28         0.07         4.24         0.07 
TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A116 TCGA-DD-A11A 
        0.10         0.13        55.17        37.74        53.29         2.60 
TCGA-DD-A11B TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-EP-A2KB TCGA-ES-A2HS 
        0.46        34.06         6.02        29.16         1.97        22.85 
TCGA-G3-A25S TCGA-G3-A25U TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CH 
        1.22        40.47        44.68        14.86         8.84         6.31 

$`DEL PEAK 22(16Q23.1) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A110 
       48.99        11.57        37.32        27.52        27.52        69.57 
TCGA-BC-A112 TCGA-BC-A3KF TCGA-DD-A115 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11C 
        5.03         0.26        83.57        22.78         7.33        21.44 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED 
       51.25        90.67        79.36        66.31        19.76        53.52 
TCGA-DD-A1EE TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KC 
        6.67        13.64         4.24         3.62         3.65         0.62 
TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25T 
        3.19         0.43        14.40        19.07         0.13        38.63 
TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A3CG TCGA-G3-A3CI TCGA-G3-A3CJ TCGA-G3-A3CK 
       14.27        12.82         8.32         5.88         4.47         0.89 

      DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE 
                          0.07                           0.13 
      DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE 
                         55.17                          90.67 
      DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE 
                         9.485                         13.955 
[1] "0.1 - 55.2 (9.5)"  "0.1 - 90.7 (14.0)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 22(16Q23.1) WILD-TYPE"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 22(16Q23.1) CNV"       "DEL PEAK 22(16Q23.1) CNV" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 22(16Q23.1) CNV" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 22(16Q23.1) WILD-TYPE" "DEL PEAK 22(16Q23.1) WILD-TYPE" 
[1] "hr=" "1.7"
D48V2, continuous
D48V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(16Q23.1) CNV         12   21
  DEL PEAK 22(16Q23.1) WILD-TYPE   13   26
        clus
vv       DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE
  FEMALE                       12                             13
  MALE                         21                             26
                                vv
clus                             M0 M1 MX
  DEL PEAK 22(16Q23.1) CNV       25  0  8
  DEL PEAK 22(16Q23.1) WILD-TYPE 23  1 15
D48V4, multiclass
    clus
vv   DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE
  M0                       25                             23
  M1                        0                              1
  MX                        8                             15
                                vv
clus                             N0 N1 NX
  DEL PEAK 22(16Q23.1) CNV       23  1  8
  DEL PEAK 22(16Q23.1) WILD-TYPE 26  0 13
D48V5, multiclass
    clus
vv   DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE
  N0                       23                             26
  N1                        1                              0
  NX                        8                             13
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 22(16Q23.1) CNV       25  2  0  6
  DEL PEAK 22(16Q23.1) WILD-TYPE 25  6  1  2
D48V6, multiclass
    clus
vv   DEL PEAK 22(16Q23.1) CNV DEL PEAK 22(16Q23.1) WILD-TYPE
  R0                       25                             25
  R1                        2                              6
  R2                        0                              1
  RX                        6                              2
D48V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 22(16Q23.1) CNV            10        7          9          2
  DEL PEAK 22(16Q23.1) WILD-TYPE      19        5          7          2
                                vv
clus                             STAGE IIIC STAGE IVB
  DEL PEAK 22(16Q23.1) CNV                1         0
  DEL PEAK 22(16Q23.1) WILD-TYPE          0         1
D48V8, multiclass

Clustering(49) Variable = Del Peak 23(17p12)
D49V1, survival
                              sevent
clus2                           0  1
  DEL PEAK 23(17P12) CNV       21 19
  DEL PEAK 23(17P12) WILD-TYPE 19  7
      DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE 
                          40                           26 
      DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE 
                          19                            7 
$`DEL PEAK 23(17P12) CNV`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10T TCGA-BC-A10U TCGA-BC-A10Y 
       48.99        11.57        10.13        27.52        27.52        23.34 
TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG 
        1.12        69.57         5.03        13.81         0.26         8.28 
TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A114 
        0.07         4.24         0.07         0.10         0.13        37.74 
TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11C TCGA-DD-A11D 
       83.57        53.29        22.78         7.33        21.44        51.25 
TCGA-DD-A1EA TCGA-DD-A1EB TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A2KC 
       79.36        66.31         6.02        29.16        13.64         0.62 
TCGA-ES-A2HS TCGA-FV-A2QR TCGA-G3-A25S TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W 
       22.85        19.07         1.22        40.47        14.27        12.82 
TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH 
       14.86         8.84         8.32         6.31 

$`DEL PEAK 23(17P12) WILD-TYPE`
TCGA-BC-A10Q TCGA-BC-A10S TCGA-BC-A10W TCGA-BC-A10X TCGA-BC-A216 TCGA-DD-A113 
       37.32        46.78         2.99        25.32        37.61        55.17 
TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A1E9 TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE 
        2.60         0.46        90.67        19.76        53.52         6.67 
TCGA-DD-A1EH TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A3JL 
       34.06         4.24         3.62         3.65         1.97         3.19 
TCGA-EP-A3RK TCGA-ES-A2HT TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25X TCGA-G3-A3CI 
        0.43        14.40         0.13        38.63        44.68         5.88 
TCGA-G3-A3CJ TCGA-G3-A3CK 
        4.47         0.89 

      DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE 
                        0.07                         0.13 
      DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE 
                       83.57                        90.67 
      DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE 
                      13.725                        6.275 
[1] "0.1 - 83.6 (13.7)" "0.1 - 90.7 (6.3)" 
                  TCGA-BC-4072                   TCGA-BC-4073 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10Q                   TCGA-BC-A10R 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10S                   TCGA-BC-A10T 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10U                   TCGA-BC-A10W 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-BC-A10X                   TCGA-BC-A10Y 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10Z                   TCGA-BC-A110 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A112                   TCGA-BC-A216 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-BC-A217                   TCGA-BC-A3KF 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A3KG                   TCGA-CC-5258 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-CC-5263                   TCGA-CC-A3MA 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-CC-A3MB                   TCGA-CC-A3MC 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A113                   TCGA-DD-A114 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A115                   TCGA-DD-A116 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A118                   TCGA-DD-A119 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A11A                   TCGA-DD-A11B 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-DD-A11C                   TCGA-DD-A11D 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A1E9                   TCGA-DD-A1EA 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A1EB                   TCGA-DD-A1EC 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-DD-A1ED                   TCGA-DD-A1EE 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-DD-A1EH                   TCGA-DD-A1EI 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A1EJ                   TCGA-DD-A1EL 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-EP-A12J                   TCGA-EP-A26S 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-EP-A2KA                   TCGA-EP-A2KB 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-EP-A2KC                   TCGA-EP-A3JL 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-EP-A3RK                   TCGA-ES-A2HS 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-ES-A2HT                   TCGA-FV-A2QR 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-FV-A3R3                   TCGA-G3-A25S 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25T                   TCGA-G3-A25U 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25V                   TCGA-G3-A25W 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25X                   TCGA-G3-A25Y 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25Z                   TCGA-G3-A3CG 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A3CH                   TCGA-G3-A3CI 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-G3-A3CJ                   TCGA-G3-A3CK 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-BC-4072                   TCGA-BC-4073 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10Q                   TCGA-BC-A10R 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10S                   TCGA-BC-A10T 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10U                   TCGA-BC-A10W 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-BC-A10X                   TCGA-BC-A10Y 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10Z                   TCGA-BC-A110 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A112                   TCGA-BC-A216 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-BC-A217                   TCGA-BC-A3KF 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A3KG                   TCGA-CC-5258 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-CC-5263                   TCGA-CC-A3MA 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-CC-A3MB                   TCGA-CC-A3MC 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A113                   TCGA-DD-A114 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A115                   TCGA-DD-A116 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A118                   TCGA-DD-A119 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A11A                   TCGA-DD-A11B 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-DD-A11C                   TCGA-DD-A11D 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A1E9                   TCGA-DD-A1EA 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A1EB                   TCGA-DD-A1EC 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-DD-A1ED                   TCGA-DD-A1EE 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-DD-A1EH                   TCGA-DD-A1EI 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A1EJ                   TCGA-DD-A1EL 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-EP-A12J                   TCGA-EP-A26S 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-EP-A2KA                   TCGA-EP-A2KB 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-EP-A2KC                   TCGA-EP-A3JL 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-EP-A3RK                   TCGA-ES-A2HS 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-ES-A2HT                   TCGA-FV-A2QR 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-FV-A3R3                   TCGA-G3-A25S 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25T                   TCGA-G3-A25U 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25V                   TCGA-G3-A25W 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25X                   TCGA-G3-A25Y 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25Z                   TCGA-G3-A3CG 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A3CH                   TCGA-G3-A3CI 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-G3-A3CJ                   TCGA-G3-A3CK 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-BC-4072                   TCGA-BC-4073 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10Q                   TCGA-BC-A10R 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10S                   TCGA-BC-A10T 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10U                   TCGA-BC-A10W 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-BC-A10X                   TCGA-BC-A10Y 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A10Z                   TCGA-BC-A110 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A112                   TCGA-BC-A216 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-BC-A217                   TCGA-BC-A3KF 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-BC-A3KG                   TCGA-CC-5258 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-CC-5263                   TCGA-CC-A3MA 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-CC-A3MB                   TCGA-CC-A3MC 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A113                   TCGA-DD-A114 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A115                   TCGA-DD-A116 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A118                   TCGA-DD-A119 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A11A                   TCGA-DD-A11B 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-DD-A11C                   TCGA-DD-A11D 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A1E9                   TCGA-DD-A1EA 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A1EB                   TCGA-DD-A1EC 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-DD-A1ED                   TCGA-DD-A1EE 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-DD-A1EH                   TCGA-DD-A1EI 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-DD-A1EJ                   TCGA-DD-A1EL 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-EP-A12J                   TCGA-EP-A26S 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-EP-A2KA                   TCGA-EP-A2KB 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-EP-A2KC                   TCGA-EP-A3JL 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-EP-A3RK                   TCGA-ES-A2HS 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-ES-A2HT                   TCGA-FV-A2QR 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-FV-A3R3                   TCGA-G3-A25S 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25T                   TCGA-G3-A25U 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25V                   TCGA-G3-A25W 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25X                   TCGA-G3-A25Y 
"DEL PEAK 23(17P12) WILD-TYPE"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A25Z                   TCGA-G3-A3CG 
      "DEL PEAK 23(17P12) CNV"       "DEL PEAK 23(17P12) CNV" 
                  TCGA-G3-A3CH                   TCGA-G3-A3CI 
      "DEL PEAK 23(17P12) CNV" "DEL PEAK 23(17P12) WILD-TYPE" 
                  TCGA-G3-A3CJ                   TCGA-G3-A3CK 
"DEL PEAK 23(17P12) WILD-TYPE" "DEL PEAK 23(17P12) WILD-TYPE" 
[1] "hr=" "2"  
D49V2, continuous
D49V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 23(17P12) CNV         15   29
  DEL PEAK 23(17P12) WILD-TYPE   10   18
        clus
vv       DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE
  FEMALE                     15                           10
  MALE                       29                           18
                              vv
clus                           M0 M1 MX
  DEL PEAK 23(17P12) CNV       32  1 11
  DEL PEAK 23(17P12) WILD-TYPE 16  0 12
D49V4, multiclass
    clus
vv   DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE
  M0                     32                           16
  M1                      1                            0
  MX                     11                           12
                              vv
clus                           N0 N1 NX
  DEL PEAK 23(17P12) CNV       32  1 10
  DEL PEAK 23(17P12) WILD-TYPE 17  0 11
D49V5, multiclass
    clus
vv   DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE
  N0                     32                           17
  N1                      1                            0
  NX                     10                           11
                              vv
clus                           R0 R1 R2 RX
  DEL PEAK 23(17P12) CNV       30  6  1  5
  DEL PEAK 23(17P12) WILD-TYPE 20  2  0  3
D49V6, multiclass
    clus
vv   DEL PEAK 23(17P12) CNV DEL PEAK 23(17P12) WILD-TYPE
  R0                     30                           20
  R1                      6                            2
  R2                      1                            0
  RX                      5                            3
D49V7, continuous
                              vv
clus                           STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 23(17P12) CNV            16        8         10          2
  DEL PEAK 23(17P12) WILD-TYPE      13        4          6          2
                              vv
clus                           STAGE IIIC STAGE IVB
  DEL PEAK 23(17P12) CNV                1         1
  DEL PEAK 23(17P12) WILD-TYPE          0         0
D49V8, multiclass

Clustering(50) Variable = Del Peak 24(19p13.3)
D50V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 24(19P13.3) CNV       11  5
  DEL PEAK 24(19P13.3) WILD-TYPE 29 21
      DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE 
                            16                             50 
      DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE 
                             5                             21 
$`DEL PEAK 24(19P13.3) CNV`
TCGA-BC-A10W TCGA-BC-A112 TCGA-BC-A3KF TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MC 
        2.99         5.03         0.26         0.07         4.24         0.13 
TCGA-DD-A113 TCGA-DD-A115 TCGA-DD-A118 TCGA-DD-A11A TCGA-DD-A1EI TCGA-DD-A1EJ 
       55.17        83.57        22.78         2.60         6.02        29.16 
TCGA-DD-A1EL TCGA-G3-A25S TCGA-G3-A25X TCGA-G3-A3CH 
       13.64         1.22        44.68         6.31 

$`DEL PEAK 24(19P13.3) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10Q TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10T 
       48.99        11.57        37.32        10.13        46.78        27.52 
TCGA-BC-A10U TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A216 
       27.52        25.32        23.34         1.12        69.57        37.61 
TCGA-BC-A217 TCGA-BC-A3KG TCGA-CC-A3MA TCGA-CC-A3MB TCGA-DD-A114 TCGA-DD-A116 
       13.81         8.28         0.07         0.10        37.74        53.29 
TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA 
        7.33         0.46        21.44        51.25        90.67        79.36 
TCGA-DD-A1EB TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-EP-A12J 
       66.31        19.76        53.52         6.67        34.06         4.24 
TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KB TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK 
        3.62         3.65         1.97         0.62         3.19         0.43 
TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25T TCGA-G3-A25U 
       22.85        14.40        19.07         0.13        38.63        40.47 
TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CI 
       14.27        12.82        14.86         8.84         8.32         5.88 
TCGA-G3-A3CJ TCGA-G3-A3CK 
        4.47         0.89 

      DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE 
                          0.07                           0.07 
      DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE 
                         83.57                          90.67 
      DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE 
                         5.525                         14.335 
[1] "0.1 - 83.6 (5.5)"  "0.1 - 90.7 (14.3)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 24(19P13.3) CNV"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 24(19P13.3) CNV"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A115                     TCGA-DD-A116 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
      "DEL PEAK 24(19P13.3) CNV"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 24(19P13.3) WILD-TYPE"       "DEL PEAK 24(19P13.3) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
      "DEL PEAK 24(19P13.3) CNV" "DEL PEAK 24(19P13.3) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 24(19P13.3) WILD-TYPE" "DEL PEAK 24(19P13.3) WILD-TYPE" 
[1] "hr=" "1.1"
D50V2, continuous
D50V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(19P13.3) CNV          5   13
  DEL PEAK 24(19P13.3) WILD-TYPE   20   34
        clus
vv       DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE
  FEMALE                        5                             20
  MALE                         13                             34
                                vv
clus                             M0 M1 MX
  DEL PEAK 24(19P13.3) CNV       15  0  3
  DEL PEAK 24(19P13.3) WILD-TYPE 33  1 20
D50V4, multiclass
    clus
vv   DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE
  M0                       15                             33
  M1                        0                              1
  MX                        3                             20
                                vv
clus                             N0 N1 NX
  DEL PEAK 24(19P13.3) CNV       14  1  3
  DEL PEAK 24(19P13.3) WILD-TYPE 35  0 18
D50V5, multiclass
    clus
vv   DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE
  N0                       14                             35
  N1                        1                              0
  NX                        3                             18
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 24(19P13.3) CNV       13  2  0  2
  DEL PEAK 24(19P13.3) WILD-TYPE 37  6  1  6
D50V6, multiclass
    clus
vv   DEL PEAK 24(19P13.3) CNV DEL PEAK 24(19P13.3) WILD-TYPE
  R0                       13                             37
  R1                        2                              6
  R2                        0                              1
  RX                        2                              6
D50V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 24(19P13.3) CNV             5        5          5          0
  DEL PEAK 24(19P13.3) WILD-TYPE      24        7         11          4
                                vv
clus                             STAGE IIIC STAGE IVB
  DEL PEAK 24(19P13.3) CNV                1         0
  DEL PEAK 24(19P13.3) WILD-TYPE          0         1
D50V8, multiclass

Clustering(51) Variable = Del Peak 25(22q12.1)
D51V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 25(22Q12.1) CNV        8  3
  DEL PEAK 25(22Q12.1) WILD-TYPE 32 23
      DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE 
                            11                             55 
      DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE 
                             3                             23 
$`DEL PEAK 25(22Q12.1) CNV`
TCGA-BC-A10Q TCGA-BC-A10T TCGA-BC-A217 TCGA-BC-A3KF TCGA-DD-A113 TCGA-DD-A114 
       37.32        27.52        13.81         0.26        55.17        37.74 
TCGA-DD-A11A TCGA-DD-A1EB TCGA-EP-A2KB TCGA-G3-A25S TCGA-G3-A25T 
        2.60        66.31         1.97         1.22        38.63 

$`DEL PEAK 25(22Q12.1) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W 
       48.99        11.57        10.13        46.78        27.52         2.99 
TCGA-BC-A10X TCGA-BC-A10Y TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 
       25.32        23.34         1.12        69.57         5.03        37.61 
TCGA-BC-A3KG TCGA-CC-5258 TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC 
        8.28         0.07         4.24         0.07         0.10         0.13 
TCGA-DD-A115 TCGA-DD-A116 TCGA-DD-A118 TCGA-DD-A119 TCGA-DD-A11B TCGA-DD-A11C 
       83.57        53.29        22.78         7.33         0.46        21.44 
TCGA-DD-A11D TCGA-DD-A1E9 TCGA-DD-A1EA TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE 
       51.25        90.67        79.36        19.76        53.52         6.67 
TCGA-DD-A1EH TCGA-DD-A1EI TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S 
       34.06         6.02        29.16        13.64         4.24         3.62 
TCGA-EP-A2KA TCGA-EP-A2KC TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT 
        3.65         0.62         3.19         0.43        22.85        14.40 
TCGA-FV-A2QR TCGA-FV-A3R3 TCGA-G3-A25U TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X 
       19.07         0.13        40.47        14.27        12.82        44.68 
TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CJ 
       14.86         8.84         8.32         6.31         5.88         4.47 
TCGA-G3-A3CK 
        0.89 

      DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE 
                          0.26                           0.07 
      DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE 
                         66.31                          90.67 
      DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE 
                         27.52                          11.57 
[1] "0.3 - 66.3 (27.5)" "0.1 - 90.7 (11.6)"
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 25(22Q12.1) WILD-TYPE"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 25(22Q12.1) CNV"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 25(22Q12.1) CNV"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 25(22Q12.1) WILD-TYPE"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 25(22Q12.1) WILD-TYPE"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 25(22Q12.1) WILD-TYPE"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 25(22Q12.1) CNV"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 25(22Q12.1) CNV"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 25(22Q12.1) WILD-TYPE"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 25(22Q12.1) WILD-TYPE"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-4072                     TCGA-BC-4073 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10Q                     TCGA-BC-A10R 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10S                     TCGA-BC-A10T 
"DEL PEAK 25(22Q12.1) WILD-TYPE"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-BC-A10U                     TCGA-BC-A10W 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10X                     TCGA-BC-A10Y 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A10Z                     TCGA-BC-A110 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A112                     TCGA-BC-A216 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-BC-A217                     TCGA-BC-A3KF 
      "DEL PEAK 25(22Q12.1) CNV"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-BC-A3KG                     TCGA-CC-5258 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-CC-5263                     TCGA-CC-A3MA 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-CC-A3MB                     TCGA-CC-A3MC 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A113                     TCGA-DD-A114 
      "DEL PEAK 25(22Q12.1) CNV"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-DD-A115                     TCGA-DD-A116 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A118                     TCGA-DD-A119 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A11A                     TCGA-DD-A11B 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A11C                     TCGA-DD-A11D 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1E9                     TCGA-DD-A1EA 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1EB                     TCGA-DD-A1EC 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1ED                     TCGA-DD-A1EE 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1EH                     TCGA-DD-A1EI 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-DD-A1EJ                     TCGA-DD-A1EL 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-EP-A12J                     TCGA-EP-A26S 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-EP-A2KA                     TCGA-EP-A2KB 
"DEL PEAK 25(22Q12.1) WILD-TYPE"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-EP-A2KC                     TCGA-EP-A3JL 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-EP-A3RK                     TCGA-ES-A2HS 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-ES-A2HT                     TCGA-FV-A2QR 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-FV-A3R3                     TCGA-G3-A25S 
"DEL PEAK 25(22Q12.1) WILD-TYPE"       "DEL PEAK 25(22Q12.1) CNV" 
                    TCGA-G3-A25T                     TCGA-G3-A25U 
      "DEL PEAK 25(22Q12.1) CNV" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A25V                     TCGA-G3-A25W 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A25X                     TCGA-G3-A25Y 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A25Z                     TCGA-G3-A3CG 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A3CH                     TCGA-G3-A3CI 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
                    TCGA-G3-A3CJ                     TCGA-G3-A3CK 
"DEL PEAK 25(22Q12.1) WILD-TYPE" "DEL PEAK 25(22Q12.1) WILD-TYPE" 
[1] "hr=" "1.8"
D51V2, continuous
D51V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 25(22Q12.1) CNV          8    6
  DEL PEAK 25(22Q12.1) WILD-TYPE   17   41
        clus
vv       DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE
  FEMALE                        8                             17
  MALE                          6                             41
                                vv
clus                             M0 M1 MX
  DEL PEAK 25(22Q12.1) CNV       11  0  3
  DEL PEAK 25(22Q12.1) WILD-TYPE 37  1 20
D51V4, multiclass
    clus
vv   DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE
  M0                       11                             37
  M1                        0                              1
  MX                        3                             20
                                vv
clus                             N0 N1 NX
  DEL PEAK 25(22Q12.1) CNV        8  0  5
  DEL PEAK 25(22Q12.1) WILD-TYPE 41  1 16
D51V5, multiclass
    clus
vv   DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE
  N0                        8                             41
  N1                        0                              1
  NX                        5                             16
                                vv
clus                             R0 R1 R2 RX
  DEL PEAK 25(22Q12.1) CNV        8  3  0  2
  DEL PEAK 25(22Q12.1) WILD-TYPE 42  5  1  6
D51V6, multiclass
    clus
vv   DEL PEAK 25(22Q12.1) CNV DEL PEAK 25(22Q12.1) WILD-TYPE
  R0                        8                             42
  R1                        3                              5
  R2                        0                              1
  RX                        2                              6
D51V7, continuous
                                vv
clus                             STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 25(22Q12.1) CNV             5        4          2          1
  DEL PEAK 25(22Q12.1) WILD-TYPE      24        8         14          3
                                vv
clus                             STAGE IIIC STAGE IVB
  DEL PEAK 25(22Q12.1) CNV                0         0
  DEL PEAK 25(22Q12.1) WILD-TYPE          1         1
D51V8, multiclass

Clustering(52) Variable = Del Peak 26(22q13.32)
D52V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 26(22Q13.32) CNV        9  6
  DEL PEAK 26(22Q13.32) WILD-TYPE 31 20
      DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE 
                             15                              51 
      DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE 
                              6                              20 
$`DEL PEAK 26(22Q13.32) CNV`
TCGA-BC-A10Q TCGA-BC-A10T TCGA-BC-A10Y TCGA-BC-A217 TCGA-BC-A3KF TCGA-BC-A3KG 
       37.32        27.52        23.34        13.81         0.26         8.28 
TCGA-DD-A113 TCGA-DD-A114 TCGA-DD-A115 TCGA-DD-A1EB TCGA-EP-A2KB TCGA-FV-A2QR 
       55.17        37.74        83.57        66.31         1.97        19.07 
TCGA-G3-A25S TCGA-G3-A25T TCGA-G3-A3CJ 
        1.22        38.63         4.47 

$`DEL PEAK 26(22Q13.32) WILD-TYPE`
TCGA-BC-4072 TCGA-BC-4073 TCGA-BC-A10R TCGA-BC-A10S TCGA-BC-A10U TCGA-BC-A10W 
       48.99        11.57        10.13        46.78        27.52         2.99 
TCGA-BC-A10X TCGA-BC-A10Z TCGA-BC-A110 TCGA-BC-A112 TCGA-BC-A216 TCGA-CC-5258 
       25.32         1.12        69.57         5.03        37.61         0.07 
TCGA-CC-5263 TCGA-CC-A3MA TCGA-CC-A3MB TCGA-CC-A3MC TCGA-DD-A116 TCGA-DD-A118 
        4.24         0.07         0.10         0.13        53.29        22.78 
TCGA-DD-A119 TCGA-DD-A11A TCGA-DD-A11B TCGA-DD-A11C TCGA-DD-A11D TCGA-DD-A1E9 
        7.33         2.60         0.46        21.44        51.25        90.67 
TCGA-DD-A1EA TCGA-DD-A1EC TCGA-DD-A1ED TCGA-DD-A1EE TCGA-DD-A1EH TCGA-DD-A1EI 
       79.36        19.76        53.52         6.67        34.06         6.02 
TCGA-DD-A1EJ TCGA-DD-A1EL TCGA-EP-A12J TCGA-EP-A26S TCGA-EP-A2KA TCGA-EP-A2KC 
       29.16        13.64         4.24         3.62         3.65         0.62 
TCGA-EP-A3JL TCGA-EP-A3RK TCGA-ES-A2HS TCGA-ES-A2HT TCGA-FV-A3R3 TCGA-G3-A25U 
        3.19         0.43        22.85        14.40         0.13        40.47 
TCGA-G3-A25V TCGA-G3-A25W TCGA-G3-A25X TCGA-G3-A25Y TCGA-G3-A25Z TCGA-G3-A3CG 
       14.27        12.82        44.68        14.86         8.84         8.32 
TCGA-G3-A3CH TCGA-G3-A3CI TCGA-G3-A3CK 
        6.31         5.88         0.89 

      DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE 
                           0.26                            0.07 
      DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE 
                          83.57                           90.67 
      DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE 
                          23.34                           10.13 
[1] "0.3 - 83.6 (23.3)" "0.1 - 90.7 (10.1)"
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 26(22Q13.32) CNV"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "DEL PEAK 26(22Q13.32) CNV"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 26(22Q13.32) CNV"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "DEL PEAK 26(22Q13.32) CNV"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-4072                      TCGA-BC-4073 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A10Q                      TCGA-BC-A10R 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A10S                      TCGA-BC-A10T 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-BC-A10U                      TCGA-BC-A10W 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A10X                      TCGA-BC-A10Y 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-BC-A10Z                      TCGA-BC-A110 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A112                      TCGA-BC-A216 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-BC-A217                      TCGA-BC-A3KF 
      "DEL PEAK 26(22Q13.32) CNV"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-BC-A3KG                      TCGA-CC-5258 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-CC-5263                      TCGA-CC-A3MA 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-CC-A3MB                      TCGA-CC-A3MC 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A113                      TCGA-DD-A114 
      "DEL PEAK 26(22Q13.32) CNV"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-DD-A115                      TCGA-DD-A116 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A118                      TCGA-DD-A119 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A11A                      TCGA-DD-A11B 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A11C                      TCGA-DD-A11D 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1E9                      TCGA-DD-A1EA 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1EB                      TCGA-DD-A1EC 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1ED                      TCGA-DD-A1EE 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1EH                      TCGA-DD-A1EI 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-DD-A1EJ                      TCGA-DD-A1EL 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-EP-A12J                      TCGA-EP-A26S 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-EP-A2KA                      TCGA-EP-A2KB 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-EP-A2KC                      TCGA-EP-A3JL 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-EP-A3RK                      TCGA-ES-A2HS 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-ES-A2HT                      TCGA-FV-A2QR 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-FV-A3R3                      TCGA-G3-A25S 
"DEL PEAK 26(22Q13.32) WILD-TYPE"       "DEL PEAK 26(22Q13.32) CNV" 
                     TCGA-G3-A25T                      TCGA-G3-A25U 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A25V                      TCGA-G3-A25W 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A25X                      TCGA-G3-A25Y 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A25Z                      TCGA-G3-A3CG 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A3CH                      TCGA-G3-A3CI 
"DEL PEAK 26(22Q13.32) WILD-TYPE" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
                     TCGA-G3-A3CJ                      TCGA-G3-A3CK 
      "DEL PEAK 26(22Q13.32) CNV" "DEL PEAK 26(22Q13.32) WILD-TYPE" 
[1] "hr=" "1.4"
D52V2, continuous
D52V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 26(22Q13.32) CNV          9    9
  DEL PEAK 26(22Q13.32) WILD-TYPE   16   38
        clus
vv       DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE
  FEMALE                         9                              16
  MALE                           9                              38
                                 vv
clus                              M0 M1 MX
  DEL PEAK 26(22Q13.32) CNV       14  0  4
  DEL PEAK 26(22Q13.32) WILD-TYPE 34  1 19
D52V4, multiclass
    clus
vv   DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE
  M0                        14                              34
  M1                         0                               1
  MX                         4                              19
                                 vv
clus                              N0 N1 NX
  DEL PEAK 26(22Q13.32) CNV       11  0  6
  DEL PEAK 26(22Q13.32) WILD-TYPE 38  1 15
D52V5, multiclass
    clus
vv   DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE
  N0                        11                              38
  N1                         0                               1
  NX                         6                              15
                                 vv
clus                              R0 R1 R2 RX
  DEL PEAK 26(22Q13.32) CNV       11  3  0  3
  DEL PEAK 26(22Q13.32) WILD-TYPE 39  5  1  5
D52V6, multiclass
    clus
vv   DEL PEAK 26(22Q13.32) CNV DEL PEAK 26(22Q13.32) WILD-TYPE
  R0                        11                              39
  R1                         3                               5
  R2                         0                               1
  RX                         3                               5
D52V7, continuous
                                 vv
clus                              STAGE I STAGE II STAGE IIIA STAGE IIIB
  DEL PEAK 26(22Q13.32) CNV             5        6          3          1
  DEL PEAK 26(22Q13.32) WILD-TYPE      24        6         13          3
                                 vv
clus                              STAGE IIIC STAGE IVB
  DEL PEAK 26(22Q13.32) CNV                0         0
  DEL PEAK 26(22Q13.32) WILD-TYPE          1         1
D52V8, multiclass
                       V1.D                          V2 
            "Time to Death"                       "AGE" 
                         V3                          V4 
                   "GENDER"        "DISTANT.METASTASIS" 
                         V5                          V6 
    "LYMPH.NODE.METASTASIS" "COMPLETENESS.OF.RESECTION" 
                         V7                          V8 
          "TUMOR.STAGECODE"     "NEOPLASM.DISEASESTAGE" 
> q(save="no")
