
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/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/12/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/ESCA-TP/8278444/transformed.cor.cli.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/ESCA-TP/8142806/ESCA-TP.merged_data.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=ESCA-TP", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"         "-oT=ESCA-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/Append_Data/ESCA-TP/8142806/ESCA-TP.merged_data.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/ESCA-TP/8278444/transformed.cor.cli.txt"

nPatients in clinical file=57, in cluster file=103, common to both=56
[1] 71 56
[1] "AMP PEAK  1(1P34.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                           10                            46 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                           10                            46 
[1] "AMP PEAK  2(1Q21.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           26                            30 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           26                            30 
[1] "AMP PEAK  3(2Q14.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE 
                           17                            39 
  AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE 
                           17                            39 
[1] "AMP PEAK  4(3Q26.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE 
                           44                            12 
  AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE 
                           44                            12 
[1] "AMP PEAK  5(5P15.33) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                            30                             26 
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                            30                             26 
[1] "AMP PEAK  6(6P21.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE 
                           17                            39 
  AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE 
                           17                            39 
[1] "AMP PEAK  7(7P22.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE 
                           38                            18 
  AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE 
                           38                            18 
[1] "AMP PEAK  8(7P11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                           41                            15 
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                           41                            15 
[1] "AMP PEAK  9(7Q21.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE 
                           38                            18 
  AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE 
                           38                            18 
[1] "AMP PEAK 10(8P11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE 
                            29                             27 
  AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE 
                            29                             27 
[1] "AMP PEAK 11(8Q24.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                            46                             10 
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                            46                             10 
[1] "AMP PEAK 12(9P13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                           10                            46 
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                           10                            46 
[1] "AMP PEAK 13(10P11.21) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE 
                             13                              43 
  AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE 
                             13                              43 
[1] "AMP PEAK 14(11P13) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE 
                          14                           42 
  AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE 
                          14                           42 
[1] "AMP PEAK 15(11Q13.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                            33                             23 
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                            33                             23 
[1] "AMP PEAK 16(12P13.33) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE 
                             24                              32 
  AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE 
                             24                              32 
[1] "AMP PEAK 17(12P12.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE 
                            30                             26 
  AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE 
                            30                             26 
[1] "AMP PEAK 18(13Q22.1) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE 
                            16                             40 
  AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE 
                            16                             40 
[1] "AMP PEAK 19(15Q26.3) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE 
                            17                             39 
  AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE 
                            17                             39 
[1] "AMP PEAK 20(17Q12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE 
                          23                           33 
  AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE 
                          23                           33 
[1] "AMP PEAK 21(18P11.32) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE 
                             23                              33 
  AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE 
                             23                              33 
[1] "AMP PEAK 22(18Q11.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE 
                            17                             39 
  AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE 
                            17                             39 
[1] "AMP PEAK 23(19P13.2) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE 
                            12                             44 
  AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE 
                            12                             44 
[1] "AMP PEAK 24(19Q12) MUTATION ANALYSIS"
[1] 3
  AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE 
                          16                           40 
  AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE 
                          16                           40 
[1] "DEL PEAK  1(1P36.13) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                            17                             39 
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                            17                             39 
[1] "DEL PEAK  2(1P13.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE 
                           18                            38 
  DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE 
                           18                            38 
[1] "DEL PEAK  3(1Q44) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE 
                          9                          47 
  DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE 
                          9                          47 
[1] "DEL PEAK  4(2Q22.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE 
                           16                            40 
  DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE 
                           16                            40 
[1] "DEL PEAK  5(2Q33.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE 
                           10                            46 
  DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE 
                           10                            46 
[1] "DEL PEAK  6(3P14.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE 
                           43                            13 
  DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE 
                           43                            13 
[1] "DEL PEAK  7(3P14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE 
                           43                            13 
  DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE 
                           43                            13 
[1] "DEL PEAK  8(3Q11.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE 
                            5                            51 
  DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE 
                            5                            51 
[1] "DEL PEAK  9(3Q26.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE 
                             4                             52 
  DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE 
                             4                             52 
[1] "DEL PEAK 10(4P16.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE 
                           29                            27 
  DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE 
                           29                            27 
[1] "DEL PEAK 11(4P15.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE 
                           33                            23 
  DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE 
                           33                            23 
[1] "DEL PEAK 12(4Q21.23) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE 
                            28                             28 
  DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE 
                            28                             28 
[1] "DEL PEAK 13(4Q22.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE 
                           30                            26 
  DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE 
                           30                            26 
[1] "DEL PEAK 14(5Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE 
                           31                            25 
  DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE 
                           31                            25 
[1] "DEL PEAK 15(6P25.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE 
                           21                            35 
  DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE 
                           21                            35 
[1] "DEL PEAK 16(6Q16.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE 
                           13                            43 
  DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE 
                           13                            43 
[1] "DEL PEAK 17(6Q26) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE 
                         13                          43 
  DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE 
                         13                          43 
[1] "DEL PEAK 18(7Q31.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE 
                           20                            36 
  DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE 
                           20                            36 
[1] "DEL PEAK 19(7Q36.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE 
                           24                            32 
  DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE 
                           24                            32 
[1] "DEL PEAK 20(8P23.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE 
                           29                            27 
  DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE 
                           29                            27 
[1] "DEL PEAK 21(9P21.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE 
                           47                             9 
  DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE 
                           47                             9 
[1] "DEL PEAK 22(10P15.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE 
                            17                             39 
  DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE 
                            17                             39 
[1] "DEL PEAK 23(10P11.21) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE 
                             14                              42 
  DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE 
                             14                              42 
[1] "DEL PEAK 24(10Q22.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE 
                            20                             36 
  DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE 
                            20                             36 
[1] "DEL PEAK 25(10Q23.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE 
                             23                              33 
  DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE 
                             23                              33 
[1] "DEL PEAK 26(11P15.4) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE 
                            22                             34 
  DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE 
                            22                             34 
[1] "DEL PEAK 27(11Q24.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE 
                            28                             28 
  DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE 
                            28                             28 
[1] "DEL PEAK 28(12Q23.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE 
                            13                             43 
  DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE 
                            13                             43 
[1] "DEL PEAK 29(13Q14.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                            29                             27 
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                            29                             27 
[1] "DEL PEAK 30(13Q21.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE 
                            26                             30 
  DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE 
                            26                             30 
[1] "DEL PEAK 31(15Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE 
                            18                             38 
  DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE 
                            18                             38 
[1] "DEL PEAK 32(16P13.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE 
                            12                             44 
  DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE 
                            12                             44 
[1] "DEL PEAK 33(16Q23.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE 
                            21                             35 
  DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE 
                            21                             35 
[1] "DEL PEAK 34(17P11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE 
                            22                             34 
  DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE 
                            22                             34 
[1] "DEL PEAK 35(17Q24.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE 
                             5                             51 
  DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE 
                             5                             51 
[1] "DEL PEAK 36(17Q25.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE 
                            12                             44 
  DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE 
                            12                             44 
[1] "DEL PEAK 37(18Q12.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE 
                            33                             23 
  DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE 
                            33                             23 
[1] "DEL PEAK 38(18Q21.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE 
                            33                             23 
  DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE 
                            33                             23 
[1] "DEL PEAK 39(19P13.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE 
                            24                             32 
  DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE 
                            24                             32 
[1] "DEL PEAK 40(19Q13.31) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE 
                             17                              39 
  DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE 
                             17                              39 
[1] "DEL PEAK 41(20P12.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE 
                             8                             48 
  DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE 
                             8                             48 
[1] "DEL PEAK 42(21Q11.2) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE 
                            34                             22 
  DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE 
                            34                             22 
[1] "DEL PEAK 43(21Q22.12) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE 
                             30                              26 
  DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE 
                             30                              26 
[1] "DEL PEAK 44(22Q12.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE 
                            21                             35 
  DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE 
                            21                             35 
[1] "DEL PEAK 45(XP21.1) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE 
                           25                            31 
  DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE 
                           25                            31 
[1] "DEL PEAK 46(XP11.3) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE 
                           29                            27 
  DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE 
                           29                            27 
[1] "DEL PEAK 47(XQ21.33) MUTATION ANALYSIS"
[1] 3
  DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE 
                            10                             46 
  DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE 
                            10                             46 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [1] "YEARSTOBIRTH"                          
 [2] "VITALSTATUS"                           
 [3] "DAYSTODEATH"                           
 [4] "DAYSTOLASTFOLLOWUP"                    
 [5] "NEOPLASM.DISEASESTAGE"                 
 [6] "PATHOLOGY.T.STAGE"                     
 [7] "PATHOLOGY.N.STAGE"                     
 [8] "PATHOLOGY.M.STAGE"                     
 [9] "DCCUPLOADDATE"                         
[10] "GENDER"                                
[11] "RADIATIONS.RADIATION.REGIMENINDICATION"
[12] "NUMBERPACKYEARSSMOKED"                 
[13] "GLEASON_SCORE"                         
[14] "PSA_VALUE"                             
[15] "DAYS_TO_PSA"                           
[16] "BATCHNUMBER"                           

Input Data has 16 rows and 56 columns.

[1] "Batch" "16"   
[1] "Last Follow UP"
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
         611           NA          632           80          612            1 
TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A51D TCGA-IG-A5B8 TCGA-IG-A625 
           8           30           16           NA           NA           11 
TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG 
           4           34           NA          107          112          102 
TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OR 
         124           NA          101          218           NA           NA 
TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ 
         935           NA          882           NA           NA          266 
TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49P TCGA-LN-A49R TCGA-LN-A49S 
           5            2           10           NA            3            4 
TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A1 
           2            3            2            3            2           NA 
TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 
           4            2            3            3            3            2 
TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
           2            3            2           NA          115           NA 
TCGA-S8-A6BV TCGA-S8-A6BW 
         267          426 
Variable 1:'AGE':	nDistinctValues=33,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 2:'VITALSTATUS':	nDistinctValues=2,	numeric=TRUE,	binary=TRUE,	exclude=FALSE.
Variable 3:'DAYSTODEATH':	nDistinctValues=13,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 4:'DAYSTOLASTFOLLOWUP':	nDistinctValues=28,	numeric=TRUE,	binary=FALSE,	exclude=TRUE.
Variable 5:'NEOPLASM.DISEASESTAGE':	nDistinctValues=11,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'PATHOLOGY.T.STAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'PATHOLOGY.N.STAGE':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'PATHOLOGY.M.STAGE':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'DCCUPLOADDAY':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 10:'GENDER':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'RADIATIONS.RADIATION.REGIMENINDICATION':	nDistinctValues=1,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'NUMBERPACKYEARSSMOKED':	nDistinctValues=17,	numeric=TRUE,	binary=FALSE,	exclude=FALSE.
Variable 13:'GLEASON_SCORE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 14:'PSA_VALUE':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 15:'DAYS_TO_PSA':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 16:'BATCH.NUMBER':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
[1] "AGE"                   "NEOPLASM.DISEASESTAGE" "PATHOLOGY.T.STAGE"    
[4] "PATHOLOGY.N.STAGE"     "PATHOLOGY.M.STAGE"     "GENDER"               
[7] "NUMBERPACKYEARSSMOKED"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T" "3"          
[1] "PATHOLOGY.N" "4"          
Output Data has 56 columns, 1 survival variables, and 7 non-survival variables.
AGE, nv=33, binary=FALSE, numeric=TRUE
NEOPLASM.DISEASESTAGE, nv=11, binary=FALSE, numeric=FALSE
PATHOLOGY.T.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.T',vnm)"
vv
T1 T2 T3 T4 
 6 15 31  3 
[1] "table(vv)"
vv
   T1    T2 T3+T4 
    6    15    34 
$ClinVariableName
[1] "PATHOLOGY.T.STAGE"

$Table
vv
T1 T2 T3 T4 
 6 15 31  3 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


   T1    T2 T3+T4 
    6    15    34 
PATHOLOGY.N.STAGE, nv=4, binary=FALSE, numeric=TRUE
[1] "grepl('PATHOLOGY.N',vnm)"
vv
N0 N1 N2 N3 
27 19  6  2 
[1] "table(vv)"
vv
   N0    N1 N2+N3 
   27    19     8 
$ClinVariableName
[1] "PATHOLOGY.N.STAGE"

$Table
vv
N0 N1 N2 N3 
27 19  6  2 

$nClasses
[1] 3

$ClinVariableType
[1] "multiclass(3)"


   N0    N1 N2+N3 
   27    19     8 
PATHOLOGY.M.STAGE, nv=3, binary=FALSE, numeric=FALSE
GENDER, nv=2, binary=FALSE, numeric=FALSE
NUMBERPACKYEARSSMOKED, nv=17, binary=FALSE, numeric=TRUE

Clustering(1) Variable = AMP PEAK  1(1P34.2) MUTATION ANALYSIS
D1V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  1(1P34.2) MUTATED    6  3
  AMP PEAK  1(1P34.2) WILD-TYPE 34 10
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                            9                            44 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                            3                            10 
$`AMP PEAK  1(1P34.2) MUTATED`
TCGA-IG-A3YA TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OQ TCGA-L5-A4OW TCGA-LN-A49S 
       20.78         4.08        18.35         1.38         7.13         0.13 
TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A4A9 
        0.07         0.10         0.07 

$`AMP PEAK  1(1P34.2) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS 
       20.09         0.85         2.63        20.12         0.03         0.26 
TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP 
        0.99         0.53         0.79         0.36         0.13         1.12 
TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OP 
        4.31         3.52         3.68         3.35         3.32         7.17 
TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OX TCGA-L7-A6VZ 
        3.16        30.74         4.90        29.00         7.43         8.75 
TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49U TCGA-LN-A49V 
        0.16         0.07         0.33         0.10         0.07         0.10 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 
        0.07         0.13         0.07         0.10         0.10         0.10 
TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.07         0.10         0.07         5.16         3.78         7.59 
TCGA-S8-A6BV TCGA-S8-A6BW 
        8.78        14.01 

  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                         0.07                          0.03 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                        20.78                         30.74 
  AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE 
                         1.38                          0.92 
[1] "0.1 - 20.8 (1.4)" "0.0 - 30.7 (0.9)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "AMP PEAK  1(1P34.2) MUTATED" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  1(1P34.2) MUTATED" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  1(1P34.2) MUTATED" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  1(1P34.2) MUTATED"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
"AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "AMP PEAK  1(1P34.2) MUTATED" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  1(1P34.2) MUTATED" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  1(1P34.2) MUTATED" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  1(1P34.2) MUTATED"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
"AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "AMP PEAK  1(1P34.2) MUTATED" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  1(1P34.2) MUTATED" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  1(1P34.2) MUTATED" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  1(1P34.2) MUTATED"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  1(1P34.2) WILD-TYPE"   "AMP PEAK  1(1P34.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"AMP PEAK  1(1P34.2) WILD-TYPE" "AMP PEAK  1(1P34.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
"AMP PEAK  1(1P34.2) WILD-TYPE" 
[1] "hr=" "1.2"
D1V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  1(1P34.2) MUTATED         0        1        0        0         3
  AMP PEAK  1(1P34.2) WILD-TYPE       1        2        2        1        13
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  1(1P34.2) MUTATED           3         1          2          0
  AMP PEAK  1(1P34.2) WILD-TYPE         8         4          6          5
                               vv
clus                            STAGE IIIC STAGE IV
  AMP PEAK  1(1P34.2) MUTATED            0        0
  AMP PEAK  1(1P34.2) WILD-TYPE          2        1
D1V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  AMP PEAK  1(1P34.2) MUTATED    2  4     4
  AMP PEAK  1(1P34.2) WILD-TYPE  4 11    30
D1V4, multiclass
       clus
vv      AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  T1                              2                             4
  T2                              4                            11
  T3+T4                           4                            30
                               vv
clus                            N0 N1 N2+N3
  AMP PEAK  1(1P34.2) MUTATED    5  4     1
  AMP PEAK  1(1P34.2) WILD-TYPE 22 15     7
D1V5, multiclass
       clus
vv      AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  N0                              5                            22
  N1                              4                            15
  N2+N3                           1                             7
                               vv
clus                            M0 M1A MX
  AMP PEAK  1(1P34.2) MUTATED    7   0  1
  AMP PEAK  1(1P34.2) WILD-TYPE 35   1  7
D1V6, multiclass
     clus
vv    AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  M0                            7                            35
  M1A                           0                             1
  MX                            1                             7
D1V7, binary
                               cls
clus                             0  1
  AMP PEAK  1(1P34.2) MUTATED    2  8
  AMP PEAK  1(1P34.2) WILD-TYPE  6 40
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  1(1P34.2) MUTATED      2    8
  AMP PEAK  1(1P34.2) WILD-TYPE    6   40
        clus
vv       AMP PEAK  1(1P34.2) MUTATED AMP PEAK  1(1P34.2) WILD-TYPE
  FEMALE                           2                             6
  MALE                             8                            40
D1V8, continuous

Clustering(2) Variable = AMP PEAK  2(1Q21.3) MUTATION ANALYSIS
D2V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  2(1Q21.3) MUTATED   17  7
  AMP PEAK  2(1Q21.3) WILD-TYPE 23  6
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           24                            29 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                            7                             6 
$`AMP PEAK  2(1Q21.3) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L 
       20.09         0.85         2.63         0.03         0.26         0.53 
TCGA-IG-A5B8 TCGA-IG-A625 TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OQ 
        0.79         0.36         4.08        18.35         7.17         1.38 
TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OX TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W 
       30.74         4.90         7.43         0.07         0.10         0.07 
TCGA-LN-A4A2 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-S8-A6BV TCGA-S8-A6BW 
        0.13         0.07         0.10         0.07         8.78        14.01 

$`AMP PEAK  2(1Q21.3) WILD-TYPE`
TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4QT TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J 
       20.78        20.12         0.99         0.13         1.12         4.31 
TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OR TCGA-L5-A4OU 
        3.52         3.68         3.35         3.32         3.16        29.00 
TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R 
        7.13         8.75         0.16         0.07         0.33         0.10 
TCGA-LN-A49S TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 
        0.13         0.10         0.07         0.07         0.10         0.10 
TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.10         0.07         5.16         3.78         7.59 

  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                         0.03                          0.07 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                        30.74                         29.00 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                         0.82                          1.12 
[1] "0.0 - 30.7 (0.8)" "0.1 - 29.0 (1.1)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-S8-A6BW 
  "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-S8-A6BW 
  "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  2(1Q21.3) MUTATED" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  2(1Q21.3) MUTATED"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  2(1Q21.3) WILD-TYPE" "AMP PEAK  2(1Q21.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"AMP PEAK  2(1Q21.3) WILD-TYPE"   "AMP PEAK  2(1Q21.3) MUTATED" 
                   TCGA-S8-A6BW 
  "AMP PEAK  2(1Q21.3) MUTATED" 
[1] "hr=" "1.3"
D2V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  2(1Q21.3) MUTATED         0        2        2        0         6
  AMP PEAK  2(1Q21.3) WILD-TYPE       1        1        0        1        10
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  2(1Q21.3) MUTATED           6         2          5          2
  AMP PEAK  2(1Q21.3) WILD-TYPE         5         3          3          3
                               vv
clus                            STAGE IIIC STAGE IV
  AMP PEAK  2(1Q21.3) MUTATED            0        1
  AMP PEAK  2(1Q21.3) WILD-TYPE          2        0
D2V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  AMP PEAK  2(1Q21.3) MUTATED    3  8    15
  AMP PEAK  2(1Q21.3) WILD-TYPE  3  7    19
D2V4, multiclass
       clus
vv      AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  T1                              3                             3
  T2                              8                             7
  T3+T4                          15                            19
                               vv
clus                            N0 N1 N2+N3
  AMP PEAK  2(1Q21.3) MUTATED   12 11     3
  AMP PEAK  2(1Q21.3) WILD-TYPE 15  8     5
D2V5, multiclass
       clus
vv      AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  N0                             12                            15
  N1                             11                             8
  N2+N3                           3                             5
                               vv
clus                            M0 M1A MX
  AMP PEAK  2(1Q21.3) MUTATED   19   1  4
  AMP PEAK  2(1Q21.3) WILD-TYPE 23   0  4
D2V6, multiclass
     clus
vv    AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  M0                           19                            23
  M1A                           1                             0
  MX                            4                             4
D2V7, binary
                               cls
clus                             0  1
  AMP PEAK  2(1Q21.3) MUTATED    3 23
  AMP PEAK  2(1Q21.3) WILD-TYPE  5 25
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q21.3) MUTATED      3   23
  AMP PEAK  2(1Q21.3) WILD-TYPE    5   25
        clus
vv       AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  FEMALE                           3                             5
  MALE                            23                            25
D2V8, continuous

Clustering(3) Variable = AMP PEAK  3(2Q14.2) MUTATION ANALYSIS
D3V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  3(2Q14.2) MUTATED   12  4
  AMP PEAK  3(2Q14.2) WILD-TYPE 28  9
  AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE 
                           16                            37 
  AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE 
                            4                             9 
$`AMP PEAK  3(2Q14.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3YB TCGA-L5-A43J TCGA-L5-A4OM TCGA-L5-A4OO TCGA-L5-A4OQ 
       20.09         2.63         4.31         4.08         3.32         1.38 
TCGA-L5-A4OX TCGA-LN-A49R TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A4A2 TCGA-LN-A4A6 
        7.43         0.10         0.07         0.10         0.13         0.10 
TCGA-LN-A4MQ TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BW 
        0.10         3.78         7.59        14.01 

$`AMP PEAK  3(2Q14.2) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A4QT 
        0.85        20.78        20.12         0.03         0.26         0.99 
TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OE 
        0.53         0.79         0.36         0.13         1.12         3.52 
TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OR TCGA-L5-A4OS 
        3.68         3.35        18.35         7.17         3.16        30.74 
TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N 
        4.90        29.00         7.13         8.75         0.16         0.07 
TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49Y TCGA-LN-A4A3 
        0.33         0.13         0.07         0.10         0.07         0.07 
TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-Q9-A6FU 
        0.10         0.10         0.07         0.07         0.07         5.16 
TCGA-S8-A6BV 
        8.78 

  AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE 
                         0.07                          0.03 
  AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE 
                        20.09                         30.74 
  AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE 
                        2.975                         0.790 
[1] "0.1 - 20.1 (3.0)" "0.0 - 30.7 (0.8)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  3(2Q14.2) MUTATED"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  3(2Q14.2) MUTATED"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  3(2Q14.2) MUTATED"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  3(2Q14.2) WILD-TYPE" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  3(2Q14.2) WILD-TYPE"   "AMP PEAK  3(2Q14.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  3(2Q14.2) MUTATED" "AMP PEAK  3(2Q14.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  3(2Q14.2) MUTATED" 
[1] "hr=" "1"  
D3V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  3(2Q14.2) MUTATED         0        1        1        1         3
  AMP PEAK  3(2Q14.2) WILD-TYPE       1        2        1        0        13
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  3(2Q14.2) MUTATED           3         3          2          1
  AMP PEAK  3(2Q14.2) WILD-TYPE         8         2          6          4
                               vv
clus                            STAGE IIIC STAGE IV
  AMP PEAK  3(2Q14.2) MUTATED            1        0
  AMP PEAK  3(2Q14.2) WILD-TYPE          1        1
D3V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  AMP PEAK  3(2Q14.2) MUTATED    1  4    11
  AMP PEAK  3(2Q14.2) WILD-TYPE  5 11    23
D3V4, multiclass
       clus
vv      AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE
  T1                              1                             5
  T2                              4                            11
  T3+T4                          11                            23
                               vv
clus                            N0 N1 N2+N3
  AMP PEAK  3(2Q14.2) MUTATED    8  5     3
  AMP PEAK  3(2Q14.2) WILD-TYPE 19 14     5
D3V5, multiclass
       clus
vv      AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE
  N0                              8                            19
  N1                              5                            14
  N2+N3                           3                             5
                               vv
clus                            M0 M1A MX
  AMP PEAK  3(2Q14.2) MUTATED   12   0  3
  AMP PEAK  3(2Q14.2) WILD-TYPE 30   1  5
D3V6, multiclass
     clus
vv    AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE
  M0                           12                            30
  M1A                           0                             1
  MX                            3                             5
D3V7, binary
                               cls
clus                             0  1
  AMP PEAK  3(2Q14.2) MUTATED    2 15
  AMP PEAK  3(2Q14.2) WILD-TYPE  6 33
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(2Q14.2) MUTATED      2   15
  AMP PEAK  3(2Q14.2) WILD-TYPE    6   33
        clus
vv       AMP PEAK  3(2Q14.2) MUTATED AMP PEAK  3(2Q14.2) WILD-TYPE
  FEMALE                           2                             6
  MALE                            15                            33
D3V8, continuous

Clustering(4) Variable = AMP PEAK  4(3Q26.2) MUTATION ANALYSIS
D4V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  4(3Q26.2) MUTATED   32  9
  AMP PEAK  4(3Q26.2) WILD-TYPE  8  4
  AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE 
                           41                            12 
  AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE 
                            9                             4 
$`AMP PEAK  4(3Q26.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-L5-A43J 
        0.26         0.53         0.79         0.36         0.13         4.31 
TCGA-L5-A4OE TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OR 
        3.52         4.08        18.35         3.32         7.17         3.16 
TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O 
       29.00         7.13         8.75         0.16         0.07         0.33 
TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49Y TCGA-LN-A4A2 
        0.10         0.13         0.10         0.07         0.07         0.13 
TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 
        0.07         0.10         0.10         0.10         0.07         0.07 
TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-R6-A6DQ TCGA-S8-A6BW 
        0.10         0.07         5.16         7.59        14.01 

$`AMP PEAK  4(3Q26.2) WILD-TYPE`
TCGA-IG-A4QT TCGA-IG-A7DP TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OQ TCGA-L5-A4OS 
        0.99         1.12         3.68         3.35         1.38        30.74 
TCGA-L5-A4OT TCGA-L5-A4OX TCGA-LN-A49U TCGA-LN-A49X TCGA-Q9-A6FW TCGA-S8-A6BV 
        4.90         7.43         0.07         0.10         3.78         8.78 

  AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE 
                         0.03                          0.07 
  AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE 
                        29.00                         30.74 
  AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE 
                        0.360                         3.515 
[1] "0.0 - 29.0 (0.4)" "0.1 - 30.7 (3.5)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  4(3Q26.2) WILD-TYPE"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  4(3Q26.2) MUTATED"   "AMP PEAK  4(3Q26.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  4(3Q26.2) MUTATED" "AMP PEAK  4(3Q26.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  4(3Q26.2) MUTATED" 
[1] "hr=" "1.2"
D4V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  4(3Q26.2) MUTATED         0        3        2        1        13
  AMP PEAK  4(3Q26.2) WILD-TYPE       1        0        0        0         3
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  4(3Q26.2) MUTATED           8         5          5          4
  AMP PEAK  4(3Q26.2) WILD-TYPE         3         0          3          1
                               vv
clus                            STAGE IIIC STAGE IV
  AMP PEAK  4(3Q26.2) MUTATED            2        0
  AMP PEAK  4(3Q26.2) WILD-TYPE          0        1
D4V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  AMP PEAK  4(3Q26.2) MUTATED    4 12    27
  AMP PEAK  4(3Q26.2) WILD-TYPE  2  3     7
D4V4, multiclass
       clus
vv      AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE
  T1                              4                             2
  T2                             12                             3
  T3+T4                          27                             7
                               vv
clus                            N0 N1 N2+N3
  AMP PEAK  4(3Q26.2) MUTATED   23 14     6
  AMP PEAK  4(3Q26.2) WILD-TYPE  4  5     2
D4V5, multiclass
       clus
vv      AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE
  N0                             23                             4
  N1                             14                             5
  N2+N3                           6                             2
                               vv
clus                            M0 M1A MX
  AMP PEAK  4(3Q26.2) MUTATED   35   0  5
  AMP PEAK  4(3Q26.2) WILD-TYPE  7   1  3
D4V6, multiclass
     clus
vv    AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE
  M0                           35                             7
  M1A                           0                             1
  MX                            5                             3
D4V7, binary
                               cls
clus                             0  1
  AMP PEAK  4(3Q26.2) MUTATED    5 39
  AMP PEAK  4(3Q26.2) WILD-TYPE  3  9
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  4(3Q26.2) MUTATED      5   39
  AMP PEAK  4(3Q26.2) WILD-TYPE    3    9
        clus
vv       AMP PEAK  4(3Q26.2) MUTATED AMP PEAK  4(3Q26.2) WILD-TYPE
  FEMALE                           5                             3
  MALE                            39                             9
D4V8, continuous

Clustering(5) Variable = AMP PEAK  5(5P15.33) MUTATION ANALYSIS
D5V1, survival
                                sevent
clus2                             0  1
  AMP PEAK  5(5P15.33) MUTATED   23  6
  AMP PEAK  5(5P15.33) WILD-TYPE 17  7
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                            29                             24 
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                             6                              7 
$`AMP PEAK  5(5P15.33) MUTATED`
TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A50L TCGA-IG-A5B8 TCGA-L5-A43J 
        2.63        20.12         0.03         0.53         0.79         4.31 
TCGA-L5-A4OM TCGA-L5-A4OP TCGA-L5-A4OR TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW 
        4.08         7.17         3.16         4.90        29.00         7.13 
TCGA-L7-A6VZ TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49W 
        8.75         0.33         0.10         0.13         0.07         0.07 
TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 
        0.10         0.07         0.10         0.10         0.10         0.07 
TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-S8-A6BW 
        0.07         0.10         0.07         5.16        14.01 

$`AMP PEAK  5(5P15.33) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A625 
       20.09         0.85        20.78         0.26         0.99         0.36 
TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4ON 
        0.13         1.12         3.52         3.68         3.35        18.35 
TCGA-L5-A4OO TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N 
        3.32         1.38        30.74         7.43         0.16         0.07 
TCGA-LN-A49V TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV 
        0.10         0.13         0.07         3.78         7.59         8.78 

  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                          0.03                           0.07 
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                         29.00                          30.74 
  AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE 
                          0.33                           2.35 
[1] "0.0 - 29.0 (0.3)" "0.1 - 30.7 (2.3)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"AMP PEAK  5(5P15.33) WILD-TYPE"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK  5(5P15.33) MUTATED"   "AMP PEAK  5(5P15.33) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "AMP PEAK  5(5P15.33) MUTATED" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"AMP PEAK  5(5P15.33) WILD-TYPE" "AMP PEAK  5(5P15.33) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "AMP PEAK  5(5P15.33) MUTATED" 
[1] "hr=" "1"  
D5V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  5(5P15.33) MUTATED         0        3        2        1        11
  AMP PEAK  5(5P15.33) WILD-TYPE       1        0        0        0         5
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  5(5P15.33) MUTATED           3         4          3          1
  AMP PEAK  5(5P15.33) WILD-TYPE         8         1          5          4
                                vv
clus                             STAGE IIIC STAGE IV
  AMP PEAK  5(5P15.33) MUTATED            1        1
  AMP PEAK  5(5P15.33) WILD-TYPE          1        0
D5V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  AMP PEAK  5(5P15.33) MUTATED    3  8    19
  AMP PEAK  5(5P15.33) WILD-TYPE  3  7    15
D5V4, multiclass
       clus
vv      AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE
  T1                               3                              3
  T2                               8                              7
  T3+T4                           19                             15
                                vv
clus                             N0 N1 N2+N3
  AMP PEAK  5(5P15.33) MUTATED   18 10     2
  AMP PEAK  5(5P15.33) WILD-TYPE  9  9     6
D5V5, multiclass
       clus
vv      AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE
  N0                              18                              9
  N1                              10                              9
  N2+N3                            2                              6
                                vv
clus                             M0 M1A MX
  AMP PEAK  5(5P15.33) MUTATED   23   1  5
  AMP PEAK  5(5P15.33) WILD-TYPE 19   0  3
D5V6, multiclass
     clus
vv    AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE
  M0                            23                             19
  M1A                            1                              0
  MX                             5                              3
D5V7, binary
                                cls
clus                              0  1
  AMP PEAK  5(5P15.33) MUTATED    4 26
  AMP PEAK  5(5P15.33) WILD-TYPE  4 22
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  5(5P15.33) MUTATED      4   26
  AMP PEAK  5(5P15.33) WILD-TYPE    4   22
        clus
vv       AMP PEAK  5(5P15.33) MUTATED AMP PEAK  5(5P15.33) WILD-TYPE
  FEMALE                            4                              4
  MALE                             26                             22
D5V8, continuous

Clustering(6) Variable = AMP PEAK  6(6P21.1) MUTATION ANALYSIS
D6V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  6(6P21.1) MUTATED   12  5
  AMP PEAK  6(6P21.1) WILD-TYPE 28  8
  AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE 
                           17                            36 
  AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE 
                            5                             8 
$`AMP PEAK  6(6P21.1) MUTATED`
TCGA-IG-A4QS TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OS 
        0.26         4.08        18.35         7.17         1.38        30.74 
TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A49X 
        7.13         8.75         0.33         0.13         0.10         0.10 
TCGA-LN-A4A2 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-R6-A6DQ TCGA-S8-A6BV 
        0.13         0.07         0.10         7.59         8.78 

$`AMP PEAK  6(6P21.1) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP 
        0.99         0.53         0.79         0.36         0.13         1.12 
TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OR 
        4.31         3.52         3.68         3.35         3.32         3.16 
TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R 
        4.90        29.00         7.43         0.16         0.07         0.10 
TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49Y TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 
        0.07         0.07         0.07         0.07         0.10         0.10 
TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-S8-A6BW 
        0.10         0.07         0.07         5.16         3.78        14.01 

  AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE 
                         0.07                          0.03 
  AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE 
                        30.74                         29.00 
  AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE 
                         1.38                          0.92 
[1] "0.1 - 30.7 (1.4)" "0.0 - 29.0 (0.9)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "AMP PEAK  6(6P21.1) MUTATED"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  6(6P21.1) MUTATED"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-S8-A6BW 
"AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "AMP PEAK  6(6P21.1) MUTATED"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  6(6P21.1) MUTATED"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-S8-A6BW 
"AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "AMP PEAK  6(6P21.1) MUTATED"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  6(6P21.1) WILD-TYPE"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  6(6P21.1) MUTATED" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  6(6P21.1) WILD-TYPE" "AMP PEAK  6(6P21.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  6(6P21.1) MUTATED"   "AMP PEAK  6(6P21.1) MUTATED" 
                   TCGA-S8-A6BW 
"AMP PEAK  6(6P21.1) WILD-TYPE" 
[1] "hr=" "1.1"
D6V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  6(6P21.1) MUTATED         0        2        0        0         6
  AMP PEAK  6(6P21.1) WILD-TYPE       1        1        2        1        10
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  6(6P21.1) MUTATED           3         1          2          1
  AMP PEAK  6(6P21.1) WILD-TYPE         8         4          6          4
                               vv
clus                            STAGE IIIC STAGE IV
  AMP PEAK  6(6P21.1) MUTATED            1        0
  AMP PEAK  6(6P21.1) WILD-TYPE          1        1
D6V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  AMP PEAK  6(6P21.1) MUTATED    3  4     9
  AMP PEAK  6(6P21.1) WILD-TYPE  3 11    25
D6V4, multiclass
       clus
vv      AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE
  T1                              3                             3
  T2                              4                            11
  T3+T4                           9                            25
                               vv
clus                            N0 N1 N2+N3
  AMP PEAK  6(6P21.1) MUTATED    8  5     3
  AMP PEAK  6(6P21.1) WILD-TYPE 19 14     5
D6V5, multiclass
       clus
vv      AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE
  N0                              8                            19
  N1                              5                            14
  N2+N3                           3                             5
                               vv
clus                            M0 M1A MX
  AMP PEAK  6(6P21.1) MUTATED   10   0  4
  AMP PEAK  6(6P21.1) WILD-TYPE 32   1  4
D6V6, multiclass
     clus
vv    AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE
  M0                           10                            32
  M1A                           0                             1
  MX                            4                             4
D6V7, binary
                               cls
clus                             0  1
  AMP PEAK  6(6P21.1) MUTATED    5 12
  AMP PEAK  6(6P21.1) WILD-TYPE  3 36
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(6P21.1) MUTATED      5   12
  AMP PEAK  6(6P21.1) WILD-TYPE    3   36
        clus
vv       AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE
  FEMALE                           5                             3
  MALE                            12                            36
D6V8, continuous

Clustering(7) Variable = AMP PEAK  7(7P22.3) MUTATION ANALYSIS
D7V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  7(7P22.3) MUTATED   27  9
  AMP PEAK  7(7P22.3) WILD-TYPE 13  4
  AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE 
                           36                            17 
  AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE 
                            9                             4 
$`AMP PEAK  7(7P22.3) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A50L TCGA-IG-A5B8 
       20.09         0.85        20.12         0.03         0.53         0.79 
TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON 
        4.31         3.52         3.68         3.35         4.08        18.35 
TCGA-L5-A4OO TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU 
        3.32         1.38         3.16        30.74         4.90        29.00 
TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S 
        7.13         8.75         0.07         0.33         0.10         0.13 
TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 
        0.07         0.07         0.10         0.13         0.07         0.10 
TCGA-LN-A4A6 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BW 
        0.10         0.10         0.07         3.78         7.59        14.01 

$`AMP PEAK  7(7P22.3) WILD-TYPE`
TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A6QS 
       20.78         2.63         0.26         0.99         0.36         0.13 
TCGA-IG-A7DP TCGA-L5-A4OP TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49V TCGA-LN-A49Y 
        1.12         7.17         7.43         0.16         0.10         0.07 
TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-Q9-A6FU TCGA-S8-A6BV 
        0.10         0.07         0.07         5.16         8.78 

  AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE 
                         0.03                          0.07 
  AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE 
                        30.74                         20.78 
  AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE 
                         2.27                          0.36 
[1] "0.0 - 30.7 (2.3)" "0.1 - 20.8 (0.4)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK  7(7P22.3) WILD-TYPE" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  7(7P22.3) MUTATED"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  7(7P22.3) WILD-TYPE"   "AMP PEAK  7(7P22.3) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  7(7P22.3) MUTATED" "AMP PEAK  7(7P22.3) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  7(7P22.3) MUTATED" 
[1] "hr=" "1.2"
D7V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  7(7P22.3) MUTATED         1        2        2        1         8
  AMP PEAK  7(7P22.3) WILD-TYPE       0        1        0        0         8
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  7(7P22.3) MUTATED           9         5          4          2
  AMP PEAK  7(7P22.3) WILD-TYPE         2         0          4          3
                               vv
clus                            STAGE IIIC STAGE IV
  AMP PEAK  7(7P22.3) MUTATED            2        1
  AMP PEAK  7(7P22.3) WILD-TYPE          0        0
D7V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  AMP PEAK  7(7P22.3) MUTATED    5  9    23
  AMP PEAK  7(7P22.3) WILD-TYPE  1  6    11
D7V4, multiclass
       clus
vv      AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE
  T1                              5                             1
  T2                              9                             6
  T3+T4                          23                            11
                               vv
clus                            N0 N1 N2+N3
  AMP PEAK  7(7P22.3) MUTATED   17 15     5
  AMP PEAK  7(7P22.3) WILD-TYPE 10  4     3
D7V5, multiclass
       clus
vv      AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE
  N0                             17                            10
  N1                             15                             4
  N2+N3                           5                             3
                               vv
clus                            M0 M1A MX
  AMP PEAK  7(7P22.3) MUTATED   27   1  5
  AMP PEAK  7(7P22.3) WILD-TYPE 15   0  3
D7V6, multiclass
     clus
vv    AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE
  M0                           27                            15
  M1A                           1                             0
  MX                            5                             3
D7V7, binary
                               cls
clus                             0  1
  AMP PEAK  7(7P22.3) MUTATED    5 33
  AMP PEAK  7(7P22.3) WILD-TYPE  3 15
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  7(7P22.3) MUTATED      5   33
  AMP PEAK  7(7P22.3) WILD-TYPE    3   15
        clus
vv       AMP PEAK  7(7P22.3) MUTATED AMP PEAK  7(7P22.3) WILD-TYPE
  FEMALE                           5                             3
  MALE                            33                            15
D7V8, continuous

Clustering(8) Variable = AMP PEAK  8(7P11.2) MUTATION ANALYSIS
D8V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  8(7P11.2) MUTATED   29 10
  AMP PEAK  8(7P11.2) WILD-TYPE 11  3
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                           39                            14 
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                           10                             3 
$`AMP PEAK  8(7P11.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A50L TCGA-IG-A5B8 
       20.09         0.85        20.12         0.03         0.53         0.79 
TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON 
        4.31         3.52         3.68         3.35         4.08        18.35 
TCGA-L5-A4OO TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU 
        3.32         1.38         3.16        30.74         4.90        29.00 
TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49U TCGA-LN-A49V 
        7.13         8.75         0.33         0.10         0.07         0.10 
TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 
        0.07         0.10         0.07         0.13         0.07         0.10 
TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW 
        0.10         0.07         0.10         0.07         5.16         3.78 
TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        7.59         8.78        14.01 

$`AMP PEAK  8(7P11.2) WILD-TYPE`
TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A6QS 
       20.78         2.63         0.26         0.99         0.36         0.13 
TCGA-IG-A7DP TCGA-L5-A4OP TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49S 
        1.12         7.17         7.43         0.16         0.07         0.13 
TCGA-LN-A4A5 TCGA-LN-A4A9 
        0.10         0.07 

  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                         0.03                          0.07 
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                        30.74                         20.78 
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                         3.16                          0.31 
[1] "0.0 - 30.7 (3.2)" "0.1 - 20.8 (0.3)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-S8-A6BW 
  "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-S8-A6BW 
  "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  8(7P11.2) WILD-TYPE" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  8(7P11.2) WILD-TYPE"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "AMP PEAK  8(7P11.2) MUTATED" "AMP PEAK  8(7P11.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  8(7P11.2) MUTATED"   "AMP PEAK  8(7P11.2) MUTATED" 
                   TCGA-S8-A6BW 
  "AMP PEAK  8(7P11.2) MUTATED" 
[1] "hr=" "1.3"
D8V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  8(7P11.2) MUTATED         1        2        2        1        10
  AMP PEAK  8(7P11.2) WILD-TYPE       0        1        0        0         6
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  8(7P11.2) MUTATED           8         5          5          3
  AMP PEAK  8(7P11.2) WILD-TYPE         3         0          3          2
                               vv
clus                            STAGE IIIC STAGE IV
  AMP PEAK  8(7P11.2) MUTATED            2        1
  AMP PEAK  8(7P11.2) WILD-TYPE          0        0
D8V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  AMP PEAK  8(7P11.2) MUTATED    5  9    26
  AMP PEAK  8(7P11.2) WILD-TYPE  1  6     8
D8V4, multiclass
       clus
vv      AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  T1                              5                             1
  T2                              9                             6
  T3+T4                          26                             8
                               vv
clus                            N0 N1 N2+N3
  AMP PEAK  8(7P11.2) MUTATED   19 15     6
  AMP PEAK  8(7P11.2) WILD-TYPE  8  4     2
D8V5, multiclass
       clus
vv      AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  N0                             19                             8
  N1                             15                             4
  N2+N3                           6                             2
                               vv
clus                            M0 M1A MX
  AMP PEAK  8(7P11.2) MUTATED   29   1  6
  AMP PEAK  8(7P11.2) WILD-TYPE 13   0  2
D8V6, multiclass
     clus
vv    AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  M0                           29                            13
  M1A                           1                             0
  MX                            6                             2
D8V7, binary
                               cls
clus                             0  1
  AMP PEAK  8(7P11.2) MUTATED    6 35
  AMP PEAK  8(7P11.2) WILD-TYPE  2 13
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  8(7P11.2) MUTATED      6   35
  AMP PEAK  8(7P11.2) WILD-TYPE    2   13
        clus
vv       AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  FEMALE                           6                             2
  MALE                            35                            13
D8V8, continuous

Clustering(9) Variable = AMP PEAK  9(7Q21.2) MUTATION ANALYSIS
D9V1, survival
                               sevent
clus2                            0  1
  AMP PEAK  9(7Q21.2) MUTATED   28  7
  AMP PEAK  9(7Q21.2) WILD-TYPE 12  6
  AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE 
                           35                            18 
  AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE 
                            7                             6 
$`AMP PEAK  9(7Q21.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A6QS 
       20.09         2.63        20.12         0.26         0.53         0.13 
TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OQ 
        3.52         3.35         4.08        18.35         3.32         1.38 
TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L7-A6VZ 
        3.16        30.74         4.90        29.00         7.13         8.75 
TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49X 
        0.33         0.10         0.13         0.07         0.10         0.10 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A6 TCGA-LN-A4A8 
        0.07         0.13         0.07         0.10         0.10         0.07 
TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BW 
        0.07         0.10         3.78         7.59        14.01 

$`AMP PEAK  9(7Q21.2) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A625 
        0.85        20.78         0.03         0.99         0.79         0.36 
TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OF TCGA-L5-A4OP TCGA-L5-A4OX TCGA-LN-A49M 
        1.12         4.31         3.68         7.17         7.43         0.16 
TCGA-LN-A49N TCGA-LN-A49W TCGA-LN-A4A5 TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-S8-A6BV 
        0.07         0.07         0.10         0.07         5.16         8.78 

  AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE 
                         0.07                          0.03 
  AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE 
                        30.74                         20.78 
  AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE 
                         1.38                          0.92 
[1] "0.1 - 30.7 (1.4)" "0.0 - 20.8 (0.9)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  9(7Q21.2) WILD-TYPE" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  9(7Q21.2) WILD-TYPE" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK  9(7Q21.2) WILD-TYPE" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "AMP PEAK  9(7Q21.2) MUTATED"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK  9(7Q21.2) WILD-TYPE"   "AMP PEAK  9(7Q21.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "AMP PEAK  9(7Q21.2) MUTATED" "AMP PEAK  9(7Q21.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK  9(7Q21.2) MUTATED" 
[1] "hr=" "1.9"
D9V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK  9(7Q21.2) MUTATED         1        2        1        1        12
  AMP PEAK  9(7Q21.2) WILD-TYPE       0        1        1        0         4
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK  9(7Q21.2) MUTATED           6         4          4          3
  AMP PEAK  9(7Q21.2) WILD-TYPE         5         1          4          2
                               vv
clus                            STAGE IIIC STAGE IV
  AMP PEAK  9(7Q21.2) MUTATED            2        1
  AMP PEAK  9(7Q21.2) WILD-TYPE          0        0
D9V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  AMP PEAK  9(7Q21.2) MUTATED    4  9    24
  AMP PEAK  9(7Q21.2) WILD-TYPE  2  6    10
D9V4, multiclass
       clus
vv      AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE
  T1                              4                             2
  T2                              9                             6
  T3+T4                          24                            10
                               vv
clus                            N0 N1 N2+N3
  AMP PEAK  9(7Q21.2) MUTATED   18 13     6
  AMP PEAK  9(7Q21.2) WILD-TYPE  9  6     2
D9V5, multiclass
       clus
vv      AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE
  N0                             18                             9
  N1                             13                             6
  N2+N3                           6                             2
                               vv
clus                            M0 M1A MX
  AMP PEAK  9(7Q21.2) MUTATED   29   1  4
  AMP PEAK  9(7Q21.2) WILD-TYPE 13   0  4
D9V6, multiclass
     clus
vv    AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE
  M0                           29                            13
  M1A                           1                             0
  MX                            4                             4
D9V7, binary
                               cls
clus                             0  1
  AMP PEAK  9(7Q21.2) MUTATED    5 33
  AMP PEAK  9(7Q21.2) WILD-TYPE  3 15
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q21.2) MUTATED      5   33
  AMP PEAK  9(7Q21.2) WILD-TYPE    3   15
        clus
vv       AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE
  FEMALE                           5                             3
  MALE                            33                            15
D9V8, continuous

Clustering(10) Variable = AMP PEAK 10(8P11.21) MUTATION ANALYSIS
D10V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 10(8P11.21) MUTATED   20  7
  AMP PEAK 10(8P11.21) WILD-TYPE 20  6
  AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE 
                            27                             26 
  AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE 
                             7                              6 
$`AMP PEAK 10(8P11.21) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A625 TCGA-L5-A4OF 
       20.09        20.78         0.03         0.26         0.36         3.68 
TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OR TCGA-L5-A4OT TCGA-L5-A4OW 
        4.08        18.35         3.32         3.16         4.90         7.13 
TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49X 
        7.43         8.75         0.13         0.07         0.10         0.10 
TCGA-LN-A49Y TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A6 TCGA-LN-A4A9 TCGA-LN-A4MQ 
        0.07         0.07         0.10         0.10         0.07         0.10 
TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        7.59         8.78        14.01 

$`AMP PEAK 10(8P11.21) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 
        0.85         2.63        20.12         0.99         0.53         0.79 
TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OP 
        0.13         1.12         4.31         3.52         3.35         7.17 
TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OU TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O 
        1.38        30.74        29.00         0.16         0.07         0.33 
TCGA-LN-A49R TCGA-LN-A49W TCGA-LN-A4A2 TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4MR 
        0.10         0.07         0.13         0.10         0.07         0.07 
TCGA-Q9-A6FU TCGA-Q9-A6FW 
        5.16         3.78 

  AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE 
                          0.03                           0.07 
  AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE 
                         20.78                          30.74 
  AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE 
                          3.16                           0.92 
[1] "0.0 - 20.8 (3.2)" "0.1 - 30.7 (0.9)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 10(8P11.21) WILD-TYPE"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 10(8P11.21) MUTATED" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 10(8P11.21) WILD-TYPE" "AMP PEAK 10(8P11.21) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 10(8P11.21) MUTATED"   "AMP PEAK 10(8P11.21) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 10(8P11.21) MUTATED" 
[1] "hr=" "1.3"
D10V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 10(8P11.21) MUTATED         0        2        1        1         7
  AMP PEAK 10(8P11.21) WILD-TYPE       1        1        1        0         9
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 10(8P11.21) MUTATED           7         3          2          2
  AMP PEAK 10(8P11.21) WILD-TYPE         4         2          6          3
                                vv
clus                             STAGE IIIC STAGE IV
  AMP PEAK 10(8P11.21) MUTATED            2        1
  AMP PEAK 10(8P11.21) WILD-TYPE          0        0
D10V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  AMP PEAK 10(8P11.21) MUTATED    4  7    17
  AMP PEAK 10(8P11.21) WILD-TYPE  2  8    17
D10V4, multiclass
       clus
vv      AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE
  T1                               4                              2
  T2                               7                              8
  T3+T4                           17                             17
                                vv
clus                             N0 N1 N2+N3
  AMP PEAK 10(8P11.21) MUTATED   13 11     4
  AMP PEAK 10(8P11.21) WILD-TYPE 14  8     4
D10V5, multiclass
       clus
vv      AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE
  N0                              13                             14
  N1                              11                              8
  N2+N3                            4                              4
                                vv
clus                             M0 M1A MX
  AMP PEAK 10(8P11.21) MUTATED   20   1  4
  AMP PEAK 10(8P11.21) WILD-TYPE 22   0  4
D10V6, multiclass
     clus
vv    AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE
  M0                            20                             22
  M1A                            1                              0
  MX                             4                              4
D10V7, binary
                                cls
clus                              0  1
  AMP PEAK 10(8P11.21) MUTATED    3 26
  AMP PEAK 10(8P11.21) WILD-TYPE  5 22
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 10(8P11.21) MUTATED      3   26
  AMP PEAK 10(8P11.21) WILD-TYPE    5   22
        clus
vv       AMP PEAK 10(8P11.21) MUTATED AMP PEAK 10(8P11.21) WILD-TYPE
  FEMALE                            3                              5
  MALE                             26                             22
D10V8, continuous

Clustering(11) Variable = AMP PEAK 11(8Q24.21) MUTATION ANALYSIS
D11V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 11(8Q24.21) MUTATED   32 11
  AMP PEAK 11(8Q24.21) WILD-TYPE  8  2
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                            43                             10 
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                            11                              2 
$`AMP PEAK 11(8Q24.21) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QS 
       20.09         0.85        20.78         2.63        20.12         0.26 
TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-L5-A43J TCGA-L5-A4OE 
        0.53         0.79         0.36         0.13         4.31         3.52 
TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS 
        4.08        18.35         3.32         1.38         3.16        30.74 
TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N 
        4.90         7.13         7.43         8.75         0.16         0.07 
TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W 
        0.33         0.10         0.13         0.07         0.10         0.07 
TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 
        0.10         0.07         0.13         0.07         0.10         0.10 
TCGA-LN-A4A6 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-R6-A6DQ TCGA-S8-A6BV 
        0.10         0.07         0.10         0.07         7.59         8.78 
TCGA-S8-A6BW 
       14.01 

$`AMP PEAK 11(8Q24.21) WILD-TYPE`
TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A7DP TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OP 
        0.03         0.99         1.12         3.68         3.35         7.17 
TCGA-L5-A4OU TCGA-LN-A4A8 TCGA-Q9-A6FU TCGA-Q9-A6FW 
       29.00         0.07         5.16         3.78 

  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                          0.07                           0.03 
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                         30.74                          29.00 
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                         0.530                          3.515 
[1] "0.1 - 30.7 (0.5)" "0.0 - 29.0 (3.5)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 11(8Q24.21) MUTATED" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 11(8Q24.21) WILD-TYPE"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 11(8Q24.21) WILD-TYPE" "AMP PEAK 11(8Q24.21) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 11(8Q24.21) MUTATED"   "AMP PEAK 11(8Q24.21) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 11(8Q24.21) MUTATED" 
[1] "hr=" "1.5"
D11V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 11(8Q24.21) MUTATED         0        2        2        1        13
  AMP PEAK 11(8Q24.21) WILD-TYPE       1        1        0        0         3
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 11(8Q24.21) MUTATED           9         5          7          3
  AMP PEAK 11(8Q24.21) WILD-TYPE         2         0          1          2
                                vv
clus                             STAGE IIIC STAGE IV
  AMP PEAK 11(8Q24.21) MUTATED            2        1
  AMP PEAK 11(8Q24.21) WILD-TYPE          0        0
D11V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  AMP PEAK 11(8Q24.21) MUTATED    3 13    29
  AMP PEAK 11(8Q24.21) WILD-TYPE  3  2     5
D11V4, multiclass
       clus
vv      AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  T1                               3                              3
  T2                              13                              2
  T3+T4                           29                              5
                                vv
clus                             N0 N1 N2+N3
  AMP PEAK 11(8Q24.21) MUTATED   22 17     6
  AMP PEAK 11(8Q24.21) WILD-TYPE  5  2     2
D11V5, multiclass
       clus
vv      AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  N0                              22                              5
  N1                              17                              2
  N2+N3                            6                              2
                                vv
clus                             M0 M1A MX
  AMP PEAK 11(8Q24.21) MUTATED   35   1  6
  AMP PEAK 11(8Q24.21) WILD-TYPE  7   0  2
D11V6, multiclass
     clus
vv    AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  M0                            35                              7
  M1A                            1                              0
  MX                             6                              2
D11V7, binary
                                cls
clus                              0  1
  AMP PEAK 11(8Q24.21) MUTATED    4 42
  AMP PEAK 11(8Q24.21) WILD-TYPE  4  6
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8Q24.21) MUTATED      4   42
  AMP PEAK 11(8Q24.21) WILD-TYPE    4    6
        clus
vv       AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  FEMALE                            4                              4
  MALE                             42                              6
D11V8, continuous

Clustering(12) Variable = AMP PEAK 12(9P13.3) MUTATION ANALYSIS
D12V1, survival
                               sevent
clus2                            0  1
  AMP PEAK 12(9P13.3) MUTATED    7  2
  AMP PEAK 12(9P13.3) WILD-TYPE 33 11
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                            9                            44 
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                            2                            11 
$`AMP PEAK 12(9P13.3) MUTATED`
TCGA-IG-A625 TCGA-L5-A43J TCGA-L5-A4ON TCGA-L5-A4OU TCGA-L7-A6VZ TCGA-LN-A49O 
        0.36         4.31        18.35        29.00         8.75         0.33 
TCGA-LN-A4MQ TCGA-Q9-A6FW TCGA-S8-A6BW 
        0.10         3.78        14.01 

$`AMP PEAK 12(9P13.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-IG-A7DP 
        0.26         0.99         0.53         0.79         0.13         1.12 
TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4OO TCGA-L5-A4OP 
        3.52         3.68         3.35         4.08         3.32         7.17 
TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX 
        1.38         3.16        30.74         4.90         7.13         7.43 
TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V 
        0.16         0.07         0.10         0.13         0.07         0.10 
TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 
        0.07         0.10         0.07         0.13         0.07         0.10 
TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-Q9-A6FU 
        0.10         0.10         0.07         0.07         0.07         5.16 
TCGA-R6-A6DQ TCGA-S8-A6BV 
        7.59         8.78 

  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                         0.10                          0.03 
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                        29.00                         30.74 
  AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE 
                         4.31                          0.82 
[1] "0.1 - 29.0 (4.3)" "0.0 - 30.7 (0.8)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "AMP PEAK 12(9P13.3) MUTATED" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"AMP PEAK 12(9P13.3) WILD-TYPE"   "AMP PEAK 12(9P13.3) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"AMP PEAK 12(9P13.3) WILD-TYPE" "AMP PEAK 12(9P13.3) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "AMP PEAK 12(9P13.3) MUTATED" 
[1] "hr=" "2.2"
D12V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 12(9P13.3) MUTATED         0        0        1        0         3
  AMP PEAK 12(9P13.3) WILD-TYPE       1        3        1        1        13
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 12(9P13.3) MUTATED           2         1          0          2
  AMP PEAK 12(9P13.3) WILD-TYPE         9         4          8          3
                               vv
clus                            STAGE IIIC STAGE IV
  AMP PEAK 12(9P13.3) MUTATED            1        0
  AMP PEAK 12(9P13.3) WILD-TYPE          1        1
D12V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  AMP PEAK 12(9P13.3) MUTATED    1  1     8
  AMP PEAK 12(9P13.3) WILD-TYPE  5 14    26
D12V4, multiclass
       clus
vv      AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE
  T1                              1                             5
  T2                              1                            14
  T3+T4                           8                            26
                               vv
clus                            N0 N1 N2+N3
  AMP PEAK 12(9P13.3) MUTATED    5  2     3
  AMP PEAK 12(9P13.3) WILD-TYPE 22 17     5
D12V5, multiclass
       clus
vv      AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE
  N0                              5                            22
  N1                              2                            17
  N2+N3                           3                             5
                               vv
clus                            M0 M1A MX
  AMP PEAK 12(9P13.3) MUTATED    6   0  3
  AMP PEAK 12(9P13.3) WILD-TYPE 36   1  5
D12V6, multiclass
     clus
vv    AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE
  M0                            6                            36
  M1A                           0                             1
  MX                            3                             5
D12V7, binary
                               cls
clus                             0  1
  AMP PEAK 12(9P13.3) MUTATED    0 10
  AMP PEAK 12(9P13.3) WILD-TYPE  8 38
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 12(9P13.3) MUTATED      0   10
  AMP PEAK 12(9P13.3) WILD-TYPE    8   38
        clus
vv       AMP PEAK 12(9P13.3) MUTATED AMP PEAK 12(9P13.3) WILD-TYPE
  FEMALE                           0                             8
  MALE                            10                            38
D12V8, continuous

Clustering(13) Variable = AMP PEAK 13(10P11.21) MUTATION ANALYSIS
D13V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 13(10P11.21) MUTATED   10  1
  AMP PEAK 13(10P11.21) WILD-TYPE 30 12
  AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE 
                             11                              42 
  AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE 
                              1                              12 
$`AMP PEAK 13(10P11.21) MUTATED`
TCGA-L5-A4OF TCGA-L5-A4OR TCGA-L7-A6VZ TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U 
        3.68         3.16         8.75         0.10         0.13         0.07 
TCGA-LN-A49W TCGA-LN-A4A4 TCGA-LN-A4A6 TCGA-Q9-A6FW TCGA-S8-A6BW 
        0.07         0.10         0.10         3.78        14.01 

$`AMP PEAK 13(10P11.21) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS 
        0.26         0.99         0.53         0.79         0.36         0.13 
TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON 
        1.12         4.31         3.52         3.35         4.08        18.35 
TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU 
        3.32         7.17         1.38        30.74         4.90        29.00 
TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49V 
        7.13         7.43         0.16         0.07         0.33         0.10 
TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A5 TCGA-LN-A4A8 
        0.10         0.07         0.13         0.07         0.10         0.07 
TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-R6-A6DQ TCGA-S8-A6BV 
        0.07         0.10         0.07         5.16         7.59         8.78 

  AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE 
                           0.07                            0.03 
  AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE 
                          14.01                           30.74 
  AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE 
                          0.130                           1.055 
[1] "0.1 - 14.0 (0.1)" "0.0 - 30.7 (1.1)"
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "AMP PEAK 13(10P11.21) MUTATED"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-S8-A6BW 
  "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "AMP PEAK 13(10P11.21) MUTATED"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-S8-A6BW 
  "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "AMP PEAK 13(10P11.21) MUTATED"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "AMP PEAK 13(10P11.21) MUTATED" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"AMP PEAK 13(10P11.21) WILD-TYPE"   "AMP PEAK 13(10P11.21) MUTATED" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"AMP PEAK 13(10P11.21) WILD-TYPE" "AMP PEAK 13(10P11.21) WILD-TYPE" 
                     TCGA-S8-A6BW 
  "AMP PEAK 13(10P11.21) MUTATED" 
[1] "hr=" "2.3"
D13V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 13(10P11.21) MUTATED         0        1        1        1         4
  AMP PEAK 13(10P11.21) WILD-TYPE       1        2        1        0        12
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 13(10P11.21) MUTATED           1         3          0          1
  AMP PEAK 13(10P11.21) WILD-TYPE        10         2          8          4
                                 vv
clus                              STAGE IIIC STAGE IV
  AMP PEAK 13(10P11.21) MUTATED            1        0
  AMP PEAK 13(10P11.21) WILD-TYPE          1        1
D13V3, multiclass
                                 vv
clus                              T1 T2 T3+T4
  AMP PEAK 13(10P11.21) MUTATED    2  2     9
  AMP PEAK 13(10P11.21) WILD-TYPE  4 13    25
D13V4, multiclass
       clus
vv      AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE
  T1                                2                               4
  T2                                2                              13
  T3+T4                             9                              25
                                 vv
clus                              N0 N1 N2+N3
  AMP PEAK 13(10P11.21) MUTATED    7  4     2
  AMP PEAK 13(10P11.21) WILD-TYPE 20 15     6
D13V5, multiclass
       clus
vv      AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE
  N0                                7                              20
  N1                                4                              15
  N2+N3                             2                               6
                                 vv
clus                              M0 M1A MX
  AMP PEAK 13(10P11.21) MUTATED    9   0  3
  AMP PEAK 13(10P11.21) WILD-TYPE 33   1  5
D13V6, multiclass
     clus
vv    AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE
  M0                              9                              33
  M1A                             0                               1
  MX                              3                               5
D13V7, binary
                                 cls
clus                               0  1
  AMP PEAK 13(10P11.21) MUTATED    0 13
  AMP PEAK 13(10P11.21) WILD-TYPE  8 35
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 13(10P11.21) MUTATED      0   13
  AMP PEAK 13(10P11.21) WILD-TYPE    8   35
        clus
vv       AMP PEAK 13(10P11.21) MUTATED AMP PEAK 13(10P11.21) WILD-TYPE
  FEMALE                             0                               8
  MALE                              13                              35
D13V8, continuous

Clustering(14) Variable = AMP PEAK 14(11P13) MUTATION ANALYSIS
D14V1, survival
                              sevent
clus2                           0  1
  AMP PEAK 14(11P13) MUTATED    9  3
  AMP PEAK 14(11P13) WILD-TYPE 31 10
  AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE 
                          12                           41 
  AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE 
                           3                           10 
$`AMP PEAK 14(11P13) MUTATED`
TCGA-IG-A50L TCGA-L5-A4OE TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OT TCGA-L5-A4OU 
        0.53         3.52         4.08        18.35         4.90        29.00 
TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.13         0.10         0.10         0.07         3.78         7.59 

$`AMP PEAK 14(11P13) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP 
        0.26         0.99         0.79         0.36         0.13         1.12 
TCGA-L5-A43J TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ 
        4.31         3.68         3.35         3.32         7.17         1.38 
TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M 
        3.16        30.74         7.13         7.43         8.75         0.16 
TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49X 
        0.07         0.33         0.10         0.07         0.07         0.10 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 
        0.07         0.13         0.07         0.10         0.10         0.10 
TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-Q9-A6FU TCGA-S8-A6BV TCGA-S8-A6BW 
        0.07         0.07         5.16         8.78        14.01 

  AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE 
                        0.07                         0.03 
  AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE 
                       29.00                        30.74 
  AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE 
                        3.65                         0.85 
[1] "0.1 - 29.0 (3.6)" "0.0 - 30.7 (0.8)"
                  TCGA-IG-A3QL                   TCGA-IG-A3Y9 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A3YA                   TCGA-IG-A3YB 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A3YC                   TCGA-IG-A4P3 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A4QS                   TCGA-IG-A4QT 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A50L                   TCGA-IG-A5B8 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A625                   TCGA-IG-A6QS 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A7DP                   TCGA-L5-A43J 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OE                   TCGA-L5-A4OF 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OG                   TCGA-L5-A4OM 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-L5-A4ON                   TCGA-L5-A4OO 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OP                   TCGA-L5-A4OQ 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OR                   TCGA-L5-A4OS 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OT                   TCGA-L5-A4OU 
  "AMP PEAK 14(11P13) MUTATED"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-L5-A4OW                   TCGA-L5-A4OX 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L7-A6VZ                   TCGA-LN-A49M 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A49N                   TCGA-LN-A49O 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A49R                   TCGA-LN-A49S 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-LN-A49U                   TCGA-LN-A49V 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-LN-A49W                   TCGA-LN-A49X 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A49Y                   TCGA-LN-A4A2 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4A3                   TCGA-LN-A4A4 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4A5                   TCGA-LN-A4A6 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4A8                   TCGA-LN-A4A9 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4MQ                   TCGA-LN-A4MR 
  "AMP PEAK 14(11P13) MUTATED"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-Q9-A6FU                   TCGA-Q9-A6FW 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-R6-A6DQ                   TCGA-S8-A6BV 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-S8-A6BW 
"AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A3QL                   TCGA-IG-A3Y9 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A3YA                   TCGA-IG-A3YB 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A3YC                   TCGA-IG-A4P3 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A4QS                   TCGA-IG-A4QT 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A50L                   TCGA-IG-A5B8 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A625                   TCGA-IG-A6QS 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A7DP                   TCGA-L5-A43J 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OE                   TCGA-L5-A4OF 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OG                   TCGA-L5-A4OM 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-L5-A4ON                   TCGA-L5-A4OO 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OP                   TCGA-L5-A4OQ 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OR                   TCGA-L5-A4OS 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OT                   TCGA-L5-A4OU 
  "AMP PEAK 14(11P13) MUTATED"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-L5-A4OW                   TCGA-L5-A4OX 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L7-A6VZ                   TCGA-LN-A49M 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A49N                   TCGA-LN-A49O 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A49R                   TCGA-LN-A49S 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-LN-A49U                   TCGA-LN-A49V 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-LN-A49W                   TCGA-LN-A49X 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A49Y                   TCGA-LN-A4A2 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4A3                   TCGA-LN-A4A4 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4A5                   TCGA-LN-A4A6 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4A8                   TCGA-LN-A4A9 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4MQ                   TCGA-LN-A4MR 
  "AMP PEAK 14(11P13) MUTATED"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-Q9-A6FU                   TCGA-Q9-A6FW 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-R6-A6DQ                   TCGA-S8-A6BV 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-S8-A6BW 
"AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A3QL                   TCGA-IG-A3Y9 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A3YA                   TCGA-IG-A3YB 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A3YC                   TCGA-IG-A4P3 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A4QS                   TCGA-IG-A4QT 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A50L                   TCGA-IG-A5B8 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A625                   TCGA-IG-A6QS 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-IG-A7DP                   TCGA-L5-A43J 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OE                   TCGA-L5-A4OF 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OG                   TCGA-L5-A4OM 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-L5-A4ON                   TCGA-L5-A4OO 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OP                   TCGA-L5-A4OQ 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OR                   TCGA-L5-A4OS 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L5-A4OT                   TCGA-L5-A4OU 
  "AMP PEAK 14(11P13) MUTATED"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-L5-A4OW                   TCGA-L5-A4OX 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-L7-A6VZ                   TCGA-LN-A49M 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A49N                   TCGA-LN-A49O 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A49R                   TCGA-LN-A49S 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-LN-A49U                   TCGA-LN-A49V 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-LN-A49W                   TCGA-LN-A49X 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A49Y                   TCGA-LN-A4A2 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4A3                   TCGA-LN-A4A4 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4A5                   TCGA-LN-A4A6 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4A8                   TCGA-LN-A4A9 
"AMP PEAK 14(11P13) WILD-TYPE" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-LN-A4MQ                   TCGA-LN-A4MR 
  "AMP PEAK 14(11P13) MUTATED"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-Q9-A6FU                   TCGA-Q9-A6FW 
"AMP PEAK 14(11P13) WILD-TYPE"   "AMP PEAK 14(11P13) MUTATED" 
                  TCGA-R6-A6DQ                   TCGA-S8-A6BV 
  "AMP PEAK 14(11P13) MUTATED" "AMP PEAK 14(11P13) WILD-TYPE" 
                  TCGA-S8-A6BW 
"AMP PEAK 14(11P13) WILD-TYPE" 
[1] "hr=" "1.2"
D14V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 14(11P13) MUTATED         0        1        0        0         6
  AMP PEAK 14(11P13) WILD-TYPE       1        2        2        1        10
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 14(11P13) MUTATED           1         1          1          2
  AMP PEAK 14(11P13) WILD-TYPE        10         4          7          3
                              vv
clus                           STAGE IIIC STAGE IV
  AMP PEAK 14(11P13) MUTATED            0        1
  AMP PEAK 14(11P13) WILD-TYPE          2        0
D14V3, multiclass
                              vv
clus                           T1 T2 T3+T4
  AMP PEAK 14(11P13) MUTATED    2  1    10
  AMP PEAK 14(11P13) WILD-TYPE  4 14    24
D14V4, multiclass
       clus
vv      AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE
  T1                             2                            4
  T2                             1                           14
  T3+T4                         10                           24
                              vv
clus                           N0 N1 N2+N3
  AMP PEAK 14(11P13) MUTATED    7  4     2
  AMP PEAK 14(11P13) WILD-TYPE 20 15     6
D14V5, multiclass
       clus
vv      AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE
  N0                             7                           20
  N1                             4                           15
  N2+N3                          2                            6
                              vv
clus                           M0 M1A MX
  AMP PEAK 14(11P13) MUTATED    9   1  0
  AMP PEAK 14(11P13) WILD-TYPE 33   0  8
D14V6, multiclass
     clus
vv    AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE
  M0                           9                           33
  M1A                          1                            0
  MX                           0                            8
D14V7, binary
                              cls
clus                            0  1
  AMP PEAK 14(11P13) MUTATED    2 12
  AMP PEAK 14(11P13) WILD-TYPE  6 36
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 14(11P13) MUTATED      2   12
  AMP PEAK 14(11P13) WILD-TYPE    6   36
        clus
vv       AMP PEAK 14(11P13) MUTATED AMP PEAK 14(11P13) WILD-TYPE
  FEMALE                          2                            6
  MALE                           12                           36
D14V8, continuous

Clustering(15) Variable = AMP PEAK 15(11Q13.3) MUTATION ANALYSIS
D15V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 15(11Q13.3) MUTATED   27  4
  AMP PEAK 15(11Q13.3) WILD-TYPE 13  9
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                            31                             22 
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                             4                              9 
$`AMP PEAK 15(11Q13.3) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A6QS TCGA-L5-A43J 
        0.85        20.78        20.12         0.03         0.13         4.31 
TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4OQ TCGA-L5-A4OS 
        3.52         3.68         3.35         4.08         1.38        30.74 
TCGA-L5-A4OU TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49V 
       29.00         0.16         0.07         0.10         0.13         0.10 
TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 
        0.07         0.10         0.07         0.13         0.07         0.10 
TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FW 
        0.10         0.10         0.07         0.10         0.07         3.78 
TCGA-R6-A6DQ 
        7.59 

$`AMP PEAK 15(11Q13.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YB TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 
       20.09         2.63         0.26         0.99         0.53         0.79 
TCGA-IG-A625 TCGA-IG-A7DP TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OR 
        0.36         1.12        18.35         3.32         7.17         3.16 
TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49O TCGA-LN-A49U 
        4.90         7.13         7.43         8.75         0.33         0.07 
TCGA-LN-A4A9 TCGA-Q9-A6FU TCGA-S8-A6BV TCGA-S8-A6BW 
        0.07         5.16         8.78        14.01 

  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                          0.03                           0.07 
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                         30.74                          20.09 
  AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE 
                          0.13                           3.24 
[1] "0.0 - 30.7 (0.1)" "0.1 - 20.1 (3.2)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 15(11Q13.3) WILD-TYPE" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 15(11Q13.3) MUTATED"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 15(11Q13.3) WILD-TYPE"   "AMP PEAK 15(11Q13.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 15(11Q13.3) MUTATED" "AMP PEAK 15(11Q13.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"AMP PEAK 15(11Q13.3) WILD-TYPE" 
[1] "hr=" "1.8"
D15V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 15(11Q13.3) MUTATED         1        1        0        1        11
  AMP PEAK 15(11Q13.3) WILD-TYPE       0        2        2        0         5
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 15(11Q13.3) MUTATED           7         5          4          2
  AMP PEAK 15(11Q13.3) WILD-TYPE         4         0          4          3
                                vv
clus                             STAGE IIIC STAGE IV
  AMP PEAK 15(11Q13.3) MUTATED            0        0
  AMP PEAK 15(11Q13.3) WILD-TYPE          2        1
D15V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  AMP PEAK 15(11Q13.3) MUTATED    3 11    18
  AMP PEAK 15(11Q13.3) WILD-TYPE  3  4    16
D15V4, multiclass
       clus
vv      AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE
  T1                               3                              3
  T2                              11                              4
  T3+T4                           18                             16
                                vv
clus                             N0 N1 N2+N3
  AMP PEAK 15(11Q13.3) MUTATED   17 12     3
  AMP PEAK 15(11Q13.3) WILD-TYPE 10  7     5
D15V5, multiclass
       clus
vv      AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE
  N0                              17                             10
  N1                              12                              7
  N2+N3                            3                              5
                                vv
clus                             M0 M1A MX
  AMP PEAK 15(11Q13.3) MUTATED   27   0  2
  AMP PEAK 15(11Q13.3) WILD-TYPE 15   1  6
D15V6, multiclass
     clus
vv    AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE
  M0                            27                             15
  M1A                            0                              1
  MX                             2                              6
D15V7, binary
                                cls
clus                              0  1
  AMP PEAK 15(11Q13.3) MUTATED    4 29
  AMP PEAK 15(11Q13.3) WILD-TYPE  4 19
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 15(11Q13.3) MUTATED      4   29
  AMP PEAK 15(11Q13.3) WILD-TYPE    4   19
        clus
vv       AMP PEAK 15(11Q13.3) MUTATED AMP PEAK 15(11Q13.3) WILD-TYPE
  FEMALE                            4                              4
  MALE                             29                             19
D15V8, continuous

Clustering(16) Variable = AMP PEAK 16(12P13.33) MUTATION ANALYSIS
D16V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 16(12P13.33) MUTATED   20  3
  AMP PEAK 16(12P13.33) WILD-TYPE 20 10
  AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE 
                             23                              30 
  AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE 
                              3                              10 
$`AMP PEAK 16(12P13.33) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A50L TCGA-L5-A43J 
       20.09        20.78         2.63         0.03         0.53         4.31 
TCGA-L5-A4OE TCGA-L5-A4OM TCGA-L5-A4OO TCGA-L5-A4OR TCGA-L7-A6VZ TCGA-LN-A49O 
        3.52         4.08         3.32         3.16         8.75         0.33 
TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A4A2 TCGA-LN-A4A4 
        0.10         0.13         0.10         0.07         0.13         0.10 
TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MR TCGA-R6-A6DQ TCGA-S8-A6BW 
        0.10         0.07         0.07         7.59        14.01 

$`AMP PEAK 16(12P13.33) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YC TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A625 
        0.85        20.12         0.26         0.99         0.79         0.36 
TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4ON TCGA-L5-A4OP 
        0.13         1.12         3.68         3.35        18.35         7.17 
TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L5-A4OX 
        1.38        30.74         4.90        29.00         7.13         7.43 
TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49U TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A3 
        0.16         0.07         0.07         0.10         0.07         0.07 
TCGA-LN-A4A5 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-S8-A6BV 
        0.10         0.07         0.10         5.16         3.78         8.78 

  AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE 
                           0.03                            0.07 
  AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE 
                          20.78                           30.74 
  AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE 
                          0.530                           1.055 
[1] "0.0 - 20.8 (0.5)" "0.1 - 30.7 (1.1)"
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
  "AMP PEAK 16(12P13.33) MUTATED"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "AMP PEAK 16(12P13.33) MUTATED"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-S8-A6BW 
  "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
  "AMP PEAK 16(12P13.33) MUTATED"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "AMP PEAK 16(12P13.33) MUTATED"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-S8-A6BW 
  "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
  "AMP PEAK 16(12P13.33) MUTATED"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "AMP PEAK 16(12P13.33) MUTATED"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"AMP PEAK 16(12P13.33) WILD-TYPE"   "AMP PEAK 16(12P13.33) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"AMP PEAK 16(12P13.33) WILD-TYPE" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
  "AMP PEAK 16(12P13.33) MUTATED" "AMP PEAK 16(12P13.33) WILD-TYPE" 
                     TCGA-S8-A6BW 
  "AMP PEAK 16(12P13.33) MUTATED" 
[1] "hr=" "2.2"
D16V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 16(12P13.33) MUTATED         0        2        1        1         7
  AMP PEAK 16(12P13.33) WILD-TYPE       1        1        1        0         9
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 16(12P13.33) MUTATED           3         3          3          1
  AMP PEAK 16(12P13.33) WILD-TYPE         8         2          5          4
                                 vv
clus                              STAGE IIIC STAGE IV
  AMP PEAK 16(12P13.33) MUTATED            2        0
  AMP PEAK 16(12P13.33) WILD-TYPE          0        1
D16V3, multiclass
                                 vv
clus                              T1 T2 T3+T4
  AMP PEAK 16(12P13.33) MUTATED    2  5    16
  AMP PEAK 16(12P13.33) WILD-TYPE  4 10    18
D16V4, multiclass
       clus
vv      AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE
  T1                                2                               4
  T2                                5                              10
  T3+T4                            16                              18
                                 vv
clus                              N0 N1 N2+N3
  AMP PEAK 16(12P13.33) MUTATED   14  6     3
  AMP PEAK 16(12P13.33) WILD-TYPE 13 13     5
D16V5, multiclass
       clus
vv      AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE
  N0                               14                              13
  N1                                6                              13
  N2+N3                             3                               5
                                 vv
clus                              M0 M1A MX
  AMP PEAK 16(12P13.33) MUTATED   17   0  4
  AMP PEAK 16(12P13.33) WILD-TYPE 25   1  4
D16V6, multiclass
     clus
vv    AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE
  M0                             17                              25
  M1A                             0                               1
  MX                              4                               4
D16V7, binary
                                 cls
clus                               0  1
  AMP PEAK 16(12P13.33) MUTATED    2 22
  AMP PEAK 16(12P13.33) WILD-TYPE  6 26
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 16(12P13.33) MUTATED      2   22
  AMP PEAK 16(12P13.33) WILD-TYPE    6   26
        clus
vv       AMP PEAK 16(12P13.33) MUTATED AMP PEAK 16(12P13.33) WILD-TYPE
  FEMALE                             2                               6
  MALE                              22                              26
D16V8, continuous

Clustering(17) Variable = AMP PEAK 17(12P12.1) MUTATION ANALYSIS
D17V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 17(12P12.1) MUTATED   23  5
  AMP PEAK 17(12P12.1) WILD-TYPE 17  8
  AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE 
                            28                             25 
  AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE 
                             5                              8 
$`AMP PEAK 17(12P12.1) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L 
       20.09         2.63        20.12         0.03         0.26         0.53 
TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OT 
        4.31         3.52         4.08        18.35         3.32         4.90 
TCGA-L5-A4OU TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S 
       29.00         8.75         0.16         0.33         0.10         0.13 
TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A6 TCGA-LN-A4A8 
        0.10         0.07         0.07         0.10         0.10         0.07 
TCGA-LN-A4MR TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        0.07         7.59         8.78        14.01 

$`AMP PEAK 17(12P12.1) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS 
        0.85        20.78         0.99         0.79         0.36         0.13 
TCGA-IG-A7DP TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OR 
        1.12         3.68         3.35         7.17         1.38         3.16 
TCGA-L5-A4OS TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49N TCGA-LN-A49U TCGA-LN-A49X 
       30.74         7.13         7.43         0.07         0.07         0.10 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A5 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-Q9-A6FU 
        0.07         0.13         0.10         0.07         0.10         5.16 
TCGA-Q9-A6FW 
        3.78 

  AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE 
                          0.03                           0.07 
  AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE 
                         29.00                          30.74 
  AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE 
                          1.58                           0.99 
[1] "0.0 - 29.0 (1.6)" "0.1 - 30.7 (1.0)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "AMP PEAK 17(12P12.1) MUTATED" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"AMP PEAK 17(12P12.1) WILD-TYPE"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 17(12P12.1) WILD-TYPE" "AMP PEAK 17(12P12.1) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 17(12P12.1) MUTATED"   "AMP PEAK 17(12P12.1) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 17(12P12.1) MUTATED" 
[1] "hr=" "2.4"
D17V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 17(12P12.1) MUTATED         0        1        1        1         9
  AMP PEAK 17(12P12.1) WILD-TYPE       1        2        1        0         7
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 17(12P12.1) MUTATED           4         4          4          2
  AMP PEAK 17(12P12.1) WILD-TYPE         7         1          4          3
                                vv
clus                             STAGE IIIC STAGE IV
  AMP PEAK 17(12P12.1) MUTATED            2        1
  AMP PEAK 17(12P12.1) WILD-TYPE          0        0
D17V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  AMP PEAK 17(12P12.1) MUTATED    2  6    21
  AMP PEAK 17(12P12.1) WILD-TYPE  4  9    13
D17V4, multiclass
       clus
vv      AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE
  T1                               2                              4
  T2                               6                              9
  T3+T4                           21                             13
                                vv
clus                             N0 N1 N2+N3
  AMP PEAK 17(12P12.1) MUTATED   14 11     4
  AMP PEAK 17(12P12.1) WILD-TYPE 13  8     4
D17V5, multiclass
       clus
vv      AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE
  N0                              14                             13
  N1                              11                              8
  N2+N3                            4                              4
                                vv
clus                             M0 M1A MX
  AMP PEAK 17(12P12.1) MUTATED   21   1  4
  AMP PEAK 17(12P12.1) WILD-TYPE 21   0  4
D17V6, multiclass
     clus
vv    AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE
  M0                            21                             21
  M1A                            1                              0
  MX                             4                              4
D17V7, binary
                                cls
clus                              0  1
  AMP PEAK 17(12P12.1) MUTATED    2 28
  AMP PEAK 17(12P12.1) WILD-TYPE  6 20
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(12P12.1) MUTATED      2   28
  AMP PEAK 17(12P12.1) WILD-TYPE    6   20
        clus
vv       AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE
  FEMALE                            2                              6
  MALE                             28                             20
D17V8, continuous

Clustering(18) Variable = AMP PEAK 18(13Q22.1) MUTATION ANALYSIS
D18V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 18(13Q22.1) MUTATED   12  3
  AMP PEAK 18(13Q22.1) WILD-TYPE 28 10
  AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE 
                            15                             38 
  AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE 
                             3                             10 
$`AMP PEAK 18(13Q22.1) MUTATED`
TCGA-IG-A50L TCGA-IG-A5B8 TCGA-L5-A4OG TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OS 
        0.53         0.79         3.35         7.17         1.38        30.74 
TCGA-L5-A4OW TCGA-LN-A49R TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A4A4 TCGA-LN-A4A6 
        7.13         0.10         0.07         0.10         0.10         0.10 
TCGA-LN-A4MQ TCGA-Q9-A6FW TCGA-S8-A6BV 
        0.10         3.78         8.78 

$`AMP PEAK 18(13Q22.1) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J 
        0.26         0.99         0.36         0.13         1.12         4.31 
TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OR 
        3.52         3.68         4.08        18.35         3.32         3.16 
TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N 
        4.90        29.00         7.43         8.75         0.16         0.07 
TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 
        0.33         0.13         0.07         0.10         0.07         0.13 
TCGA-LN-A4A3 TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-Q9-A6FU 
        0.07         0.10         0.07         0.07         0.07         5.16 
TCGA-R6-A6DQ TCGA-S8-A6BW 
        7.59        14.01 

  AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE 
                          0.07                           0.03 
  AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE 
                         30.74                          29.00 
  AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE 
                         0.790                          1.055 
[1] "0.1 - 30.7 (0.8)" "0.0 - 29.0 (1.1)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 18(13Q22.1) MUTATED"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "AMP PEAK 18(13Q22.1) MUTATED"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK 18(13Q22.1) MUTATED"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-S8-A6BW 
"AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 18(13Q22.1) MUTATED"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "AMP PEAK 18(13Q22.1) MUTATED"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK 18(13Q22.1) MUTATED"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-S8-A6BW 
"AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 18(13Q22.1) MUTATED"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "AMP PEAK 18(13Q22.1) MUTATED"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "AMP PEAK 18(13Q22.1) MUTATED"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 18(13Q22.1) WILD-TYPE" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 18(13Q22.1) MUTATED" "AMP PEAK 18(13Q22.1) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"AMP PEAK 18(13Q22.1) WILD-TYPE"   "AMP PEAK 18(13Q22.1) MUTATED" 
                    TCGA-S8-A6BW 
"AMP PEAK 18(13Q22.1) WILD-TYPE" 
[1] "hr=" "1.1"
D18V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 18(13Q22.1) MUTATED         1        1        1        1         3
  AMP PEAK 18(13Q22.1) WILD-TYPE       0        2        1        0        13
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 18(13Q22.1) MUTATED           2         3          3          1
  AMP PEAK 18(13Q22.1) WILD-TYPE         9         2          5          4
                                vv
clus                             STAGE IIIC STAGE IV
  AMP PEAK 18(13Q22.1) MUTATED            0        0
  AMP PEAK 18(13Q22.1) WILD-TYPE          2        1
D18V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  AMP PEAK 18(13Q22.1) MUTATED    2  4    10
  AMP PEAK 18(13Q22.1) WILD-TYPE  4 11    24
D18V4, multiclass
       clus
vv      AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE
  T1                               2                              4
  T2                               4                             11
  T3+T4                           10                             24
                                vv
clus                             N0 N1 N2+N3
  AMP PEAK 18(13Q22.1) MUTATED    7  7     2
  AMP PEAK 18(13Q22.1) WILD-TYPE 20 12     6
D18V5, multiclass
       clus
vv      AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE
  N0                               7                             20
  N1                               7                             12
  N2+N3                            2                              6
                                vv
clus                             M0 M1A MX
  AMP PEAK 18(13Q22.1) MUTATED   13   0  3
  AMP PEAK 18(13Q22.1) WILD-TYPE 29   1  5
D18V6, multiclass
     clus
vv    AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE
  M0                            13                             29
  M1A                            0                              1
  MX                             3                              5
D18V7, binary
                                cls
clus                              0  1
  AMP PEAK 18(13Q22.1) MUTATED    4 12
  AMP PEAK 18(13Q22.1) WILD-TYPE  4 36
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 18(13Q22.1) MUTATED      4   12
  AMP PEAK 18(13Q22.1) WILD-TYPE    4   36
        clus
vv       AMP PEAK 18(13Q22.1) MUTATED AMP PEAK 18(13Q22.1) WILD-TYPE
  FEMALE                            4                              4
  MALE                             12                             36
D18V8, continuous

Clustering(19) Variable = AMP PEAK 19(15Q26.3) MUTATION ANALYSIS
D19V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 19(15Q26.3) MUTATED   11  5
  AMP PEAK 19(15Q26.3) WILD-TYPE 29  8
  AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE 
                            16                             37 
  AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE 
                             5                              8 
$`AMP PEAK 19(15Q26.3) MUTATED`
TCGA-IG-A50L TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OR TCGA-L5-A4OS 
        0.53         4.08        18.35         7.17         3.16        30.74 
TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49R TCGA-LN-A4A5 
        4.90        29.00         7.13         8.75         0.10         0.10 
TCGA-LN-A4MR TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BW 
        0.07         3.78         7.59        14.01 

$`AMP PEAK 19(15Q26.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP 
        0.26         0.99         0.79         0.36         0.13         1.12 
TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OQ 
        4.31         3.52         3.68         3.35         3.32         1.38 
TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49U 
        7.43         0.16         0.07         0.33         0.13         0.07 
TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 
        0.10         0.07         0.10         0.07         0.13         0.07 
TCGA-LN-A4A4 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-Q9-A6FU 
        0.10         0.10         0.07         0.07         0.10         5.16 
TCGA-S8-A6BV 
        8.78 

  AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE 
                          0.07                           0.03 
  AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE 
                         30.74                          20.78 
  AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE 
                         6.015                          0.330 
[1] "0.1 - 30.7 (6.0)" "0.0 - 20.8 (0.3)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 19(15Q26.3) WILD-TYPE"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 19(15Q26.3) MUTATED"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 19(15Q26.3) MUTATED"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"AMP PEAK 19(15Q26.3) WILD-TYPE"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 19(15Q26.3) WILD-TYPE"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 19(15Q26.3) WILD-TYPE"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 19(15Q26.3) MUTATED"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 19(15Q26.3) MUTATED"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"AMP PEAK 19(15Q26.3) WILD-TYPE"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 19(15Q26.3) WILD-TYPE"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 19(15Q26.3) WILD-TYPE"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 19(15Q26.3) MUTATED"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "AMP PEAK 19(15Q26.3) MUTATED"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 19(15Q26.3) WILD-TYPE" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"AMP PEAK 19(15Q26.3) WILD-TYPE"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 19(15Q26.3) WILD-TYPE"   "AMP PEAK 19(15Q26.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 19(15Q26.3) MUTATED" "AMP PEAK 19(15Q26.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "AMP PEAK 19(15Q26.3) MUTATED" 
[1] "hr=" "1.7"
D19V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 19(15Q26.3) MUTATED         0        3        1        0         4
  AMP PEAK 19(15Q26.3) WILD-TYPE       1        0        1        1        12
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 19(15Q26.3) MUTATED           3         1          1          1
  AMP PEAK 19(15Q26.3) WILD-TYPE         8         4          7          4
                                vv
clus                             STAGE IIIC STAGE IV
  AMP PEAK 19(15Q26.3) MUTATED            1        1
  AMP PEAK 19(15Q26.3) WILD-TYPE          1        0
D19V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  AMP PEAK 19(15Q26.3) MUTATED    4  5     7
  AMP PEAK 19(15Q26.3) WILD-TYPE  2 10    27
D19V4, multiclass
       clus
vv      AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE
  T1                               4                              2
  T2                               5                             10
  T3+T4                            7                             27
                                vv
clus                             N0 N1 N2+N3
  AMP PEAK 19(15Q26.3) MUTATED    8  6     2
  AMP PEAK 19(15Q26.3) WILD-TYPE 19 13     6
D19V5, multiclass
       clus
vv      AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE
  N0                               8                             19
  N1                               6                             13
  N2+N3                            2                              6
                                vv
clus                             M0 M1A MX
  AMP PEAK 19(15Q26.3) MUTATED    9   1  4
  AMP PEAK 19(15Q26.3) WILD-TYPE 33   0  4
D19V6, multiclass
     clus
vv    AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE
  M0                             9                             33
  M1A                            1                              0
  MX                             4                              4
D19V7, binary
                                cls
clus                              0  1
  AMP PEAK 19(15Q26.3) MUTATED    5 12
  AMP PEAK 19(15Q26.3) WILD-TYPE  3 36
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 19(15Q26.3) MUTATED      5   12
  AMP PEAK 19(15Q26.3) WILD-TYPE    3   36
        clus
vv       AMP PEAK 19(15Q26.3) MUTATED AMP PEAK 19(15Q26.3) WILD-TYPE
  FEMALE                            5                              3
  MALE                             12                             36
D19V8, continuous

Clustering(20) Variable = AMP PEAK 20(17Q12) MUTATION ANALYSIS
D20V1, survival
                              sevent
clus2                           0  1
  AMP PEAK 20(17Q12) MUTATED   17  5
  AMP PEAK 20(17Q12) WILD-TYPE 23  8
  AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE 
                          22                           31 
  AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE 
                           5                            8 
$`AMP PEAK 20(17Q12) MUTATED`
TCGA-IG-A3QL TCGA-IG-A50L TCGA-IG-A625 TCGA-L5-A4OE TCGA-L5-A4ON TCGA-L5-A4OO 
       20.09         0.53         0.36         3.52        18.35         3.32 
TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-LN-A49R 
        1.38        30.74         4.90        29.00         7.13         0.10 
TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 
        0.13         0.07         0.10         0.13         0.07         0.10 
TCGA-LN-A4A8 TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BW 
        0.07         3.78         7.59        14.01 

$`AMP PEAK 20(17Q12) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS 
        0.85        20.78         2.63        20.12         0.03         0.26 
TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OF 
        0.99         0.79         0.13         1.12         4.31         3.68 
TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4OP TCGA-L5-A4OR TCGA-L5-A4OX TCGA-L7-A6VZ 
        3.35         4.08         7.17         3.16         7.43         8.75 
TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y 
        0.16         0.07         0.33         0.07         0.10         0.07 
TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU 
        0.10         0.10         0.07         0.10         0.07         5.16 
TCGA-S8-A6BV 
        8.78 

  AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE 
                        0.07                         0.03 
  AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE 
                       30.74                        20.78 
  AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE 
                        2.35                         0.85 
[1] "0.1 - 30.7 (2.3)" "0.0 - 20.8 (0.8)"
                  TCGA-IG-A3QL                   TCGA-IG-A3Y9 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A3YA                   TCGA-IG-A3YB 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A3YC                   TCGA-IG-A4P3 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A4QS                   TCGA-IG-A4QT 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A50L                   TCGA-IG-A5B8 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A625                   TCGA-IG-A6QS 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A7DP                   TCGA-L5-A43J 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L5-A4OE                   TCGA-L5-A4OF 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L5-A4OG                   TCGA-L5-A4OM 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L5-A4ON                   TCGA-L5-A4OO 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OP                   TCGA-L5-A4OQ 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OR                   TCGA-L5-A4OS 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OT                   TCGA-L5-A4OU 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OW                   TCGA-L5-A4OX 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L7-A6VZ                   TCGA-LN-A49M 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A49N                   TCGA-LN-A49O 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A49R                   TCGA-LN-A49S 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A49U                   TCGA-LN-A49V 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A49W                   TCGA-LN-A49X 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A49Y                   TCGA-LN-A4A2 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A4A3                   TCGA-LN-A4A4 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A4A5                   TCGA-LN-A4A6 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A4A8                   TCGA-LN-A4A9 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A4MQ                   TCGA-LN-A4MR 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-Q9-A6FU                   TCGA-Q9-A6FW 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-R6-A6DQ                   TCGA-S8-A6BV 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-S8-A6BW 
  "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-IG-A3QL                   TCGA-IG-A3Y9 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A3YA                   TCGA-IG-A3YB 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A3YC                   TCGA-IG-A4P3 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A4QS                   TCGA-IG-A4QT 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A50L                   TCGA-IG-A5B8 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A625                   TCGA-IG-A6QS 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A7DP                   TCGA-L5-A43J 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L5-A4OE                   TCGA-L5-A4OF 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L5-A4OG                   TCGA-L5-A4OM 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L5-A4ON                   TCGA-L5-A4OO 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OP                   TCGA-L5-A4OQ 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OR                   TCGA-L5-A4OS 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OT                   TCGA-L5-A4OU 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OW                   TCGA-L5-A4OX 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L7-A6VZ                   TCGA-LN-A49M 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A49N                   TCGA-LN-A49O 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A49R                   TCGA-LN-A49S 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A49U                   TCGA-LN-A49V 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A49W                   TCGA-LN-A49X 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A49Y                   TCGA-LN-A4A2 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A4A3                   TCGA-LN-A4A4 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A4A5                   TCGA-LN-A4A6 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A4A8                   TCGA-LN-A4A9 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A4MQ                   TCGA-LN-A4MR 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-Q9-A6FU                   TCGA-Q9-A6FW 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-R6-A6DQ                   TCGA-S8-A6BV 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-S8-A6BW 
  "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-IG-A3QL                   TCGA-IG-A3Y9 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A3YA                   TCGA-IG-A3YB 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A3YC                   TCGA-IG-A4P3 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A4QS                   TCGA-IG-A4QT 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A50L                   TCGA-IG-A5B8 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A625                   TCGA-IG-A6QS 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-IG-A7DP                   TCGA-L5-A43J 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L5-A4OE                   TCGA-L5-A4OF 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L5-A4OG                   TCGA-L5-A4OM 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L5-A4ON                   TCGA-L5-A4OO 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OP                   TCGA-L5-A4OQ 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OR                   TCGA-L5-A4OS 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OT                   TCGA-L5-A4OU 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-L5-A4OW                   TCGA-L5-A4OX 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-L7-A6VZ                   TCGA-LN-A49M 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A49N                   TCGA-LN-A49O 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A49R                   TCGA-LN-A49S 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A49U                   TCGA-LN-A49V 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A49W                   TCGA-LN-A49X 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A49Y                   TCGA-LN-A4A2 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A4A3                   TCGA-LN-A4A4 
  "AMP PEAK 20(17Q12) MUTATED"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-LN-A4A5                   TCGA-LN-A4A6 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A4A8                   TCGA-LN-A4A9 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-LN-A4MQ                   TCGA-LN-A4MR 
"AMP PEAK 20(17Q12) WILD-TYPE" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-Q9-A6FU                   TCGA-Q9-A6FW 
"AMP PEAK 20(17Q12) WILD-TYPE"   "AMP PEAK 20(17Q12) MUTATED" 
                  TCGA-R6-A6DQ                   TCGA-S8-A6BV 
  "AMP PEAK 20(17Q12) MUTATED" "AMP PEAK 20(17Q12) WILD-TYPE" 
                  TCGA-S8-A6BW 
  "AMP PEAK 20(17Q12) MUTATED" 
[1] "hr=" "1.6"
D20V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 20(17Q12) MUTATED         0        0        1        0         6
  AMP PEAK 20(17Q12) WILD-TYPE       1        3        1        1        10
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 20(17Q12) MUTATED           5         3          2          3
  AMP PEAK 20(17Q12) WILD-TYPE         6         2          6          2
                              vv
clus                           STAGE IIIC STAGE IV
  AMP PEAK 20(17Q12) MUTATED            1        1
  AMP PEAK 20(17Q12) WILD-TYPE          1        0
D20V3, multiclass
                              vv
clus                           T1 T2 T3+T4
  AMP PEAK 20(17Q12) MUTATED    1  6    15
  AMP PEAK 20(17Q12) WILD-TYPE  5  9    19
D20V4, multiclass
       clus
vv      AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE
  T1                             1                            5
  T2                             6                            9
  T3+T4                         15                           19
                              vv
clus                           N0 N1 N2+N3
  AMP PEAK 20(17Q12) MUTATED    8  9     5
  AMP PEAK 20(17Q12) WILD-TYPE 19 10     3
D20V5, multiclass
       clus
vv      AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE
  N0                             8                           19
  N1                             9                           10
  N2+N3                          5                            3
                              vv
clus                           M0 M1A MX
  AMP PEAK 20(17Q12) MUTATED   17   1  2
  AMP PEAK 20(17Q12) WILD-TYPE 25   0  6
D20V6, multiclass
     clus
vv    AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE
  M0                          17                           25
  M1A                          1                            0
  MX                           2                            6
D20V7, binary
                              cls
clus                            0  1
  AMP PEAK 20(17Q12) MUTATED    3 20
  AMP PEAK 20(17Q12) WILD-TYPE  5 28
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 20(17Q12) MUTATED      3   20
  AMP PEAK 20(17Q12) WILD-TYPE    5   28
        clus
vv       AMP PEAK 20(17Q12) MUTATED AMP PEAK 20(17Q12) WILD-TYPE
  FEMALE                          3                            5
  MALE                           20                           28
D20V8, continuous

Clustering(21) Variable = AMP PEAK 21(18P11.32) MUTATION ANALYSIS
D21V1, survival
                                 sevent
clus2                              0  1
  AMP PEAK 21(18P11.32) MUTATED   17  5
  AMP PEAK 21(18P11.32) WILD-TYPE 23  8
  AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE 
                             22                              31 
  AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE 
                              5                               8 
$`AMP PEAK 21(18P11.32) MUTATED`
TCGA-IG-A50L TCGA-IG-A625 TCGA-L5-A43J TCGA-L5-A4OM TCGA-L5-A4OO TCGA-L5-A4OQ 
        0.53         0.36         4.31         4.08         3.32         1.38 
TCGA-L5-A4OR TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49O TCGA-LN-A49S 
        3.16         4.90         7.13         8.75         0.33         0.13 
TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A3 
        0.07         0.10         0.07         0.10         0.07         0.07 
TCGA-LN-A4A4 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-S8-A6BW 
        0.10         0.10         0.07        14.01 

$`AMP PEAK 21(18P11.32) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OE 
        0.26         0.99         0.79         0.13         1.12         3.52 
TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OS TCGA-L5-A4OU 
        3.68         3.35        18.35         7.17        30.74        29.00 
TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R TCGA-LN-A4A2 TCGA-LN-A4A5 
        7.43         0.16         0.07         0.10         0.13         0.10 
TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.10         0.07         0.07         5.16         3.78         7.59 
TCGA-S8-A6BV 
        8.78 

  AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE 
                           0.07                            0.03 
  AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE 
                          14.01                           30.74 
  AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE 
                          0.345                           2.630 
[1] "0.1 - 14.0 (0.3)" "0.0 - 30.7 (2.6)"
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-S8-A6BW 
  "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-S8-A6BW 
  "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
"AMP PEAK 21(18P11.32) WILD-TYPE"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
  "AMP PEAK 21(18P11.32) MUTATED" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
  "AMP PEAK 21(18P11.32) MUTATED"   "AMP PEAK 21(18P11.32) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"AMP PEAK 21(18P11.32) WILD-TYPE" "AMP PEAK 21(18P11.32) WILD-TYPE" 
                     TCGA-S8-A6BW 
  "AMP PEAK 21(18P11.32) MUTATED" 
[1] "hr=" "1.8"
D21V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 21(18P11.32) MUTATED         0        2        1        0         8
  AMP PEAK 21(18P11.32) WILD-TYPE       1        1        1        1         8
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 21(18P11.32) MUTATED           2         4          2          1
  AMP PEAK 21(18P11.32) WILD-TYPE         9         1          6          4
                                 vv
clus                              STAGE IIIC STAGE IV
  AMP PEAK 21(18P11.32) MUTATED            2        1
  AMP PEAK 21(18P11.32) WILD-TYPE          0        0
D21V3, multiclass
                                 vv
clus                              T1 T2 T3+T4
  AMP PEAK 21(18P11.32) MUTATED    2  4    17
  AMP PEAK 21(18P11.32) WILD-TYPE  4 11    17
D21V4, multiclass
       clus
vv      AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE
  T1                                2                               4
  T2                                4                              11
  T3+T4                            17                              17
                                 vv
clus                              N0 N1 N2+N3
  AMP PEAK 21(18P11.32) MUTATED   12  7     4
  AMP PEAK 21(18P11.32) WILD-TYPE 15 12     4
D21V5, multiclass
       clus
vv      AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE
  N0                               12                              15
  N1                                7                              12
  N2+N3                             4                               4
                                 vv
clus                              M0 M1A MX
  AMP PEAK 21(18P11.32) MUTATED   16   1  5
  AMP PEAK 21(18P11.32) WILD-TYPE 26   0  3
D21V6, multiclass
     clus
vv    AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE
  M0                             16                              26
  M1A                             1                               0
  MX                              5                               3
D21V7, binary
                                 cls
clus                               0  1
  AMP PEAK 21(18P11.32) MUTATED    2 21
  AMP PEAK 21(18P11.32) WILD-TYPE  6 27
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 21(18P11.32) MUTATED      2   21
  AMP PEAK 21(18P11.32) WILD-TYPE    6   27
        clus
vv       AMP PEAK 21(18P11.32) MUTATED AMP PEAK 21(18P11.32) WILD-TYPE
  FEMALE                             2                               6
  MALE                              21                              27
D21V8, continuous

Clustering(22) Variable = AMP PEAK 22(18Q11.2) MUTATION ANALYSIS
D22V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 22(18Q11.2) MUTATED   14  3
  AMP PEAK 22(18Q11.2) WILD-TYPE 26 10
  AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE 
                            17                             36 
  AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE 
                             3                             10 
$`AMP PEAK 22(18Q11.2) MUTATED`
TCGA-IG-A4P3 TCGA-IG-A625 TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON 
        0.03         0.36         3.52         3.35         4.08        18.35 
TCGA-L5-A4OO TCGA-L5-A4OR TCGA-L7-A6VZ TCGA-LN-A49X TCGA-LN-A4A3 TCGA-LN-A4A4 
        3.32         3.16         8.75         0.10         0.07         0.10 
TCGA-LN-A4MQ TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        0.10         3.78         7.59         8.78        14.01 

$`AMP PEAK 22(18Q11.2) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QS 
       20.09         0.85        20.78         2.63        20.12         0.26 
TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J 
        0.99         0.53         0.79         0.13         1.12         4.31 
TCGA-L5-A4OF TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU 
        3.68         7.17         1.38        30.74         4.90        29.00 
TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R 
        7.13         7.43         0.16         0.07         0.33         0.10 
TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49Y TCGA-LN-A4A2 
        0.13         0.07         0.10         0.07         0.07         0.13 
TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-Q9-A6FU 
        0.10         0.10         0.07         0.07         0.07         5.16 

  AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE 
                          0.03                           0.07 
  AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE 
                         18.35                          30.74 
  AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE 
                          3.35                           0.66 
[1] "0.0 - 18.4 (3.4)" "0.1 - 30.7 (0.7)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 22(18Q11.2) WILD-TYPE"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 22(18Q11.2) WILD-TYPE"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 22(18Q11.2) WILD-TYPE"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 22(18Q11.2) WILD-TYPE"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 22(18Q11.2) WILD-TYPE"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 22(18Q11.2) WILD-TYPE"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"AMP PEAK 22(18Q11.2) WILD-TYPE"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 22(18Q11.2) WILD-TYPE"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 22(18Q11.2) WILD-TYPE" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "AMP PEAK 22(18Q11.2) MUTATED" "AMP PEAK 22(18Q11.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 22(18Q11.2) WILD-TYPE"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "AMP PEAK 22(18Q11.2) MUTATED"   "AMP PEAK 22(18Q11.2) MUTATED" 
                    TCGA-S8-A6BW 
  "AMP PEAK 22(18Q11.2) MUTATED" 
[1] "hr=" "2.1"
D22V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 22(18Q11.2) MUTATED         1        2        1        0         1
  AMP PEAK 22(18Q11.2) WILD-TYPE       0        1        1        1        15
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 22(18Q11.2) MUTATED           2         3          1          3
  AMP PEAK 22(18Q11.2) WILD-TYPE         9         2          7          2
                                vv
clus                             STAGE IIIC STAGE IV
  AMP PEAK 22(18Q11.2) MUTATED            2        0
  AMP PEAK 22(18Q11.2) WILD-TYPE          0        1
D22V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  AMP PEAK 22(18Q11.2) MUTATED    4  2    10
  AMP PEAK 22(18Q11.2) WILD-TYPE  2 13    24
D22V4, multiclass
       clus
vv      AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE
  T1                               4                              2
  T2                               2                             13
  T3+T4                           10                             24
                                vv
clus                             N0 N1 N2+N3
  AMP PEAK 22(18Q11.2) MUTATED    5  6     5
  AMP PEAK 22(18Q11.2) WILD-TYPE 22 13     3
D22V5, multiclass
       clus
vv      AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE
  N0                               5                             22
  N1                               6                             13
  N2+N3                            5                              3
                                vv
clus                             M0 M1A MX
  AMP PEAK 22(18Q11.2) MUTATED    9   0  4
  AMP PEAK 22(18Q11.2) WILD-TYPE 33   1  4
D22V6, multiclass
     clus
vv    AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE
  M0                             9                             33
  M1A                            0                              1
  MX                             4                              4
D22V7, binary
                                cls
clus                              0  1
  AMP PEAK 22(18Q11.2) MUTATED    3 14
  AMP PEAK 22(18Q11.2) WILD-TYPE  5 34
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 22(18Q11.2) MUTATED      3   14
  AMP PEAK 22(18Q11.2) WILD-TYPE    5   34
        clus
vv       AMP PEAK 22(18Q11.2) MUTATED AMP PEAK 22(18Q11.2) WILD-TYPE
  FEMALE                            3                              5
  MALE                             14                             34
D22V8, continuous

Clustering(23) Variable = AMP PEAK 23(19P13.2) MUTATION ANALYSIS
D23V1, survival
                                sevent
clus2                             0  1
  AMP PEAK 23(19P13.2) MUTATED    8  2
  AMP PEAK 23(19P13.2) WILD-TYPE 32 11
  AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE 
                            10                             43 
  AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE 
                             2                             11 
$`AMP PEAK 23(19P13.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3YC TCGA-L5-A43J TCGA-L5-A4OR TCGA-L5-A4OU TCGA-LN-A49O 
       20.09        20.12         4.31         3.16        29.00         0.33 
TCGA-LN-A49V TCGA-LN-A4A3 TCGA-LN-A4A6 TCGA-S8-A6BW 
        0.10         0.07         0.10        14.01 

$`AMP PEAK 23(19P13.2) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A4QT 
        0.85        20.78         2.63         0.03         0.26         0.99 
TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OE 
        0.53         0.79         0.36         0.13         1.12         3.52 
TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP 
        3.68         3.35         4.08        18.35         3.32         7.17 
TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ 
        1.38        30.74         4.90         7.13         7.43         8.75 
TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49W 
        0.16         0.07         0.10         0.13         0.07         0.07 
TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A8 
        0.10         0.07         0.13         0.10         0.10         0.07 
TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.07         0.10         0.07         5.16         3.78         7.59 
TCGA-S8-A6BV 
        8.78 

  AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE 
                          0.07                           0.03 
  AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE 
                         29.00                          30.74 
  AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE 
                         3.735                          0.850 
[1] "0.1 - 29.0 (3.7)" "0.0 - 30.7 (0.8)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "AMP PEAK 23(19P13.2) MUTATED" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"AMP PEAK 23(19P13.2) WILD-TYPE"   "AMP PEAK 23(19P13.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"AMP PEAK 23(19P13.2) WILD-TYPE" "AMP PEAK 23(19P13.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "AMP PEAK 23(19P13.2) MUTATED" 
[1] "hr=" "2.3"
D23V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 23(19P13.2) MUTATED         0        1        1        1         4
  AMP PEAK 23(19P13.2) WILD-TYPE       1        2        1        0        12
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 23(19P13.2) MUTATED           3         1          1          0
  AMP PEAK 23(19P13.2) WILD-TYPE         8         4          7          5
                                vv
clus                             STAGE IIIC STAGE IV
  AMP PEAK 23(19P13.2) MUTATED            0        0
  AMP PEAK 23(19P13.2) WILD-TYPE          2        1
D23V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  AMP PEAK 23(19P13.2) MUTATED    1  3     8
  AMP PEAK 23(19P13.2) WILD-TYPE  5 12    26
D23V4, multiclass
       clus
vv      AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE
  T1                               1                              5
  T2                               3                             12
  T3+T4                            8                             26
                                vv
clus                             N0 N1 N2+N3
  AMP PEAK 23(19P13.2) MUTATED    9  3     0
  AMP PEAK 23(19P13.2) WILD-TYPE 18 16     8
D23V5, multiclass
       clus
vv      AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE
  N0                               9                             18
  N1                               3                             16
  N2+N3                            0                              8
                                vv
clus                             M0 M1A MX
  AMP PEAK 23(19P13.2) MUTATED    9   0  3
  AMP PEAK 23(19P13.2) WILD-TYPE 33   1  5
D23V6, multiclass
     clus
vv    AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE
  M0                             9                             33
  M1A                            0                              1
  MX                             3                              5
D23V7, binary
                                cls
clus                              0  1
  AMP PEAK 23(19P13.2) MUTATED    0 12
  AMP PEAK 23(19P13.2) WILD-TYPE  8 36
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 23(19P13.2) MUTATED      0   12
  AMP PEAK 23(19P13.2) WILD-TYPE    8   36
        clus
vv       AMP PEAK 23(19P13.2) MUTATED AMP PEAK 23(19P13.2) WILD-TYPE
  FEMALE                            0                              8
  MALE                             12                             36
D23V8, continuous

Clustering(24) Variable = AMP PEAK 24(19Q12) MUTATION ANALYSIS
D24V1, survival
                              sevent
clus2                           0  1
  AMP PEAK 24(19Q12) MUTATED   11  4
  AMP PEAK 24(19Q12) WILD-TYPE 29  9
  AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE 
                          15                           38 
  AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE 
                           4                            9 
$`AMP PEAK 24(19Q12) MUTATED`
TCGA-IG-A3QL TCGA-IG-A4QS TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4ON TCGA-L5-A4OO 
       20.09         0.26         3.52         3.68        18.35         3.32 
TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L7-A6VZ TCGA-LN-A49U TCGA-LN-A4A4 
        1.38         3.16        30.74         8.75         0.07         0.10 
TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-S8-A6BW 
        0.10         0.10        14.01 

$`AMP PEAK 24(19Q12) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QT 
        0.85        20.78         2.63        20.12         0.03         0.99 
TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J 
        0.53         0.79         0.36         0.13         1.12         4.31 
TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4OP TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW 
        3.35         4.08         7.17         4.90        29.00         7.13 
TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S 
        7.43         0.16         0.07         0.33         0.10         0.13 
TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 
        0.10         0.07         0.10         0.07         0.13         0.07 
TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW 
        0.07         0.07         0.10         0.07         5.16         3.78 
TCGA-R6-A6DQ TCGA-S8-A6BV 
        7.59         8.78 

  AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE 
                        0.07                         0.03 
  AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE 
                       30.74                        29.00 
  AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE 
                        3.32                         0.66 
[1] "0.1 - 30.7 (3.3)" "0.0 - 29.0 (0.7)"
                  TCGA-IG-A3QL                   TCGA-IG-A3Y9 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A3YA                   TCGA-IG-A3YB 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A3YC                   TCGA-IG-A4P3 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A4QS                   TCGA-IG-A4QT 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A50L                   TCGA-IG-A5B8 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A625                   TCGA-IG-A6QS 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A7DP                   TCGA-L5-A43J 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L5-A4OE                   TCGA-L5-A4OF 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OG                   TCGA-L5-A4OM 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L5-A4ON                   TCGA-L5-A4OO 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OP                   TCGA-L5-A4OQ 
"AMP PEAK 24(19Q12) WILD-TYPE"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OR                   TCGA-L5-A4OS 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OT                   TCGA-L5-A4OU 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L5-A4OW                   TCGA-L5-A4OX 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L7-A6VZ                   TCGA-LN-A49M 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49N                   TCGA-LN-A49O 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49R                   TCGA-LN-A49S 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49U                   TCGA-LN-A49V 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49W                   TCGA-LN-A49X 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49Y                   TCGA-LN-A4A2 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A4A3                   TCGA-LN-A4A4 
"AMP PEAK 24(19Q12) WILD-TYPE"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-LN-A4A5                   TCGA-LN-A4A6 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-LN-A4A8                   TCGA-LN-A4A9 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A4MQ                   TCGA-LN-A4MR 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-Q9-A6FU                   TCGA-Q9-A6FW 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-R6-A6DQ                   TCGA-S8-A6BV 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-S8-A6BW 
  "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-IG-A3QL                   TCGA-IG-A3Y9 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A3YA                   TCGA-IG-A3YB 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A3YC                   TCGA-IG-A4P3 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A4QS                   TCGA-IG-A4QT 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A50L                   TCGA-IG-A5B8 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A625                   TCGA-IG-A6QS 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A7DP                   TCGA-L5-A43J 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L5-A4OE                   TCGA-L5-A4OF 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OG                   TCGA-L5-A4OM 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L5-A4ON                   TCGA-L5-A4OO 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OP                   TCGA-L5-A4OQ 
"AMP PEAK 24(19Q12) WILD-TYPE"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OR                   TCGA-L5-A4OS 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OT                   TCGA-L5-A4OU 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L5-A4OW                   TCGA-L5-A4OX 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L7-A6VZ                   TCGA-LN-A49M 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49N                   TCGA-LN-A49O 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49R                   TCGA-LN-A49S 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49U                   TCGA-LN-A49V 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49W                   TCGA-LN-A49X 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49Y                   TCGA-LN-A4A2 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A4A3                   TCGA-LN-A4A4 
"AMP PEAK 24(19Q12) WILD-TYPE"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-LN-A4A5                   TCGA-LN-A4A6 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-LN-A4A8                   TCGA-LN-A4A9 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A4MQ                   TCGA-LN-A4MR 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-Q9-A6FU                   TCGA-Q9-A6FW 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-R6-A6DQ                   TCGA-S8-A6BV 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-S8-A6BW 
  "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-IG-A3QL                   TCGA-IG-A3Y9 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A3YA                   TCGA-IG-A3YB 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A3YC                   TCGA-IG-A4P3 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A4QS                   TCGA-IG-A4QT 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A50L                   TCGA-IG-A5B8 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A625                   TCGA-IG-A6QS 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-IG-A7DP                   TCGA-L5-A43J 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L5-A4OE                   TCGA-L5-A4OF 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OG                   TCGA-L5-A4OM 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L5-A4ON                   TCGA-L5-A4OO 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OP                   TCGA-L5-A4OQ 
"AMP PEAK 24(19Q12) WILD-TYPE"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OR                   TCGA-L5-A4OS 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-L5-A4OT                   TCGA-L5-A4OU 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L5-A4OW                   TCGA-L5-A4OX 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-L7-A6VZ                   TCGA-LN-A49M 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49N                   TCGA-LN-A49O 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49R                   TCGA-LN-A49S 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49U                   TCGA-LN-A49V 
  "AMP PEAK 24(19Q12) MUTATED" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49W                   TCGA-LN-A49X 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A49Y                   TCGA-LN-A4A2 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A4A3                   TCGA-LN-A4A4 
"AMP PEAK 24(19Q12) WILD-TYPE"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-LN-A4A5                   TCGA-LN-A4A6 
  "AMP PEAK 24(19Q12) MUTATED"   "AMP PEAK 24(19Q12) MUTATED" 
                  TCGA-LN-A4A8                   TCGA-LN-A4A9 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-LN-A4MQ                   TCGA-LN-A4MR 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-Q9-A6FU                   TCGA-Q9-A6FW 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-R6-A6DQ                   TCGA-S8-A6BV 
"AMP PEAK 24(19Q12) WILD-TYPE" "AMP PEAK 24(19Q12) WILD-TYPE" 
                  TCGA-S8-A6BW 
  "AMP PEAK 24(19Q12) MUTATED" 
[1] "hr=" "1.4"
D24V2, continuous
                              vv
clus                           STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  AMP PEAK 24(19Q12) MUTATED         0        1        1        1         3
  AMP PEAK 24(19Q12) WILD-TYPE       1        2        1        0        13
                              vv
clus                           STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  AMP PEAK 24(19Q12) MUTATED           4         1          1          2
  AMP PEAK 24(19Q12) WILD-TYPE         7         4          7          3
                              vv
clus                           STAGE IIIC STAGE IV
  AMP PEAK 24(19Q12) MUTATED            2        0
  AMP PEAK 24(19Q12) WILD-TYPE          0        1
D24V3, multiclass
                              vv
clus                           T1 T2 T3+T4
  AMP PEAK 24(19Q12) MUTATED    3  5     8
  AMP PEAK 24(19Q12) WILD-TYPE  3 10    26
D24V4, multiclass
       clus
vv      AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE
  T1                             3                            3
  T2                             5                           10
  T3+T4                          8                           26
                              vv
clus                           N0 N1 N2+N3
  AMP PEAK 24(19Q12) MUTATED    7  4     5
  AMP PEAK 24(19Q12) WILD-TYPE 20 15     3
D24V5, multiclass
       clus
vv      AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE
  N0                             7                           20
  N1                             4                           15
  N2+N3                          5                            3
                              vv
clus                           M0 M1A MX
  AMP PEAK 24(19Q12) MUTATED    9   0  4
  AMP PEAK 24(19Q12) WILD-TYPE 33   1  4
D24V6, multiclass
     clus
vv    AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE
  M0                           9                           33
  M1A                          0                            1
  MX                           4                            4
D24V7, binary
                              cls
clus                            0  1
  AMP PEAK 24(19Q12) MUTATED    1 15
  AMP PEAK 24(19Q12) WILD-TYPE  7 33
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 24(19Q12) MUTATED      1   15
  AMP PEAK 24(19Q12) WILD-TYPE    7   33
        clus
vv       AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE
  FEMALE                          1                            7
  MALE                           15                           33
D24V8, continuous

Clustering(25) Variable = DEL PEAK  1(1P36.13) MUTATION ANALYSIS
D25V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  1(1P36.13) MUTATED   10  7
  DEL PEAK  1(1P36.13) WILD-TYPE 30  6
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                            17                             36 
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                             7                              6 
$`DEL PEAK  1(1P36.13) MUTATED`
TCGA-IG-A3QL TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A625 TCGA-L5-A43J 
       20.09         0.03         0.26         0.53         0.36         4.31 
TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OR TCGA-L5-A4OT TCGA-L5-A4OU 
        3.52         3.68         3.35         3.16         4.90        29.00 
TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49R TCGA-R6-A6DQ TCGA-S8-A6BW 
        7.13         7.43         0.10         7.59        14.01 

$`DEL PEAK  1(1P36.13) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QT TCGA-IG-A5B8 
        0.85        20.78         2.63        20.12         0.99         0.79 
TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP 
        0.13         1.12         4.08        18.35         3.32         7.17 
TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O 
        1.38        30.74         8.75         0.16         0.07         0.33 
TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y 
        0.13         0.07         0.10         0.07         0.10         0.07 
TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 
        0.13         0.07         0.10         0.10         0.10         0.07 
TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-S8-A6BV 
        0.07         0.10         0.07         5.16         3.78         8.78 

  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                          0.03                           0.07 
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                         29.00                          30.74 
  DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE 
                         3.680                          0.245 
[1] "0.0 - 29.0 (3.7)" "0.1 - 30.7 (0.2)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK  1(1P36.13) WILD-TYPE"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK  1(1P36.13) WILD-TYPE"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK  1(1P36.13) MUTATED"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK  1(1P36.13) MUTATED"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK  1(1P36.13) MUTATED"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK  1(1P36.13) WILD-TYPE"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK  1(1P36.13) WILD-TYPE"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK  1(1P36.13) MUTATED"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK  1(1P36.13) MUTATED"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK  1(1P36.13) MUTATED"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK  1(1P36.13) WILD-TYPE"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK  1(1P36.13) WILD-TYPE"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK  1(1P36.13) MUTATED"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK  1(1P36.13) MUTATED"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK  1(1P36.13) MUTATED"   "DEL PEAK  1(1P36.13) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK  1(1P36.13) WILD-TYPE" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK  1(1P36.13) MUTATED" "DEL PEAK  1(1P36.13) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "DEL PEAK  1(1P36.13) MUTATED" 
[1] "hr=" "1.5"
D25V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  1(1P36.13) MUTATED         1        1        1        0         1
  DEL PEAK  1(1P36.13) WILD-TYPE       0        2        1        1        15
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  1(1P36.13) MUTATED           6         1          1          3
  DEL PEAK  1(1P36.13) WILD-TYPE         5         4          7          2
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK  1(1P36.13) MUTATED            0        1
  DEL PEAK  1(1P36.13) WILD-TYPE          2        0
D25V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK  1(1P36.13) MUTATED    3  4     9
  DEL PEAK  1(1P36.13) WILD-TYPE  3 11    25
D25V4, multiclass
       clus
vv      DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  T1                               3                              3
  T2                               4                             11
  T3+T4                            9                             25
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK  1(1P36.13) MUTATED    6  7     3
  DEL PEAK  1(1P36.13) WILD-TYPE 21 12     5
D25V5, multiclass
       clus
vv      DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  N0                               6                             21
  N1                               7                             12
  N2+N3                            3                              5
                                vv
clus                             M0 M1A MX
  DEL PEAK  1(1P36.13) MUTATED   10   1  3
  DEL PEAK  1(1P36.13) WILD-TYPE 32   0  5
D25V6, multiclass
     clus
vv    DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  M0                            10                             32
  M1A                            1                              0
  MX                             3                              5
D25V7, binary
                                cls
clus                              0  1
  DEL PEAK  1(1P36.13) MUTATED    3 14
  DEL PEAK  1(1P36.13) WILD-TYPE  5 34
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.13) MUTATED      3   14
  DEL PEAK  1(1P36.13) WILD-TYPE    5   34
        clus
vv       DEL PEAK  1(1P36.13) MUTATED DEL PEAK  1(1P36.13) WILD-TYPE
  FEMALE                            3                              5
  MALE                             14                             34
D25V8, continuous

Clustering(26) Variable = DEL PEAK  2(1P13.2) MUTATION ANALYSIS
D26V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  2(1P13.2) MUTATED   11  6
  DEL PEAK  2(1P13.2) WILD-TYPE 29  7
  DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE 
                           17                            36 
  DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE 
                            6                             7 
$`DEL PEAK  2(1P13.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 
       20.09         2.63         0.03         0.26         0.53         0.79 
TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L5-A4OX 
        3.52         3.35         4.90        29.00         7.13         7.43 
TCGA-LN-A49W TCGA-LN-A4A4 TCGA-LN-A4A9 TCGA-R6-A6DQ TCGA-S8-A6BW 
        0.07         0.10         0.07         7.59        14.01 

$`DEL PEAK  2(1P13.2) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A6QS 
        0.85        20.78        20.12         0.99         0.36         0.13 
TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO 
        1.12         4.31         3.68         4.08        18.35         3.32 
TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L7-A6VZ TCGA-LN-A49M 
        7.17         1.38         3.16        30.74         8.75         0.16 
TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V 
        0.07         0.33         0.10         0.13         0.07         0.10 
TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A5 TCGA-LN-A4A6 
        0.10         0.07         0.13         0.07         0.10         0.10 
TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-S8-A6BV 
        0.07         0.10         0.07         5.16         3.78         8.78 

  DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE 
                         0.03                          0.07 
  DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE 
                        29.00                         30.74 
  DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE 
                        3.350                         0.605 
[1] "0.0 - 29.0 (3.4)" "0.1 - 30.7 (0.6)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  2(1P13.2) MUTATED"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK  2(1P13.2) MUTATED"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK  2(1P13.2) MUTATED"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  2(1P13.2) MUTATED"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK  2(1P13.2) MUTATED"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK  2(1P13.2) MUTATED"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  2(1P13.2) MUTATED"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK  2(1P13.2) MUTATED"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK  2(1P13.2) MUTATED"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  2(1P13.2) WILD-TYPE"   "DEL PEAK  2(1P13.2) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK  2(1P13.2) WILD-TYPE" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK  2(1P13.2) MUTATED" "DEL PEAK  2(1P13.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK  2(1P13.2) MUTATED" 
[1] "hr=" "1.3"
D26V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  2(1P13.2) MUTATED         1        0        2        0         3
  DEL PEAK  2(1P13.2) WILD-TYPE       0        3        0        1        13
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  2(1P13.2) MUTATED           4         2          2          2
  DEL PEAK  2(1P13.2) WILD-TYPE         7         3          6          3
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK  2(1P13.2) MUTATED            0        1
  DEL PEAK  2(1P13.2) WILD-TYPE          2        0
D26V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK  2(1P13.2) MUTATED    1  5    11
  DEL PEAK  2(1P13.2) WILD-TYPE  5 10    23
D26V4, multiclass
       clus
vv      DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE
  T1                              1                             5
  T2                              5                            10
  T3+T4                          11                            23
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK  2(1P13.2) MUTATED    7  8     2
  DEL PEAK  2(1P13.2) WILD-TYPE 20 11     6
D26V5, multiclass
       clus
vv      DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE
  N0                              7                            20
  N1                              8                            11
  N2+N3                           2                             6
                               vv
clus                            M0 M1A MX
  DEL PEAK  2(1P13.2) MUTATED   14   1  1
  DEL PEAK  2(1P13.2) WILD-TYPE 28   0  7
D26V6, multiclass
     clus
vv    DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE
  M0                           14                            28
  M1A                           1                             0
  MX                            1                             7
D26V7, binary
                               cls
clus                             0  1
  DEL PEAK  2(1P13.2) MUTATED    3 15
  DEL PEAK  2(1P13.2) WILD-TYPE  5 33
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P13.2) MUTATED      3   15
  DEL PEAK  2(1P13.2) WILD-TYPE    5   33
        clus
vv       DEL PEAK  2(1P13.2) MUTATED DEL PEAK  2(1P13.2) WILD-TYPE
  FEMALE                           3                             5
  MALE                            15                            33
D26V8, continuous

Clustering(27) Variable = DEL PEAK  3(1Q44) MUTATION ANALYSIS
D27V1, survival
                             sevent
clus2                          0  1
  DEL PEAK  3(1Q44) MUTATED    7  2
  DEL PEAK  3(1Q44) WILD-TYPE 33 11
  DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE 
                          9                          44 
  DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE 
                          2                          11 
$`DEL PEAK  3(1Q44) MUTATED`
TCGA-IG-A4QS TCGA-IG-A6QS TCGA-L5-A4OE TCGA-L5-A4OO TCGA-L7-A6VZ TCGA-LN-A49O 
        0.26         0.13         3.52         3.32         8.75         0.33 
TCGA-LN-A49Y TCGA-LN-A4A5 TCGA-R6-A6DQ 
        0.07         0.10         7.59 

$`DEL PEAK  3(1Q44) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A7DP TCGA-L5-A43J 
        0.99         0.53         0.79         0.36         1.12         4.31 
TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OQ 
        3.68         3.35         4.08        18.35         7.17         1.38 
TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L5-A4OX 
        3.16        30.74         4.90        29.00         7.13         7.43 
TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V 
        0.16         0.07         0.10         0.13         0.07         0.10 
TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A6 
        0.07         0.10         0.13         0.07         0.10         0.10 
TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW 
        0.07         0.07         0.10         0.07         5.16         3.78 
TCGA-S8-A6BV TCGA-S8-A6BW 
        8.78        14.01 

  DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE 
                       0.07                        0.03 
  DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE 
                       8.75                       30.74 
  DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE 
                      0.330                       1.055 
[1] "0.1 - 8.8 (0.3)"  "0.0 - 30.7 (1.1)"
                 TCGA-IG-A3QL                  TCGA-IG-A3Y9 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A3YA                  TCGA-IG-A3YB 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A3YC                  TCGA-IG-A4P3 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A4QS                  TCGA-IG-A4QT 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A50L                  TCGA-IG-A5B8 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A625                  TCGA-IG-A6QS 
"DEL PEAK  3(1Q44) WILD-TYPE"   "DEL PEAK  3(1Q44) MUTATED" 
                 TCGA-IG-A7DP                  TCGA-L5-A43J 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OE                  TCGA-L5-A4OF 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OG                  TCGA-L5-A4OM 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4ON                  TCGA-L5-A4OO 
"DEL PEAK  3(1Q44) WILD-TYPE"   "DEL PEAK  3(1Q44) MUTATED" 
                 TCGA-L5-A4OP                  TCGA-L5-A4OQ 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OR                  TCGA-L5-A4OS 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OT                  TCGA-L5-A4OU 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OW                  TCGA-L5-A4OX 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L7-A6VZ                  TCGA-LN-A49M 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49N                  TCGA-LN-A49O 
"DEL PEAK  3(1Q44) WILD-TYPE"   "DEL PEAK  3(1Q44) MUTATED" 
                 TCGA-LN-A49R                  TCGA-LN-A49S 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49U                  TCGA-LN-A49V 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49W                  TCGA-LN-A49X 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49Y                  TCGA-LN-A4A2 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4A3                  TCGA-LN-A4A4 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4A5                  TCGA-LN-A4A6 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4A8                  TCGA-LN-A4A9 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4MQ                  TCGA-LN-A4MR 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-Q9-A6FU                  TCGA-Q9-A6FW 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-R6-A6DQ                  TCGA-S8-A6BV 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-S8-A6BW 
"DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A3QL                  TCGA-IG-A3Y9 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A3YA                  TCGA-IG-A3YB 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A3YC                  TCGA-IG-A4P3 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A4QS                  TCGA-IG-A4QT 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A50L                  TCGA-IG-A5B8 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A625                  TCGA-IG-A6QS 
"DEL PEAK  3(1Q44) WILD-TYPE"   "DEL PEAK  3(1Q44) MUTATED" 
                 TCGA-IG-A7DP                  TCGA-L5-A43J 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OE                  TCGA-L5-A4OF 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OG                  TCGA-L5-A4OM 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4ON                  TCGA-L5-A4OO 
"DEL PEAK  3(1Q44) WILD-TYPE"   "DEL PEAK  3(1Q44) MUTATED" 
                 TCGA-L5-A4OP                  TCGA-L5-A4OQ 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OR                  TCGA-L5-A4OS 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OT                  TCGA-L5-A4OU 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OW                  TCGA-L5-A4OX 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L7-A6VZ                  TCGA-LN-A49M 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49N                  TCGA-LN-A49O 
"DEL PEAK  3(1Q44) WILD-TYPE"   "DEL PEAK  3(1Q44) MUTATED" 
                 TCGA-LN-A49R                  TCGA-LN-A49S 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49U                  TCGA-LN-A49V 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49W                  TCGA-LN-A49X 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49Y                  TCGA-LN-A4A2 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4A3                  TCGA-LN-A4A4 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4A5                  TCGA-LN-A4A6 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4A8                  TCGA-LN-A4A9 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4MQ                  TCGA-LN-A4MR 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-Q9-A6FU                  TCGA-Q9-A6FW 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-R6-A6DQ                  TCGA-S8-A6BV 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-S8-A6BW 
"DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A3QL                  TCGA-IG-A3Y9 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A3YA                  TCGA-IG-A3YB 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A3YC                  TCGA-IG-A4P3 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A4QS                  TCGA-IG-A4QT 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A50L                  TCGA-IG-A5B8 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-IG-A625                  TCGA-IG-A6QS 
"DEL PEAK  3(1Q44) WILD-TYPE"   "DEL PEAK  3(1Q44) MUTATED" 
                 TCGA-IG-A7DP                  TCGA-L5-A43J 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OE                  TCGA-L5-A4OF 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OG                  TCGA-L5-A4OM 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4ON                  TCGA-L5-A4OO 
"DEL PEAK  3(1Q44) WILD-TYPE"   "DEL PEAK  3(1Q44) MUTATED" 
                 TCGA-L5-A4OP                  TCGA-L5-A4OQ 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OR                  TCGA-L5-A4OS 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OT                  TCGA-L5-A4OU 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L5-A4OW                  TCGA-L5-A4OX 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-L7-A6VZ                  TCGA-LN-A49M 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49N                  TCGA-LN-A49O 
"DEL PEAK  3(1Q44) WILD-TYPE"   "DEL PEAK  3(1Q44) MUTATED" 
                 TCGA-LN-A49R                  TCGA-LN-A49S 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49U                  TCGA-LN-A49V 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49W                  TCGA-LN-A49X 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A49Y                  TCGA-LN-A4A2 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4A3                  TCGA-LN-A4A4 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4A5                  TCGA-LN-A4A6 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4A8                  TCGA-LN-A4A9 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-LN-A4MQ                  TCGA-LN-A4MR 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-Q9-A6FU                  TCGA-Q9-A6FW 
"DEL PEAK  3(1Q44) WILD-TYPE" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-R6-A6DQ                  TCGA-S8-A6BV 
  "DEL PEAK  3(1Q44) MUTATED" "DEL PEAK  3(1Q44) WILD-TYPE" 
                 TCGA-S8-A6BW 
"DEL PEAK  3(1Q44) WILD-TYPE" 
[1] "hr=" "1.1"
D27V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  3(1Q44) MUTATED         0        0        0        0         3
  DEL PEAK  3(1Q44) WILD-TYPE       1        3        2        1        13
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  3(1Q44) MUTATED           1         0          0          2
  DEL PEAK  3(1Q44) WILD-TYPE        10         5          8          3
                             vv
clus                          STAGE IIIC STAGE IV
  DEL PEAK  3(1Q44) MUTATED            2        0
  DEL PEAK  3(1Q44) WILD-TYPE          0        1
D27V3, multiclass
                             vv
clus                          T1 T2 T3+T4
  DEL PEAK  3(1Q44) MUTATED    0  2     6
  DEL PEAK  3(1Q44) WILD-TYPE  6 13    28
D27V4, multiclass
       clus
vv      DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE
  T1                            0                           6
  T2                            2                          13
  T3+T4                         6                          28
                             vv
clus                          N0 N1 N2+N3
  DEL PEAK  3(1Q44) MUTATED    3  1     4
  DEL PEAK  3(1Q44) WILD-TYPE 24 18     4
D27V5, multiclass
       clus
vv      DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE
  N0                            3                          24
  N1                            1                          18
  N2+N3                         4                           4
                             vv
clus                          M0 M1A MX
  DEL PEAK  3(1Q44) MUTATED    6   0  1
  DEL PEAK  3(1Q44) WILD-TYPE 36   1  7
D27V6, multiclass
     clus
vv    DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE
  M0                          6                          36
  M1A                         0                           1
  MX                          1                           7
D27V7, binary
                             cls
clus                           0  1
  DEL PEAK  3(1Q44) MUTATED    1  8
  DEL PEAK  3(1Q44) WILD-TYPE  7 40
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  3(1Q44) MUTATED      1    8
  DEL PEAK  3(1Q44) WILD-TYPE    7   40
        clus
vv       DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE
  FEMALE                         1                           7
  MALE                           8                          40
D27V8, continuous

Clustering(28) Variable = DEL PEAK  4(2Q22.1) MUTATION ANALYSIS
D28V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  4(2Q22.1) MUTATED   11  4
  DEL PEAK  4(2Q22.1) WILD-TYPE 29  9
  DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE 
                           15                            38 
  DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE 
                            4                             9 
$`DEL PEAK  4(2Q22.1) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A50L TCGA-IG-A5B8 
        0.85         2.63        20.12         0.03         0.53         0.79 
TCGA-IG-A6QS TCGA-L5-A4OE TCGA-L5-A4OS TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49Y 
        0.13         3.52        30.74         7.43         8.75         0.07 
TCGA-LN-A4MQ TCGA-Q9-A6FU TCGA-S8-A6BW 
        0.10         5.16        14.01 

$`DEL PEAK  4(2Q22.1) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A7DP 
       20.09        20.78         0.26         0.99         0.36         1.12 
TCGA-L5-A43J TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO 
        4.31         3.68         3.35         4.08        18.35         3.32 
TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW 
        7.17         1.38         3.16         4.90        29.00         7.13 
TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U 
        0.16         0.07         0.33         0.10         0.13         0.07 
TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 
        0.10         0.07         0.10         0.13         0.07         0.10 
TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-Q9-A6FW 
        0.10         0.10         0.07         0.07         0.07         3.78 
TCGA-R6-A6DQ TCGA-S8-A6BV 
        7.59         8.78 

  DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE 
                         0.03                          0.07 
  DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE 
                        30.74                         29.00 
  DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE 
                        2.630                         0.675 
[1] "0.0 - 30.7 (2.6)" "0.1 - 29.0 (0.7)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  4(2Q22.1) MUTATED"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  4(2Q22.1) MUTATED"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  4(2Q22.1) MUTATED"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  4(2Q22.1) MUTATED"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  4(2Q22.1) MUTATED"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  4(2Q22.1) MUTATED"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK  4(2Q22.1) WILD-TYPE"   "DEL PEAK  4(2Q22.1) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK  4(2Q22.1) MUTATED" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK  4(2Q22.1) WILD-TYPE" "DEL PEAK  4(2Q22.1) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK  4(2Q22.1) MUTATED" 
[1] "hr=" "1.3"
D28V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  4(2Q22.1) MUTATED         0        0        2        0         1
  DEL PEAK  4(2Q22.1) WILD-TYPE       1        3        0        1        15
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  4(2Q22.1) MUTATED           5         1          4          2
  DEL PEAK  4(2Q22.1) WILD-TYPE         6         4          4          3
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK  4(2Q22.1) MUTATED            1        0
  DEL PEAK  4(2Q22.1) WILD-TYPE          1        1
D28V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK  4(2Q22.1) MUTATED    0  6    10
  DEL PEAK  4(2Q22.1) WILD-TYPE  6  9    24
D28V4, multiclass
       clus
vv      DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE
  T1                              0                             6
  T2                              6                             9
  T3+T4                          10                            24
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK  4(2Q22.1) MUTATED    4  9     3
  DEL PEAK  4(2Q22.1) WILD-TYPE 23 10     5
D28V5, multiclass
       clus
vv      DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE
  N0                              4                            23
  N1                              9                            10
  N2+N3                           3                             5
                               vv
clus                            M0 M1A MX
  DEL PEAK  4(2Q22.1) MUTATED   13   0  2
  DEL PEAK  4(2Q22.1) WILD-TYPE 29   1  6
D28V6, multiclass
     clus
vv    DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE
  M0                           13                            29
  M1A                           0                             1
  MX                            2                             6
D28V7, binary
                               cls
clus                             0  1
  DEL PEAK  4(2Q22.1) MUTATED    2 14
  DEL PEAK  4(2Q22.1) WILD-TYPE  6 34
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q22.1) MUTATED      2   14
  DEL PEAK  4(2Q22.1) WILD-TYPE    6   34
        clus
vv       DEL PEAK  4(2Q22.1) MUTATED DEL PEAK  4(2Q22.1) WILD-TYPE
  FEMALE                           2                             6
  MALE                            14                            34
D28V8, continuous

Clustering(29) Variable = DEL PEAK  5(2Q33.3) MUTATION ANALYSIS
D29V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  5(2Q33.3) MUTATED    8  2
  DEL PEAK  5(2Q33.3) WILD-TYPE 32 11
  DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE 
                           10                            43 
  DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE 
                            2                            11 
$`DEL PEAK  5(2Q33.3) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A5B8 
       20.09         0.85         2.63        20.12         0.03         0.79 
TCGA-L5-A4OS TCGA-LN-A49V TCGA-LN-A4MQ TCGA-S8-A6BV 
       30.74         0.10         0.10         8.78 

$`DEL PEAK  5(2Q33.3) WILD-TYPE`
TCGA-IG-A3YA TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A625 TCGA-IG-A6QS 
       20.78         0.26         0.99         0.53         0.36         0.13 
TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM 
        1.12         4.31         3.52         3.68         3.35         4.08 
TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OT 
       18.35         3.32         7.17         1.38         3.16         4.90 
TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N 
       29.00         7.13         7.43         8.75         0.16         0.07 
TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49X 
        0.33         0.10         0.13         0.07         0.07         0.10 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 
        0.07         0.13         0.07         0.10         0.10         0.10 
TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.07         0.07         0.07         5.16         3.78         7.59 
TCGA-S8-A6BW 
       14.01 

  DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE 
                         0.03                          0.07 
  DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE 
                        30.74                         29.00 
  DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE 
                         1.74                          0.99 
[1] "0.0 - 30.7 (1.7)" "0.1 - 29.0 (1.0)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  5(2Q33.3) MUTATED"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  5(2Q33.3) MUTATED"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  5(2Q33.3) MUTATED" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  5(2Q33.3) MUTATED"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  5(2Q33.3) MUTATED"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  5(2Q33.3) MUTATED" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  5(2Q33.3) MUTATED"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  5(2Q33.3) MUTATED"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  5(2Q33.3) MUTATED" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK  5(2Q33.3) WILD-TYPE"   "DEL PEAK  5(2Q33.3) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK  5(2Q33.3) WILD-TYPE" 
[1] "hr=" "2.2"
D29V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  5(2Q33.3) MUTATED         0        0        1        0         1
  DEL PEAK  5(2Q33.3) WILD-TYPE       1        3        1        1        15
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  5(2Q33.3) MUTATED           3         1          4          0
  DEL PEAK  5(2Q33.3) WILD-TYPE         8         4          4          5
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK  5(2Q33.3) MUTATED            0        0
  DEL PEAK  5(2Q33.3) WILD-TYPE          2        1
D29V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK  5(2Q33.3) MUTATED    0  2     8
  DEL PEAK  5(2Q33.3) WILD-TYPE  6 13    26
D29V4, multiclass
       clus
vv      DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE
  T1                              0                             6
  T2                              2                            13
  T3+T4                           8                            26
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK  5(2Q33.3) MUTATED    4  6     0
  DEL PEAK  5(2Q33.3) WILD-TYPE 23 13     8
D29V5, multiclass
       clus
vv      DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE
  N0                              4                            23
  N1                              6                            13
  N2+N3                           0                             8
                               vv
clus                            M0 M1A MX
  DEL PEAK  5(2Q33.3) MUTATED    9   0  1
  DEL PEAK  5(2Q33.3) WILD-TYPE 33   1  7
D29V6, multiclass
     clus
vv    DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE
  M0                            9                            33
  M1A                           0                             1
  MX                            1                             7
D29V7, binary
                               cls
clus                             0  1
  DEL PEAK  5(2Q33.3) MUTATED    1  9
  DEL PEAK  5(2Q33.3) WILD-TYPE  7 39
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(2Q33.3) MUTATED      1    9
  DEL PEAK  5(2Q33.3) WILD-TYPE    7   39
        clus
vv       DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE
  FEMALE                           1                             7
  MALE                             9                            39
D29V8, continuous

Clustering(30) Variable = DEL PEAK  6(3P14.3) MUTATION ANALYSIS
D30V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  6(3P14.3) MUTATED   31  9
  DEL PEAK  6(3P14.3) WILD-TYPE  9  4
  DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE 
                           40                            13 
  DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE 
                            9                             4 
$`DEL PEAK  6(3P14.3) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-L5-A43J TCGA-L5-A4OF 
        0.26         0.53         0.79         0.13         4.31         3.68 
TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OW 
        3.35         4.08         3.32         7.17         1.38         7.13 
TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S 
        7.43         0.16         0.07         0.33         0.10         0.13 
TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 
        0.07         0.07         0.10         0.07         0.13         0.07 
TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-LN-A4MR 
        0.10         0.10         0.10         0.07         0.10         0.07 
TCGA-Q9-A6FU TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        5.16         7.59         8.78        14.01 

$`DEL PEAK  6(3P14.3) WILD-TYPE`
TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A7DP TCGA-L5-A4OE TCGA-L5-A4ON TCGA-L5-A4OR 
        0.99         0.36         1.12         3.52        18.35         3.16 
TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L7-A6VZ TCGA-LN-A49V TCGA-LN-A4A9 
       30.74         4.90        29.00         8.75         0.10         0.07 
TCGA-Q9-A6FW 
        3.78 

  DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE 
                         0.03                          0.07 
  DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE 
                        20.78                         30.74 
  DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE 
                         0.43                          3.52 
[1] "0.0 - 20.8 (0.4)" "0.1 - 30.7 (3.5)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  6(3P14.3) WILD-TYPE" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  6(3P14.3) WILD-TYPE" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  6(3P14.3) WILD-TYPE" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  6(3P14.3) WILD-TYPE" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  6(3P14.3) WILD-TYPE" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  6(3P14.3) WILD-TYPE" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  6(3P14.3) WILD-TYPE"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK  6(3P14.3) MUTATED" "DEL PEAK  6(3P14.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK  6(3P14.3) MUTATED"   "DEL PEAK  6(3P14.3) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK  6(3P14.3) MUTATED" 
[1] "hr=" "1.2"
D30V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  6(3P14.3) MUTATED         1        2        2        1        12
  DEL PEAK  6(3P14.3) WILD-TYPE       0        1        0        0         4
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  6(3P14.3) MUTATED           9         5          7          2
  DEL PEAK  6(3P14.3) WILD-TYPE         2         0          1          3
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK  6(3P14.3) MUTATED            1        0
  DEL PEAK  6(3P14.3) WILD-TYPE          1        1
D30V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK  6(3P14.3) MUTATED    4 13    25
  DEL PEAK  6(3P14.3) WILD-TYPE  2  2     9
D30V4, multiclass
       clus
vv      DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE
  T1                              4                             2
  T2                             13                             2
  T3+T4                          25                             9
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK  6(3P14.3) MUTATED   22 16     4
  DEL PEAK  6(3P14.3) WILD-TYPE  5  3     4
D30V5, multiclass
       clus
vv      DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE
  N0                             22                             5
  N1                             16                             3
  N2+N3                           4                             4
                               vv
clus                            M0 M1A MX
  DEL PEAK  6(3P14.3) MUTATED   35   0  5
  DEL PEAK  6(3P14.3) WILD-TYPE  7   1  3
D30V6, multiclass
     clus
vv    DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE
  M0                           35                             7
  M1A                           0                             1
  MX                            5                             3
D30V7, binary
                               cls
clus                             0  1
  DEL PEAK  6(3P14.3) MUTATED    6 37
  DEL PEAK  6(3P14.3) WILD-TYPE  2 11
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(3P14.3) MUTATED      6   37
  DEL PEAK  6(3P14.3) WILD-TYPE    2   11
        clus
vv       DEL PEAK  6(3P14.3) MUTATED DEL PEAK  6(3P14.3) WILD-TYPE
  FEMALE                           6                             2
  MALE                            37                            11
D30V8, continuous

Clustering(31) Variable = DEL PEAK  7(3P14.2) MUTATION ANALYSIS
D31V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  7(3P14.2) MUTATED   31  9
  DEL PEAK  7(3P14.2) WILD-TYPE  9  4
  DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE 
                           40                            13 
  DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE 
                            9                             4 
$`DEL PEAK  7(3P14.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-L5-A43J TCGA-L5-A4OE 
        0.26         0.53         0.79         0.13         4.31         3.52 
TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ 
        3.68         3.35         4.08         3.32         7.17         1.38 
TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49S 
        7.13         7.43         0.16         0.07         0.33         0.13 
TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 
        0.07         0.07         0.10         0.07         0.13         0.07 
TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-LN-A4MR 
        0.10         0.10         0.10         0.07         0.10         0.07 
TCGA-Q9-A6FU TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        5.16         7.59         8.78        14.01 

$`DEL PEAK  7(3P14.2) WILD-TYPE`
TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A7DP TCGA-L5-A4ON TCGA-L5-A4OR TCGA-L5-A4OS 
        0.99         0.36         1.12        18.35         3.16        30.74 
TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L7-A6VZ TCGA-LN-A49R TCGA-LN-A49V TCGA-LN-A4A9 
        4.90        29.00         8.75         0.10         0.10         0.07 
TCGA-Q9-A6FW 
        3.78 

  DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE 
                         0.03                          0.07 
  DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE 
                        20.78                         30.74 
  DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE 
                         0.66                          3.16 
[1] "0.0 - 20.8 (0.7)" "0.1 - 30.7 (3.2)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  7(3P14.2) WILD-TYPE" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  7(3P14.2) WILD-TYPE" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  7(3P14.2) WILD-TYPE" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  7(3P14.2) WILD-TYPE" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  7(3P14.2) WILD-TYPE" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  7(3P14.2) WILD-TYPE" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  7(3P14.2) WILD-TYPE"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK  7(3P14.2) MUTATED" "DEL PEAK  7(3P14.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK  7(3P14.2) MUTATED"   "DEL PEAK  7(3P14.2) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK  7(3P14.2) MUTATED" 
[1] "hr=" "1.1"
D31V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  7(3P14.2) MUTATED         1        2        2        1        12
  DEL PEAK  7(3P14.2) WILD-TYPE       0        1        0        0         4
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  7(3P14.2) MUTATED           9         4          7          3
  DEL PEAK  7(3P14.2) WILD-TYPE         2         1          1          2
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK  7(3P14.2) MUTATED            1        0
  DEL PEAK  7(3P14.2) WILD-TYPE          1        1
D31V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK  7(3P14.2) MUTATED    4 13    25
  DEL PEAK  7(3P14.2) WILD-TYPE  2  2     9
D31V4, multiclass
       clus
vv      DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE
  T1                              4                             2
  T2                             13                             2
  T3+T4                          25                             9
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK  7(3P14.2) MUTATED   22 15     5
  DEL PEAK  7(3P14.2) WILD-TYPE  5  4     3
D31V5, multiclass
       clus
vv      DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE
  N0                             22                             5
  N1                             15                             4
  N2+N3                           5                             3
                               vv
clus                            M0 M1A MX
  DEL PEAK  7(3P14.2) MUTATED   34   0  5
  DEL PEAK  7(3P14.2) WILD-TYPE  8   1  3
D31V6, multiclass
     clus
vv    DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE
  M0                           34                             8
  M1A                           0                             1
  MX                            5                             3
D31V7, binary
                               cls
clus                             0  1
  DEL PEAK  7(3P14.2) MUTATED    6 37
  DEL PEAK  7(3P14.2) WILD-TYPE  2 11
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(3P14.2) MUTATED      6   37
  DEL PEAK  7(3P14.2) WILD-TYPE    2   11
        clus
vv       DEL PEAK  7(3P14.2) MUTATED DEL PEAK  7(3P14.2) WILD-TYPE
  FEMALE                           6                             2
  MALE                            37                            11
D31V8, continuous

Clustering(32) Variable = DEL PEAK  8(3Q11.1) MUTATION ANALYSIS
D32V1, survival
                               sevent
clus2                            0  1
  DEL PEAK  8(3Q11.1) MUTATED    4  1
  DEL PEAK  8(3Q11.1) WILD-TYPE 36 12
  DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE 
                            5                            48 
  DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE 
                            1                            12 
$`DEL PEAK  8(3Q11.1) MUTATED`
TCGA-IG-A3YB TCGA-IG-A3YC TCGA-L5-A4OX TCGA-LN-A49Y TCGA-LN-A4A6 
        2.63        20.12         7.43         0.07         0.10 

$`DEL PEAK  8(3Q11.1) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A4QT 
       20.09         0.85        20.78         0.03         0.26         0.99 
TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J 
        0.53         0.79         0.36         0.13         1.12         4.31 
TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO 
        3.52         3.68         3.35         4.08        18.35         3.32 
TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU 
        7.17         1.38         3.16        30.74         4.90        29.00 
TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R 
        7.13         8.75         0.16         0.07         0.33         0.10 
TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A4A2 
        0.13         0.07         0.10         0.07         0.10         0.13 
TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MQ 
        0.07         0.10         0.10         0.07         0.07         0.10 
TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        0.07         5.16         3.78         7.59         8.78        14.01 

  DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE 
                        20.12                         30.74 
  DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE 
                         2.63                          0.92 
[1] "0.1 - 20.1 (2.6)" "0.0 - 30.7 (0.9)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  8(3Q11.1) WILD-TYPE"   "DEL PEAK  8(3Q11.1) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  8(3Q11.1) MUTATED" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK  8(3Q11.1) WILD-TYPE"   "DEL PEAK  8(3Q11.1) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  8(3Q11.1) MUTATED" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  8(3Q11.1) WILD-TYPE"   "DEL PEAK  8(3Q11.1) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-S8-A6BW 
"DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  8(3Q11.1) WILD-TYPE"   "DEL PEAK  8(3Q11.1) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  8(3Q11.1) MUTATED" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK  8(3Q11.1) WILD-TYPE"   "DEL PEAK  8(3Q11.1) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  8(3Q11.1) MUTATED" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  8(3Q11.1) WILD-TYPE"   "DEL PEAK  8(3Q11.1) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-S8-A6BW 
"DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK  8(3Q11.1) WILD-TYPE"   "DEL PEAK  8(3Q11.1) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK  8(3Q11.1) MUTATED" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK  8(3Q11.1) WILD-TYPE"   "DEL PEAK  8(3Q11.1) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK  8(3Q11.1) MUTATED" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK  8(3Q11.1) WILD-TYPE"   "DEL PEAK  8(3Q11.1) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK  8(3Q11.1) WILD-TYPE" "DEL PEAK  8(3Q11.1) WILD-TYPE" 
                   TCGA-S8-A6BW 
"DEL PEAK  8(3Q11.1) WILD-TYPE" 
[1] "hr=" "1.7"
D32V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  8(3Q11.1) MUTATED         0        0        0        1         1
  DEL PEAK  8(3Q11.1) WILD-TYPE       1        3        2        0        15
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  8(3Q11.1) MUTATED           1         0          2          0
  DEL PEAK  8(3Q11.1) WILD-TYPE        10         5          6          5
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK  8(3Q11.1) MUTATED            0        0
  DEL PEAK  8(3Q11.1) WILD-TYPE          2        1
D32V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK  8(3Q11.1) MUTATED    0  2     3
  DEL PEAK  8(3Q11.1) WILD-TYPE  6 13    31
D32V4, multiclass
       clus
vv      DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE
  T1                              0                             6
  T2                              2                            13
  T3+T4                           3                            31
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK  8(3Q11.1) MUTATED    2  3     0
  DEL PEAK  8(3Q11.1) WILD-TYPE 25 16     8
D32V5, multiclass
       clus
vv      DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE
  N0                              2                            25
  N1                              3                            16
  N2+N3                           0                             8
                               vv
clus                            M0 M1A MX
  DEL PEAK  8(3Q11.1) MUTATED    5   0  0
  DEL PEAK  8(3Q11.1) WILD-TYPE 37   1  8
D32V6, multiclass
     clus
vv    DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE
  M0                            5                            37
  M1A                           0                             1
  MX                            0                             8
D32V7, binary
                               cls
clus                             0  1
  DEL PEAK  8(3Q11.1) MUTATED    0  5
  DEL PEAK  8(3Q11.1) WILD-TYPE  8 43
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(3Q11.1) MUTATED      0    5
  DEL PEAK  8(3Q11.1) WILD-TYPE    8   43
        clus
vv       DEL PEAK  8(3Q11.1) MUTATED DEL PEAK  8(3Q11.1) WILD-TYPE
  FEMALE                           0                             8
  MALE                             5                            43
D32V8, continuous

Clustering(33) Variable = DEL PEAK  9(3Q26.31) MUTATION ANALYSIS
D33V1, survival
                                sevent
clus2                             0  1
  DEL PEAK  9(3Q26.31) MUTATED    1  3
  DEL PEAK  9(3Q26.31) WILD-TYPE 39 10
  DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE 
                             4                             49 
  DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE 
                             3                             10 
$`DEL PEAK  9(3Q26.31) MUTATED`
TCGA-L5-A4ON TCGA-L5-A4OQ TCGA-L5-A4OX TCGA-LN-A4MR 
       18.35         1.38         7.43         0.07 

$`DEL PEAK  9(3Q26.31) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS 
        0.26         0.99         0.53         0.79         0.36         0.13 
TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM 
        1.12         4.31         3.52         3.68         3.35         4.08 
TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU 
        3.32         7.17         3.16        30.74         4.90        29.00 
TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R 
        7.13         8.75         0.16         0.07         0.33         0.10 
TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y 
        0.13         0.07         0.10         0.07         0.10         0.07 
TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 
        0.13         0.07         0.10         0.10         0.10         0.07 
TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV 
        0.07         0.10         5.16         3.78         7.59         8.78 
TCGA-S8-A6BW 
       14.01 

  DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE 
                         18.35                          30.74 
  DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE 
                         4.405                          0.850 
[1] "0.1 - 18.4 (4.4)" "0.0 - 30.7 (0.8)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK  9(3Q26.31) MUTATED" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK  9(3Q26.31) WILD-TYPE"   "DEL PEAK  9(3Q26.31) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK  9(3Q26.31) WILD-TYPE"   "DEL PEAK  9(3Q26.31) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK  9(3Q26.31) WILD-TYPE"   "DEL PEAK  9(3Q26.31) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK  9(3Q26.31) MUTATED" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK  9(3Q26.31) WILD-TYPE"   "DEL PEAK  9(3Q26.31) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK  9(3Q26.31) WILD-TYPE"   "DEL PEAK  9(3Q26.31) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK  9(3Q26.31) WILD-TYPE"   "DEL PEAK  9(3Q26.31) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK  9(3Q26.31) MUTATED" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK  9(3Q26.31) WILD-TYPE"   "DEL PEAK  9(3Q26.31) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK  9(3Q26.31) WILD-TYPE"   "DEL PEAK  9(3Q26.31) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK  9(3Q26.31) WILD-TYPE"   "DEL PEAK  9(3Q26.31) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK  9(3Q26.31) WILD-TYPE" "DEL PEAK  9(3Q26.31) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK  9(3Q26.31) WILD-TYPE" 
[1] "hr=" "2.1"
D33V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK  9(3Q26.31) MUTATED         0        0        0        0         1
  DEL PEAK  9(3Q26.31) WILD-TYPE       1        3        2        1        15
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK  9(3Q26.31) MUTATED           2         0          1          0
  DEL PEAK  9(3Q26.31) WILD-TYPE         9         5          7          5
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK  9(3Q26.31) MUTATED            0        0
  DEL PEAK  9(3Q26.31) WILD-TYPE          2        1
D33V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK  9(3Q26.31) MUTATED    1  3     0
  DEL PEAK  9(3Q26.31) WILD-TYPE  5 12    34
D33V4, multiclass
       clus
vv      DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE
  T1                               1                              5
  T2                               3                             12
  T3+T4                            0                             34
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK  9(3Q26.31) MUTATED    1  2     1
  DEL PEAK  9(3Q26.31) WILD-TYPE 26 17     7
D33V5, multiclass
       clus
vv      DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE
  N0                               1                             26
  N1                               2                             17
  N2+N3                            1                              7
                                vv
clus                             M0 M1A MX
  DEL PEAK  9(3Q26.31) MUTATED    2   0  1
  DEL PEAK  9(3Q26.31) WILD-TYPE 40   1  7
D33V6, multiclass
     clus
vv    DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE
  M0                             2                             40
  M1A                            0                              1
  MX                             1                              7
D33V7, binary
                                cls
clus                              0  1
  DEL PEAK  9(3Q26.31) MUTATED    0  4
  DEL PEAK  9(3Q26.31) WILD-TYPE  8 44
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  9(3Q26.31) MUTATED      0    4
  DEL PEAK  9(3Q26.31) WILD-TYPE    8   44
        clus
vv       DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE
  FEMALE                            0                              8
  MALE                              4                             44
D33V8, continuous

Clustering(34) Variable = DEL PEAK 10(4P16.3) MUTATION ANALYSIS
D34V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 10(4P16.3) MUTATED   21  7
  DEL PEAK 10(4P16.3) WILD-TYPE 19  6
  DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE 
                           28                            25 
  DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE 
                            7                             6 
$`DEL PEAK 10(4P16.3) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS 
       20.09         0.85        20.78        20.12         0.03         0.26 
TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM 
        0.79         0.13         3.52         3.68         3.35         4.08 
TCGA-L5-A4OR TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N 
        3.16         4.90         7.13         7.43         0.16         0.07 
TCGA-LN-A49R TCGA-LN-A49U TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 
        0.10         0.07         0.10         0.07         0.13         0.07 
TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MR TCGA-S8-A6BW 
        0.10         0.07         0.07        14.01 

$`DEL PEAK 10(4P16.3) WILD-TYPE`
TCGA-IG-A3YB TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A625 TCGA-IG-A7DP TCGA-L5-A43J 
        2.63         0.99         0.53         0.36         1.12         4.31 
TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OU 
       18.35         3.32         7.17         1.38        30.74        29.00 
TCGA-L7-A6VZ TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A4A4 
        8.75         0.33         0.13         0.10         0.07         0.10 
TCGA-LN-A4A5 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.10         0.07         0.10         5.16         3.78         7.59 
TCGA-S8-A6BV 
        8.78 

  DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE 
                         0.03                          0.07 
  DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE 
                        20.78                         30.74 
  DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE 
                        0.525                         1.380 
[1] "0.0 - 20.8 (0.5)" "0.1 - 30.7 (1.4)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 10(4P16.3) MUTATED"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 10(4P16.3) MUTATED" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 10(4P16.3) WILD-TYPE"   "DEL PEAK 10(4P16.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 10(4P16.3) WILD-TYPE" "DEL PEAK 10(4P16.3) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK 10(4P16.3) MUTATED" 
[1] "hr=" "1.4"
D34V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 10(4P16.3) MUTATED         1        2        2        1         8
  DEL PEAK 10(4P16.3) WILD-TYPE       0        1        0        0         8
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 10(4P16.3) MUTATED           7         2          3          2
  DEL PEAK 10(4P16.3) WILD-TYPE         4         3          5          3
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 10(4P16.3) MUTATED            0        1
  DEL PEAK 10(4P16.3) WILD-TYPE          2        0
D34V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 10(4P16.3) MUTATED    4 10    15
  DEL PEAK 10(4P16.3) WILD-TYPE  2  5    19
D34V4, multiclass
       clus
vv      DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE
  T1                              4                             2
  T2                             10                             5
  T3+T4                          15                            19
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 10(4P16.3) MUTATED   17 10     2
  DEL PEAK 10(4P16.3) WILD-TYPE 10  9     6
D34V5, multiclass
       clus
vv      DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE
  N0                             17                            10
  N1                             10                             9
  N2+N3                           2                             6
                               vv
clus                            M0 M1A MX
  DEL PEAK 10(4P16.3) MUTATED   23   1  2
  DEL PEAK 10(4P16.3) WILD-TYPE 19   0  6
D34V6, multiclass
     clus
vv    DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE
  M0                           23                            19
  M1A                           1                             0
  MX                            2                             6
D34V7, binary
                               cls
clus                             0  1
  DEL PEAK 10(4P16.3) MUTATED    3 26
  DEL PEAK 10(4P16.3) WILD-TYPE  5 22
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(4P16.3) MUTATED      3   26
  DEL PEAK 10(4P16.3) WILD-TYPE    5   22
        clus
vv       DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE
  FEMALE                           3                             5
  MALE                            26                            22
D34V8, continuous

Clustering(35) Variable = DEL PEAK 11(4P15.2) MUTATION ANALYSIS
D35V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 11(4P15.2) MUTATED   24  8
  DEL PEAK 11(4P15.2) WILD-TYPE 16  5
  DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE 
                           32                            21 
  DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE 
                            8                             5 
$`DEL PEAK 11(4P15.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS 
       20.09         0.85        20.78        20.12         0.03         0.26 
TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-L5-A4OE TCGA-L5-A4OG 
        0.53         0.79         0.36         0.13         3.52         3.35 
TCGA-L5-A4OM TCGA-L5-A4OO TCGA-L5-A4OR TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX 
        4.08         3.32         3.16         4.90         7.13         7.43 
TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R TCGA-LN-A49U TCGA-LN-A49X 
        8.75         0.16         0.07         0.10         0.07         0.10 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MR 
        0.07         0.13         0.07         0.10         0.07         0.07 
TCGA-R6-A6DQ TCGA-S8-A6BW 
        7.59        14.01 

$`DEL PEAK 11(4P15.2) WILD-TYPE`
TCGA-IG-A3YB TCGA-IG-A4QT TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OF TCGA-L5-A4ON 
        2.63         0.99         1.12         4.31         3.68        18.35 
TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OU TCGA-LN-A49O TCGA-LN-A49S 
        7.17         1.38        30.74        29.00         0.33         0.13 
TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A9 TCGA-LN-A4MQ 
        0.10         0.07         0.10         0.10         0.07         0.10 
TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-S8-A6BV 
        5.16         3.78         8.78 

  DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE 
                         0.03                          0.07 
  DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE 
                        20.78                         30.74 
  DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE 
                         0.66                          1.38 
[1] "0.0 - 20.8 (0.7)" "0.1 - 30.7 (1.4)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 11(4P15.2) WILD-TYPE" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 11(4P15.2) WILD-TYPE" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 11(4P15.2) WILD-TYPE" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 11(4P15.2) WILD-TYPE" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 11(4P15.2) WILD-TYPE" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 11(4P15.2) WILD-TYPE" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 11(4P15.2) WILD-TYPE" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 11(4P15.2) WILD-TYPE" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 11(4P15.2) MUTATED"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 11(4P15.2) WILD-TYPE"   "DEL PEAK 11(4P15.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 11(4P15.2) WILD-TYPE" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK 11(4P15.2) MUTATED" "DEL PEAK 11(4P15.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK 11(4P15.2) MUTATED" 
[1] "hr=" "1.2"
D35V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 11(4P15.2) MUTATED         1        2        2        1         8
  DEL PEAK 11(4P15.2) WILD-TYPE       0        1        0        0         8
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 11(4P15.2) MUTATED           6         2          4          3
  DEL PEAK 11(4P15.2) WILD-TYPE         5         3          4          2
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 11(4P15.2) MUTATED            2        1
  DEL PEAK 11(4P15.2) WILD-TYPE          0        0
D35V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 11(4P15.2) MUTATED    3 10    19
  DEL PEAK 11(4P15.2) WILD-TYPE  3  5    15
D35V4, multiclass
       clus
vv      DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE
  T1                              3                             3
  T2                             10                             5
  T3+T4                          19                            15
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 11(4P15.2) MUTATED   17 10     5
  DEL PEAK 11(4P15.2) WILD-TYPE 10  9     3
D35V5, multiclass
       clus
vv      DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE
  N0                             17                            10
  N1                             10                             9
  N2+N3                           5                             3
                               vv
clus                            M0 M1A MX
  DEL PEAK 11(4P15.2) MUTATED   26   1  3
  DEL PEAK 11(4P15.2) WILD-TYPE 16   0  5
D35V6, multiclass
     clus
vv    DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE
  M0                           26                            16
  M1A                           1                             0
  MX                            3                             5
D35V7, binary
                               cls
clus                             0  1
  DEL PEAK 11(4P15.2) MUTATED    4 29
  DEL PEAK 11(4P15.2) WILD-TYPE  4 19
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(4P15.2) MUTATED      4   29
  DEL PEAK 11(4P15.2) WILD-TYPE    4   19
        clus
vv       DEL PEAK 11(4P15.2) MUTATED DEL PEAK 11(4P15.2) WILD-TYPE
  FEMALE                           4                             4
  MALE                            29                            19
D35V8, continuous

Clustering(36) Variable = DEL PEAK 12(4Q21.23) MUTATION ANALYSIS
D36V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 12(4Q21.23) MUTATED   18  9
  DEL PEAK 12(4Q21.23) WILD-TYPE 22  4
  DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE 
                            27                             26 
  DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE 
                             9                              4 
$`DEL PEAK 12(4Q21.23) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 
       20.09         0.85         0.26         0.53         0.79         0.36 
TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT 
        4.31         3.52         3.35         3.16        30.74         4.90 
TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49O TCGA-LN-A49R 
        7.13         7.43         8.75         0.16         0.33         0.10 
TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49Y TCGA-LN-A4A3 TCGA-LN-A4A6 TCGA-LN-A4MQ 
        0.07         0.07         0.07         0.07         0.10         0.10 
TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        7.59         8.78        14.01 

$`DEL PEAK 12(4Q21.23) WILD-TYPE`
TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A6QS 
       20.78         2.63        20.12         0.03         0.99         0.13 
TCGA-IG-A7DP TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP 
        1.12         3.68         4.08        18.35         3.32         7.17 
TCGA-L5-A4OQ TCGA-L5-A4OU TCGA-LN-A49N TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A49X 
        1.38        29.00         0.07         0.13         0.10         0.10 
TCGA-LN-A4A2 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MR 
        0.13         0.10         0.10         0.07         0.07         0.07 
TCGA-Q9-A6FU TCGA-Q9-A6FW 
        5.16         3.78 

  DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE 
                         30.74                          29.00 
  DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE 
                         0.850                          1.055 
[1] "0.1 - 30.7 (0.8)" "0.0 - 29.0 (1.1)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 12(4Q21.23) WILD-TYPE"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 12(4Q21.23) WILD-TYPE"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 12(4Q21.23) WILD-TYPE"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-S8-A6BW 
  "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 12(4Q21.23) WILD-TYPE"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 12(4Q21.23) WILD-TYPE"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 12(4Q21.23) WILD-TYPE"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-S8-A6BW 
  "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 12(4Q21.23) WILD-TYPE"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 12(4Q21.23) WILD-TYPE"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 12(4Q21.23) WILD-TYPE"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 12(4Q21.23) MUTATED" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 12(4Q21.23) WILD-TYPE" "DEL PEAK 12(4Q21.23) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 12(4Q21.23) MUTATED"   "DEL PEAK 12(4Q21.23) MUTATED" 
                    TCGA-S8-A6BW 
  "DEL PEAK 12(4Q21.23) MUTATED" 
[1] "hr=" "1.9"
D36V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 12(4Q21.23) MUTATED         1        1        2        1         5
  DEL PEAK 12(4Q21.23) WILD-TYPE       0        2        0        0        11
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 12(4Q21.23) MUTATED           5         4          3          3
  DEL PEAK 12(4Q21.23) WILD-TYPE         6         1          5          2
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 12(4Q21.23) MUTATED            1        1
  DEL PEAK 12(4Q21.23) WILD-TYPE          1        0
D36V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 12(4Q21.23) MUTATED    2  6    19
  DEL PEAK 12(4Q21.23) WILD-TYPE  4  9    15
D36V4, multiclass
       clus
vv      DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE
  T1                               2                              4
  T2                               6                              9
  T3+T4                           19                             15
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 12(4Q21.23) MUTATED   13 10     4
  DEL PEAK 12(4Q21.23) WILD-TYPE 14  9     4
D36V5, multiclass
       clus
vv      DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE
  N0                              13                             14
  N1                              10                              9
  N2+N3                            4                              4
                                vv
clus                             M0 M1A MX
  DEL PEAK 12(4Q21.23) MUTATED   20   1  5
  DEL PEAK 12(4Q21.23) WILD-TYPE 22   0  3
D36V6, multiclass
     clus
vv    DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE
  M0                            20                             22
  M1A                            1                              0
  MX                             5                              3
D36V7, binary
                                cls
clus                              0  1
  DEL PEAK 12(4Q21.23) MUTATED    4 24
  DEL PEAK 12(4Q21.23) WILD-TYPE  4 24
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 12(4Q21.23) MUTATED      4   24
  DEL PEAK 12(4Q21.23) WILD-TYPE    4   24
        clus
vv       DEL PEAK 12(4Q21.23) MUTATED DEL PEAK 12(4Q21.23) WILD-TYPE
  FEMALE                            4                              4
  MALE                             24                             24
D36V8, continuous

Clustering(37) Variable = DEL PEAK 13(4Q22.1) MUTATION ANALYSIS
D37V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 13(4Q22.1) MUTATED   19 10
  DEL PEAK 13(4Q22.1) WILD-TYPE 21  3
  DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE 
                           29                            24 
  DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE 
                           10                             3 
$`DEL PEAK 13(4Q22.1) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 
       20.09         0.85         0.26         0.53         0.79         0.36 
TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OQ TCGA-L5-A4OR 
        4.31         3.52         3.35         3.32         1.38         3.16 
TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M 
       30.74         4.90         7.13         7.43         8.75         0.16 
TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49Y TCGA-LN-A4A3 
        0.33         0.10         0.07         0.07         0.07         0.07 
TCGA-LN-A4A6 TCGA-LN-A4MQ TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        0.10         0.10         7.59         8.78        14.01 

$`DEL PEAK 13(4Q22.1) WILD-TYPE`
TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A6QS 
       20.78         2.63        20.12         0.03         0.99         0.13 
TCGA-IG-A7DP TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OU 
        1.12         3.68         4.08        18.35         7.17        29.00 
TCGA-LN-A49N TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A49X TCGA-LN-A4A2 TCGA-LN-A4A4 
        0.07         0.13         0.10         0.10         0.13         0.10 
TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW 
        0.10         0.07         0.07         0.07         5.16         3.78 

  DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE 
                        30.74                         29.00 
  DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE 
                         1.38                          0.56 
[1] "0.1 - 30.7 (1.4)" "0.0 - 29.0 (0.6)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 13(4Q22.1) WILD-TYPE"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 13(4Q22.1) MUTATED" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 13(4Q22.1) WILD-TYPE" "DEL PEAK 13(4Q22.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK 13(4Q22.1) MUTATED"   "DEL PEAK 13(4Q22.1) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 13(4Q22.1) MUTATED" 
[1] "hr=" "2.5"
D37V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 13(4Q22.1) MUTATED         1        1        2        1         5
  DEL PEAK 13(4Q22.1) WILD-TYPE       0        2        0        0        11
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 13(4Q22.1) MUTATED           5         4          4          3
  DEL PEAK 13(4Q22.1) WILD-TYPE         6         1          4          2
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 13(4Q22.1) MUTATED            2        1
  DEL PEAK 13(4Q22.1) WILD-TYPE          0        0
D37V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 13(4Q22.1) MUTATED    2  7    20
  DEL PEAK 13(4Q22.1) WILD-TYPE  4  8    14
D37V4, multiclass
       clus
vv      DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE
  T1                              2                             4
  T2                              7                             8
  T3+T4                          20                            14
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 13(4Q22.1) MUTATED   13 10     6
  DEL PEAK 13(4Q22.1) WILD-TYPE 14  9     2
D37V5, multiclass
       clus
vv      DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE
  N0                             13                            14
  N1                             10                             9
  N2+N3                           6                             2
                               vv
clus                            M0 M1A MX
  DEL PEAK 13(4Q22.1) MUTATED   21   1  6
  DEL PEAK 13(4Q22.1) WILD-TYPE 21   0  2
D37V6, multiclass
     clus
vv    DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE
  M0                           21                            21
  M1A                           1                             0
  MX                            6                             2
D37V7, binary
                               cls
clus                             0  1
  DEL PEAK 13(4Q22.1) MUTATED    4 26
  DEL PEAK 13(4Q22.1) WILD-TYPE  4 22
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(4Q22.1) MUTATED      4   26
  DEL PEAK 13(4Q22.1) WILD-TYPE    4   22
        clus
vv       DEL PEAK 13(4Q22.1) MUTATED DEL PEAK 13(4Q22.1) WILD-TYPE
  FEMALE                           4                             4
  MALE                            26                            22
D37V8, continuous

Clustering(38) Variable = DEL PEAK 14(5Q11.2) MUTATION ANALYSIS
D38V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 14(5Q11.2) MUTATED   23  7
  DEL PEAK 14(5Q11.2) WILD-TYPE 17  6
  DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE 
                           30                            23 
  DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE 
                            7                             6 
$`DEL PEAK 14(5Q11.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A4QS TCGA-IG-A50L TCGA-L5-A43J 
       20.09         0.85         2.63         0.26         0.53         4.31 
TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4OO TCGA-L5-A4OP 
        3.52         3.68         3.35         4.08         3.32         7.17 
TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49N 
        3.16        30.74         4.90         7.13         8.75         0.07 
TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49Y 
        0.10         0.13         0.07         0.10         0.07         0.07 
TCGA-LN-A4A2 TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-Q9-A6FU TCGA-S8-A6BV 
        0.13         0.10         0.07         0.10         5.16         8.78 

$`DEL PEAK 14(5Q11.2) WILD-TYPE`
TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A625 
       20.78        20.12         0.03         0.99         0.79         0.36 
TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4ON TCGA-L5-A4OQ TCGA-L5-A4OU TCGA-L5-A4OX 
        0.13         1.12        18.35         1.38        29.00         7.43 
TCGA-LN-A49M TCGA-LN-A49O TCGA-LN-A49X TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A6 
        0.16         0.33         0.10         0.07         0.10         0.10 
TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BW 
        0.07         0.07         3.78         7.59        14.01 

  DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE 
                        30.74                         29.00 
  DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE 
                        2.895                         0.790 
[1] "0.1 - 30.7 (2.9)" "0.0 - 29.0 (0.8)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 14(5Q11.2) WILD-TYPE" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 14(5Q11.2) WILD-TYPE" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 14(5Q11.2) WILD-TYPE" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 14(5Q11.2) WILD-TYPE" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 14(5Q11.2) WILD-TYPE" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 14(5Q11.2) WILD-TYPE" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 14(5Q11.2) WILD-TYPE" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 14(5Q11.2) WILD-TYPE" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 14(5Q11.2) MUTATED"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 14(5Q11.2) WILD-TYPE" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 14(5Q11.2) MUTATED" "DEL PEAK 14(5Q11.2) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 14(5Q11.2) WILD-TYPE"   "DEL PEAK 14(5Q11.2) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK 14(5Q11.2) WILD-TYPE" 
[1] "hr=" "1.1"
D38V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 14(5Q11.2) MUTATED         1        3        0        0         7
  DEL PEAK 14(5Q11.2) WILD-TYPE       0        0        2        1         9
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 14(5Q11.2) MUTATED           7         3          4          3
  DEL PEAK 14(5Q11.2) WILD-TYPE         4         2          4          2
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 14(5Q11.2) MUTATED            2        1
  DEL PEAK 14(5Q11.2) WILD-TYPE          0        0
D38V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 14(5Q11.2) MUTATED    5  6    20
  DEL PEAK 14(5Q11.2) WILD-TYPE  1  9    14
D38V4, multiclass
       clus
vv      DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE
  T1                              5                             1
  T2                              6                             9
  T3+T4                          20                            14
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 14(5Q11.2) MUTATED   14 12     5
  DEL PEAK 14(5Q11.2) WILD-TYPE 13  7     3
D38V5, multiclass
       clus
vv      DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE
  N0                             14                            13
  N1                             12                             7
  N2+N3                           5                             3
                               vv
clus                            M0 M1A MX
  DEL PEAK 14(5Q11.2) MUTATED   22   1  5
  DEL PEAK 14(5Q11.2) WILD-TYPE 20   0  3
D38V6, multiclass
     clus
vv    DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE
  M0                           22                            20
  M1A                           1                             0
  MX                            5                             3
D38V7, binary
                               cls
clus                             0  1
  DEL PEAK 14(5Q11.2) MUTATED    6 25
  DEL PEAK 14(5Q11.2) WILD-TYPE  2 23
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(5Q11.2) MUTATED      6   25
  DEL PEAK 14(5Q11.2) WILD-TYPE    2   23
        clus
vv       DEL PEAK 14(5Q11.2) MUTATED DEL PEAK 14(5Q11.2) WILD-TYPE
  FEMALE                           6                             2
  MALE                            25                            23
D38V8, continuous

Clustering(39) Variable = DEL PEAK 15(6P25.3) MUTATION ANALYSIS
D39V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 15(6P25.3) MUTATED   12  8
  DEL PEAK 15(6P25.3) WILD-TYPE 28  5
  DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE 
                           20                            33 
  DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE 
                            8                             5 
$`DEL PEAK 15(6P25.3) MUTATED`
TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L TCGA-L5-A43J TCGA-L5-A4OG TCGA-L5-A4ON 
        0.03         0.26         0.53         4.31         3.35        18.35 
TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OW TCGA-L7-A6VZ 
        3.32         7.17         1.38         3.16         7.13         8.75 
TCGA-LN-A49N TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A4A2 TCGA-Q9-A6FU TCGA-R6-A6DQ 
        0.07         0.10         0.07         0.13         5.16         7.59 
TCGA-S8-A6BV TCGA-S8-A6BW 
        8.78        14.01 

$`DEL PEAK 15(6P25.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QT 
       20.09         0.85        20.78         2.63        20.12         0.99 
TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OE TCGA-L5-A4OF 
        0.79         0.36         0.13         1.12         3.52         3.68 
TCGA-L5-A4OM TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OX TCGA-LN-A49M 
        4.08        30.74         4.90        29.00         7.43         0.16 
TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49X TCGA-LN-A49Y 
        0.33         0.10         0.13         0.07         0.10         0.07 
TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 
        0.07         0.10         0.10         0.10         0.07         0.07 
TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FW 
        0.10         0.07         3.78 

  DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE 
                         0.03                          0.07 
  DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE 
                        18.35                         30.74 
  DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE 
                        3.335                         0.360 
[1] "0.0 - 18.4 (3.3)" "0.1 - 30.7 (0.4)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 15(6P25.3) MUTATED"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 15(6P25.3) MUTATED"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK 15(6P25.3) MUTATED"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 15(6P25.3) MUTATED"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 15(6P25.3) MUTATED"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK 15(6P25.3) MUTATED"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 15(6P25.3) MUTATED"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 15(6P25.3) MUTATED"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK 15(6P25.3) WILD-TYPE"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 15(6P25.3) WILD-TYPE" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 15(6P25.3) MUTATED" "DEL PEAK 15(6P25.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
  "DEL PEAK 15(6P25.3) MUTATED"   "DEL PEAK 15(6P25.3) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 15(6P25.3) MUTATED" 
[1] "hr=" "1.8"
D39V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 15(6P25.3) MUTATED         1        2        1        0         3
  DEL PEAK 15(6P25.3) WILD-TYPE       0        1        1        1        13
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 15(6P25.3) MUTATED           5         1          3          2
  DEL PEAK 15(6P25.3) WILD-TYPE         6         4          5          3
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 15(6P25.3) MUTATED            2        0
  DEL PEAK 15(6P25.3) WILD-TYPE          0        1
D39V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 15(6P25.3) MUTATED    4  5    11
  DEL PEAK 15(6P25.3) WILD-TYPE  2 10    23
D39V4, multiclass
       clus
vv      DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE
  T1                              4                             2
  T2                              5                            10
  T3+T4                          11                            23
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 15(6P25.3) MUTATED    8  7     5
  DEL PEAK 15(6P25.3) WILD-TYPE 19 12     3
D39V5, multiclass
       clus
vv      DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE
  N0                              8                            19
  N1                              7                            12
  N2+N3                           5                             3
                               vv
clus                            M0 M1A MX
  DEL PEAK 15(6P25.3) MUTATED   12   0  7
  DEL PEAK 15(6P25.3) WILD-TYPE 30   1  1
D39V6, multiclass
     clus
vv    DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE
  M0                           12                            30
  M1A                           0                             1
  MX                            7                             1
D39V7, binary
                               cls
clus                             0  1
  DEL PEAK 15(6P25.3) MUTATED    5 16
  DEL PEAK 15(6P25.3) WILD-TYPE  3 32
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 15(6P25.3) MUTATED      5   16
  DEL PEAK 15(6P25.3) WILD-TYPE    3   32
        clus
vv       DEL PEAK 15(6P25.3) MUTATED DEL PEAK 15(6P25.3) WILD-TYPE
  FEMALE                           5                             3
  MALE                            16                            32
D39V8, continuous

Clustering(40) Variable = DEL PEAK 16(6Q16.1) MUTATION ANALYSIS
D40V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 16(6Q16.1) MUTATED   10  2
  DEL PEAK 16(6Q16.1) WILD-TYPE 30 11
  DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE 
                           12                            41 
  DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE 
                            2                            11 
$`DEL PEAK 16(6Q16.1) MUTATED`
TCGA-IG-A3QL TCGA-L5-A4ON TCGA-L5-A4OR TCGA-LN-A49R TCGA-LN-A49W TCGA-LN-A49X 
       20.09        18.35         3.16         0.10         0.07         0.10 
TCGA-LN-A4A2 TCGA-LN-A4A5 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-S8-A6BV TCGA-S8-A6BW 
        0.13         0.10         0.10         0.07         8.78        14.01 

$`DEL PEAK 16(6Q16.1) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS 
        0.85        20.78         2.63        20.12         0.03         0.26 
TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP 
        0.99         0.53         0.79         0.36         0.13         1.12 
TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4OO 
        4.31         3.52         3.68         3.35         4.08         3.32 
TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW 
        7.17         1.38        30.74         4.90        29.00         7.13 
TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49S 
        7.43         8.75         0.16         0.07         0.33         0.13 
TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49Y TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A6 
        0.07         0.10         0.07         0.07         0.10         0.10 
TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.07         0.07         5.16         3.78         7.59 

  DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE 
                        20.09                         30.74 
  DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE 
                        0.115                         1.120 
[1] "0.1 - 20.1 (0.1)" "0.0 - 30.7 (1.1)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 16(6Q16.1) MUTATED"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK 16(6Q16.1) WILD-TYPE"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 16(6Q16.1) MUTATED"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 16(6Q16.1) WILD-TYPE"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 16(6Q16.1) MUTATED"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK 16(6Q16.1) WILD-TYPE"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 16(6Q16.1) MUTATED"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 16(6Q16.1) WILD-TYPE"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 16(6Q16.1) MUTATED"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
"DEL PEAK 16(6Q16.1) WILD-TYPE"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 16(6Q16.1) MUTATED" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 16(6Q16.1) MUTATED"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 16(6Q16.1) WILD-TYPE" "DEL PEAK 16(6Q16.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 16(6Q16.1) WILD-TYPE"   "DEL PEAK 16(6Q16.1) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 16(6Q16.1) MUTATED" 
[1] "hr=" "1.9"
D40V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 16(6Q16.1) MUTATED         0        1        1        0         5
  DEL PEAK 16(6Q16.1) WILD-TYPE       1        2        1        1        11
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 16(6Q16.1) MUTATED           2         3          1          0
  DEL PEAK 16(6Q16.1) WILD-TYPE         9         2          7          5
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 16(6Q16.1) MUTATED            0        0
  DEL PEAK 16(6Q16.1) WILD-TYPE          2        1
D40V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 16(6Q16.1) MUTATED    2  3     8
  DEL PEAK 16(6Q16.1) WILD-TYPE  4 12    26
D40V4, multiclass
       clus
vv      DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE
  T1                              2                             4
  T2                              3                            12
  T3+T4                           8                            26
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 16(6Q16.1) MUTATED    8  5     0
  DEL PEAK 16(6Q16.1) WILD-TYPE 19 14     8
D40V5, multiclass
       clus
vv      DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE
  N0                              8                            19
  N1                              5                            14
  N2+N3                           0                             8
                               vv
clus                            M0 M1A MX
  DEL PEAK 16(6Q16.1) MUTATED    9   0  3
  DEL PEAK 16(6Q16.1) WILD-TYPE 33   1  5
D40V6, multiclass
     clus
vv    DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE
  M0                            9                            33
  M1A                           0                             1
  MX                            3                             5
D40V7, binary
                               cls
clus                             0  1
  DEL PEAK 16(6Q16.1) MUTATED    0 13
  DEL PEAK 16(6Q16.1) WILD-TYPE  8 35
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 16(6Q16.1) MUTATED      0   13
  DEL PEAK 16(6Q16.1) WILD-TYPE    8   35
        clus
vv       DEL PEAK 16(6Q16.1) MUTATED DEL PEAK 16(6Q16.1) WILD-TYPE
  FEMALE                           0                             8
  MALE                            13                            35
D40V8, continuous

Clustering(41) Variable = DEL PEAK 17(6Q26) MUTATION ANALYSIS
D41V1, survival
                             sevent
clus2                          0  1
  DEL PEAK 17(6Q26) MUTATED   10  2
  DEL PEAK 17(6Q26) WILD-TYPE 30 11
  DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE 
                         12                          41 
  DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE 
                          2                          11 
$`DEL PEAK 17(6Q26) MUTATED`
TCGA-IG-A3QL TCGA-L5-A43J TCGA-L5-A4OR TCGA-LN-A49R TCGA-LN-A49W TCGA-LN-A49X 
       20.09         4.31         3.16         0.10         0.07         0.10 
TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A5 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-S8-A6BW 
        0.13         0.07         0.10         0.10         0.07        14.01 

$`DEL PEAK 17(6Q26) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS 
        0.85        20.78         2.63        20.12         0.03         0.26 
TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP 
        0.99         0.53         0.79         0.36         0.13         1.12 
TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO 
        3.52         3.68         3.35         4.08        18.35         3.32 
TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW 
        7.17         1.38        30.74         4.90        29.00         7.13 
TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49S 
        7.43         8.75         0.16         0.07         0.33         0.13 
TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49Y TCGA-LN-A4A4 TCGA-LN-A4A6 TCGA-LN-A4A8 
        0.07         0.10         0.07         0.10         0.10         0.07 
TCGA-LN-A4A9 TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV 
        0.07         5.16         3.78         7.59         8.78 

  DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE 
                       0.07                        0.03 
  DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE 
                      20.09                       30.74 
  DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE 
                       0.10                        1.38 
[1] "0.1 - 20.1 (0.1)" "0.0 - 30.7 (1.4)"
                 TCGA-IG-A3QL                  TCGA-IG-A3Y9 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A3YA                  TCGA-IG-A3YB 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A3YC                  TCGA-IG-A4P3 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A4QS                  TCGA-IG-A4QT 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A50L                  TCGA-IG-A5B8 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A625                  TCGA-IG-A6QS 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A7DP                  TCGA-L5-A43J 
"DEL PEAK 17(6Q26) WILD-TYPE"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-L5-A4OE                  TCGA-L5-A4OF 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OG                  TCGA-L5-A4OM 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4ON                  TCGA-L5-A4OO 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OP                  TCGA-L5-A4OQ 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OR                  TCGA-L5-A4OS 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OT                  TCGA-L5-A4OU 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OW                  TCGA-L5-A4OX 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L7-A6VZ                  TCGA-LN-A49M 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49N                  TCGA-LN-A49O 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49R                  TCGA-LN-A49S 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49U                  TCGA-LN-A49V 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49W                  TCGA-LN-A49X 
  "DEL PEAK 17(6Q26) MUTATED"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-LN-A49Y                  TCGA-LN-A4A2 
"DEL PEAK 17(6Q26) WILD-TYPE"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-LN-A4A3                  TCGA-LN-A4A4 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A4A5                  TCGA-LN-A4A6 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A4A8                  TCGA-LN-A4A9 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A4MQ                  TCGA-LN-A4MR 
  "DEL PEAK 17(6Q26) MUTATED"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-Q9-A6FU                  TCGA-Q9-A6FW 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-R6-A6DQ                  TCGA-S8-A6BV 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-S8-A6BW 
  "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-IG-A3QL                  TCGA-IG-A3Y9 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A3YA                  TCGA-IG-A3YB 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A3YC                  TCGA-IG-A4P3 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A4QS                  TCGA-IG-A4QT 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A50L                  TCGA-IG-A5B8 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A625                  TCGA-IG-A6QS 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A7DP                  TCGA-L5-A43J 
"DEL PEAK 17(6Q26) WILD-TYPE"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-L5-A4OE                  TCGA-L5-A4OF 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OG                  TCGA-L5-A4OM 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4ON                  TCGA-L5-A4OO 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OP                  TCGA-L5-A4OQ 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OR                  TCGA-L5-A4OS 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OT                  TCGA-L5-A4OU 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OW                  TCGA-L5-A4OX 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L7-A6VZ                  TCGA-LN-A49M 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49N                  TCGA-LN-A49O 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49R                  TCGA-LN-A49S 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49U                  TCGA-LN-A49V 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49W                  TCGA-LN-A49X 
  "DEL PEAK 17(6Q26) MUTATED"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-LN-A49Y                  TCGA-LN-A4A2 
"DEL PEAK 17(6Q26) WILD-TYPE"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-LN-A4A3                  TCGA-LN-A4A4 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A4A5                  TCGA-LN-A4A6 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A4A8                  TCGA-LN-A4A9 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A4MQ                  TCGA-LN-A4MR 
  "DEL PEAK 17(6Q26) MUTATED"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-Q9-A6FU                  TCGA-Q9-A6FW 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-R6-A6DQ                  TCGA-S8-A6BV 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-S8-A6BW 
  "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-IG-A3QL                  TCGA-IG-A3Y9 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A3YA                  TCGA-IG-A3YB 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A3YC                  TCGA-IG-A4P3 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A4QS                  TCGA-IG-A4QT 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A50L                  TCGA-IG-A5B8 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A625                  TCGA-IG-A6QS 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-IG-A7DP                  TCGA-L5-A43J 
"DEL PEAK 17(6Q26) WILD-TYPE"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-L5-A4OE                  TCGA-L5-A4OF 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OG                  TCGA-L5-A4OM 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4ON                  TCGA-L5-A4OO 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OP                  TCGA-L5-A4OQ 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OR                  TCGA-L5-A4OS 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OT                  TCGA-L5-A4OU 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L5-A4OW                  TCGA-L5-A4OX 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-L7-A6VZ                  TCGA-LN-A49M 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49N                  TCGA-LN-A49O 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49R                  TCGA-LN-A49S 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49U                  TCGA-LN-A49V 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A49W                  TCGA-LN-A49X 
  "DEL PEAK 17(6Q26) MUTATED"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-LN-A49Y                  TCGA-LN-A4A2 
"DEL PEAK 17(6Q26) WILD-TYPE"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-LN-A4A3                  TCGA-LN-A4A4 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A4A5                  TCGA-LN-A4A6 
  "DEL PEAK 17(6Q26) MUTATED" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A4A8                  TCGA-LN-A4A9 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-LN-A4MQ                  TCGA-LN-A4MR 
  "DEL PEAK 17(6Q26) MUTATED"   "DEL PEAK 17(6Q26) MUTATED" 
                 TCGA-Q9-A6FU                  TCGA-Q9-A6FW 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-R6-A6DQ                  TCGA-S8-A6BV 
"DEL PEAK 17(6Q26) WILD-TYPE" "DEL PEAK 17(6Q26) WILD-TYPE" 
                 TCGA-S8-A6BW 
  "DEL PEAK 17(6Q26) MUTATED" 
[1] "hr=" "1"  
D41V2, continuous
                             vv
clus                          STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 17(6Q26) MUTATED         0        1        1        0         5
  DEL PEAK 17(6Q26) WILD-TYPE       1        2        1        1        11
                             vv
clus                          STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 17(6Q26) MUTATED           2         4          0          0
  DEL PEAK 17(6Q26) WILD-TYPE         9         1          8          5
                             vv
clus                          STAGE IIIC STAGE IV
  DEL PEAK 17(6Q26) MUTATED            0        0
  DEL PEAK 17(6Q26) WILD-TYPE          2        1
D41V3, multiclass
                             vv
clus                          T1 T2 T3+T4
  DEL PEAK 17(6Q26) MUTATED    1  3     9
  DEL PEAK 17(6Q26) WILD-TYPE  5 12    25
D41V4, multiclass
       clus
vv      DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE
  T1                            1                           5
  T2                            3                          12
  T3+T4                         9                          25
                             vv
clus                          N0 N1 N2+N3
  DEL PEAK 17(6Q26) MUTATED    9  4     0
  DEL PEAK 17(6Q26) WILD-TYPE 18 15     8
D41V5, multiclass
       clus
vv      DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE
  N0                            9                          18
  N1                            4                          15
  N2+N3                         0                           8
                             vv
clus                          M0 M1A MX
  DEL PEAK 17(6Q26) MUTATED   10   0  3
  DEL PEAK 17(6Q26) WILD-TYPE 32   1  5
D41V6, multiclass
     clus
vv    DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE
  M0                         10                          32
  M1A                         0                           1
  MX                          3                           5
D41V7, binary
                             cls
clus                           0  1
  DEL PEAK 17(6Q26) MUTATED    0 13
  DEL PEAK 17(6Q26) WILD-TYPE  8 35
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 17(6Q26) MUTATED      0   13
  DEL PEAK 17(6Q26) WILD-TYPE    8   35
        clus
vv       DEL PEAK 17(6Q26) MUTATED DEL PEAK 17(6Q26) WILD-TYPE
  FEMALE                         0                           8
  MALE                          13                          35
D41V8, continuous

Clustering(42) Variable = DEL PEAK 18(7Q31.1) MUTATION ANALYSIS
D42V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 18(7Q31.1) MUTATED   15  4
  DEL PEAK 18(7Q31.1) WILD-TYPE 25  9
  DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE 
                           19                            34 
  DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE 
                            4                             9 
$`DEL PEAK 18(7Q31.1) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QS TCGA-IG-A5B8 TCGA-IG-A6QS 
        0.85         2.63        20.12         0.26         0.79         0.13 
TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4OR TCGA-L5-A4OU TCGA-L7-A6VZ TCGA-LN-A49N 
        3.68         4.08         3.16        29.00         8.75         0.07 
TCGA-LN-A49R TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A3 TCGA-LN-A4A6 
        0.10         0.07         0.10         0.07         0.07         0.10 
TCGA-LN-A4MR 
        0.07 

$`DEL PEAK 18(7Q31.1) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A625 
       20.09        20.78         0.03         0.99         0.53         0.36 
TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4ON TCGA-L5-A4OO 
        1.12         4.31         3.52         3.35        18.35         3.32 
TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX 
        7.17         1.38        30.74         4.90         7.13         7.43 
TCGA-LN-A49M TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A4A2 
        0.16         0.33         0.13         0.07         0.10         0.13 
TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-Q9-A6FU 
        0.10         0.10         0.07         0.07         0.10         5.16 
TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        3.78         7.59         8.78        14.01 

  DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE 
                        29.00                         30.74 
  DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE 
                         0.26                          2.35 
[1] "0.1 - 29.0 (0.3)" "0.0 - 30.7 (2.3)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 18(7Q31.1) MUTATED"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-S8-A6BW 
"DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 18(7Q31.1) MUTATED"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-S8-A6BW 
"DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 18(7Q31.1) MUTATED"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 18(7Q31.1) MUTATED" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 18(7Q31.1) WILD-TYPE"   "DEL PEAK 18(7Q31.1) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 18(7Q31.1) WILD-TYPE" "DEL PEAK 18(7Q31.1) WILD-TYPE" 
                   TCGA-S8-A6BW 
"DEL PEAK 18(7Q31.1) WILD-TYPE" 
[1] "hr=" "1.2"
D42V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 18(7Q31.1) MUTATED         0        2        1        1         4
  DEL PEAK 18(7Q31.1) WILD-TYPE       1        1        1        0        12
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 18(7Q31.1) MUTATED           4         3          3          1
  DEL PEAK 18(7Q31.1) WILD-TYPE         7         2          5          4
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 18(7Q31.1) MUTATED            1        0
  DEL PEAK 18(7Q31.1) WILD-TYPE          1        1
D42V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 18(7Q31.1) MUTATED    3  5    12
  DEL PEAK 18(7Q31.1) WILD-TYPE  3 10    22
D42V4, multiclass
       clus
vv      DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE
  T1                              3                             3
  T2                              5                            10
  T3+T4                          12                            22
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 18(7Q31.1) MUTATED    9  9     2
  DEL PEAK 18(7Q31.1) WILD-TYPE 18 10     6
D42V5, multiclass
       clus
vv      DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE
  N0                              9                            18
  N1                              9                            10
  N2+N3                           2                             6
                               vv
clus                            M0 M1A MX
  DEL PEAK 18(7Q31.1) MUTATED   16   0  2
  DEL PEAK 18(7Q31.1) WILD-TYPE 26   1  6
D42V6, multiclass
     clus
vv    DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE
  M0                           16                            26
  M1A                           0                             1
  MX                            2                             6
D42V7, binary
                               cls
clus                             0  1
  DEL PEAK 18(7Q31.1) MUTATED    1 19
  DEL PEAK 18(7Q31.1) WILD-TYPE  7 29
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 18(7Q31.1) MUTATED      1   19
  DEL PEAK 18(7Q31.1) WILD-TYPE    7   29
        clus
vv       DEL PEAK 18(7Q31.1) MUTATED DEL PEAK 18(7Q31.1) WILD-TYPE
  FEMALE                           1                             7
  MALE                            19                            29
D42V8, continuous

Clustering(43) Variable = DEL PEAK 19(7Q36.2) MUTATION ANALYSIS
D43V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 19(7Q36.2) MUTATED   18  4
  DEL PEAK 19(7Q36.2) WILD-TYPE 22  9
  DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE 
                           22                            31 
  DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE 
                            4                             9 
$`DEL PEAK 19(7Q36.2) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-L5-A4OF 
        0.85        20.12         0.03         0.79         0.13         3.68 
TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OR TCGA-L5-A4OU TCGA-L7-A6VZ 
        4.08        18.35         7.17         3.16        29.00         8.75 
TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A3 
        0.33         0.10         0.13         0.10         0.07         0.07 
TCGA-LN-A4A6 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FW 
        0.10         0.10         0.07         3.78 

$`DEL PEAK 19(7Q36.2) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A50L 
       20.09        20.78         2.63         0.26         0.99         0.53 
TCGA-IG-A625 TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OO 
        0.36         1.12         4.31         3.52         3.35         3.32 
TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49M 
        1.38        30.74         4.90         7.13         7.43         0.16 
TCGA-LN-A49N TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A4A2 TCGA-LN-A4A4 
        0.07         0.07         0.10         0.07         0.13         0.10 
TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-Q9-A6FU TCGA-R6-A6DQ TCGA-S8-A6BV 
        0.10         0.07         0.07         5.16         7.59         8.78 
TCGA-S8-A6BW 
       14.01 

  DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE 
                         0.03                          0.07 
  DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE 
                        29.00                         30.74 
  DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE 
                         0.56                          1.38 
[1] "0.0 - 29.0 (0.6)" "0.1 - 30.7 (1.4)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 19(7Q36.2) MUTATED"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 19(7Q36.2) MUTATED"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 19(7Q36.2) MUTATED"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
"DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 19(7Q36.2) MUTATED"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 19(7Q36.2) MUTATED"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 19(7Q36.2) MUTATED"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
"DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 19(7Q36.2) MUTATED"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 19(7Q36.2) MUTATED"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 19(7Q36.2) MUTATED" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 19(7Q36.2) MUTATED"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
"DEL PEAK 19(7Q36.2) WILD-TYPE"   "DEL PEAK 19(7Q36.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 19(7Q36.2) WILD-TYPE" "DEL PEAK 19(7Q36.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
"DEL PEAK 19(7Q36.2) WILD-TYPE" 
[1] "hr=" "1.3"
D43V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 19(7Q36.2) MUTATED         0        3        1        1         7
  DEL PEAK 19(7Q36.2) WILD-TYPE       1        0        1        0         9
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 19(7Q36.2) MUTATED           5         3          2          1
  DEL PEAK 19(7Q36.2) WILD-TYPE         6         2          6          4
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 19(7Q36.2) MUTATED            1        0
  DEL PEAK 19(7Q36.2) WILD-TYPE          1        1
D43V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 19(7Q36.2) MUTATED    5  5    14
  DEL PEAK 19(7Q36.2) WILD-TYPE  1 10    20
D43V4, multiclass
       clus
vv      DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE
  T1                              5                             1
  T2                              5                            10
  T3+T4                          14                            20
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 19(7Q36.2) MUTATED   13  9     2
  DEL PEAK 19(7Q36.2) WILD-TYPE 14 10     6
D43V5, multiclass
       clus
vv      DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE
  N0                             13                            14
  N1                              9                            10
  N2+N3                           2                             6
                               vv
clus                            M0 M1A MX
  DEL PEAK 19(7Q36.2) MUTATED   18   0  3
  DEL PEAK 19(7Q36.2) WILD-TYPE 24   1  5
D43V6, multiclass
     clus
vv    DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE
  M0                           18                            24
  M1A                           0                             1
  MX                            3                             5
D43V7, binary
                               cls
clus                             0  1
  DEL PEAK 19(7Q36.2) MUTATED    2 22
  DEL PEAK 19(7Q36.2) WILD-TYPE  6 26
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 19(7Q36.2) MUTATED      2   22
  DEL PEAK 19(7Q36.2) WILD-TYPE    6   26
        clus
vv       DEL PEAK 19(7Q36.2) MUTATED DEL PEAK 19(7Q36.2) WILD-TYPE
  FEMALE                           2                             6
  MALE                            22                            26
D43V8, continuous

Clustering(44) Variable = DEL PEAK 20(8P23.2) MUTATION ANALYSIS
D44V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 20(8P23.2) MUTATED   20  7
  DEL PEAK 20(8P23.2) WILD-TYPE 20  6
  DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE 
                           27                            26 
  DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE 
                            7                             6 
$`DEL PEAK 20(8P23.2) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 
        0.85         2.63         0.03         0.26         0.53         0.79 
TCGA-IG-A6QS TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OO TCGA-L5-A4OT 
        0.13         4.31         3.52         3.68         3.32         4.90 
TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49S TCGA-LN-A49W 
        7.43         8.75         0.16         0.07         0.13         0.07 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A5 TCGA-LN-A4MQ TCGA-LN-A4MR 
        0.07         0.13         0.07         0.10         0.10         0.07 
TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-S8-A6BW 
        5.16         3.78        14.01 

$`DEL PEAK 20(8P23.2) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A7DP 
       20.09        20.78        20.12         0.99         0.36         1.12 
TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OR 
        3.35         4.08        18.35         7.17         1.38         3.16 
TCGA-L5-A4OS TCGA-L5-A4OU TCGA-L5-A4OW TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49U 
       30.74        29.00         7.13         0.33         0.10         0.07 
TCGA-LN-A49V TCGA-LN-A49X TCGA-LN-A4A4 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 
        0.10         0.10         0.10         0.10         0.07         0.07 
TCGA-R6-A6DQ TCGA-S8-A6BV 
        7.59         8.78 

  DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE 
                         0.03                          0.07 
  DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE 
                        14.01                         30.74 
  DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE 
                         0.53                          2.27 
[1] "0.0 - 14.0 (0.5)" "0.1 - 30.7 (2.3)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
"DEL PEAK 20(8P23.2) WILD-TYPE"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 20(8P23.2) MUTATED" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 20(8P23.2) MUTATED"   "DEL PEAK 20(8P23.2) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 20(8P23.2) WILD-TYPE" "DEL PEAK 20(8P23.2) WILD-TYPE" 
                   TCGA-S8-A6BW 
  "DEL PEAK 20(8P23.2) MUTATED" 
[1] "hr=" "2.6"
D44V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 20(8P23.2) MUTATED         0        0        2        0         7
  DEL PEAK 20(8P23.2) WILD-TYPE       1        3        0        1         9
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 20(8P23.2) MUTATED           7         3          3          4
  DEL PEAK 20(8P23.2) WILD-TYPE         4         2          5          1
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 20(8P23.2) MUTATED            2        1
  DEL PEAK 20(8P23.2) WILD-TYPE          0        0
D44V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 20(8P23.2) MUTATED    1  9    19
  DEL PEAK 20(8P23.2) WILD-TYPE  5  6    15
D44V4, multiclass
       clus
vv      DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE
  T1                              1                             5
  T2                              9                             6
  T3+T4                          19                            15
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 20(8P23.2) MUTATED   11 12     6
  DEL PEAK 20(8P23.2) WILD-TYPE 16  7     2
D44V5, multiclass
       clus
vv      DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE
  N0                             11                            16
  N1                             12                             7
  N2+N3                           6                             2
                               vv
clus                            M0 M1A MX
  DEL PEAK 20(8P23.2) MUTATED   23   1  3
  DEL PEAK 20(8P23.2) WILD-TYPE 19   0  5
D44V6, multiclass
     clus
vv    DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE
  M0                           23                            19
  M1A                           1                             0
  MX                            3                             5
D44V7, binary
                               cls
clus                             0  1
  DEL PEAK 20(8P23.2) MUTATED    1 28
  DEL PEAK 20(8P23.2) WILD-TYPE  7 20
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 20(8P23.2) MUTATED      1   28
  DEL PEAK 20(8P23.2) WILD-TYPE    7   20
        clus
vv       DEL PEAK 20(8P23.2) MUTATED DEL PEAK 20(8P23.2) WILD-TYPE
  FEMALE                           1                             7
  MALE                            28                            20
D44V8, continuous

Clustering(45) Variable = DEL PEAK 21(9P21.3) MUTATION ANALYSIS
D45V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 21(9P21.3) MUTATED   35  9
  DEL PEAK 21(9P21.3) WILD-TYPE  5  4
  DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE 
                           44                             9 
  DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE 
                            9                             4 
$`DEL PEAK 21(9P21.3) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS 
        0.85        20.78         2.63        20.12         0.03         0.26 
TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-L5-A43J TCGA-L5-A4OF 
        0.53         0.79         0.36         0.13         4.31         3.68 
TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OS TCGA-L5-A4OT 
        4.08        18.35         3.32         7.17        30.74         4.90 
TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N 
       29.00         7.13         7.43         8.75         0.16         0.07 
TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49X 
        0.33         0.10         0.13         0.07         0.07         0.10 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 
        0.07         0.13         0.07         0.10         0.10         0.10 
TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW 
        0.07         0.07         0.10         0.07         5.16         3.78 
TCGA-S8-A6BV TCGA-S8-A6BW 
        8.78        14.01 

$`DEL PEAK 21(9P21.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A4QT TCGA-IG-A7DP TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OQ 
       20.09         0.99         1.12         3.52         3.35         1.38 
TCGA-L5-A4OR TCGA-LN-A49V TCGA-R6-A6DQ 
        3.16         0.10         7.59 

  DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE 
                         0.03                          0.10 
  DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE 
                        30.74                         20.09 
  DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE 
                        0.445                         3.160 
[1] "0.0 - 30.7 (0.4)" "0.1 - 20.1 (3.2)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 21(9P21.3) MUTATED" "DEL PEAK 21(9P21.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 21(9P21.3) MUTATED" "DEL PEAK 21(9P21.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 21(9P21.3) MUTATED" "DEL PEAK 21(9P21.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 21(9P21.3) MUTATED" "DEL PEAK 21(9P21.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 21(9P21.3) MUTATED" "DEL PEAK 21(9P21.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 21(9P21.3) MUTATED" "DEL PEAK 21(9P21.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 21(9P21.3) MUTATED" "DEL PEAK 21(9P21.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 21(9P21.3) MUTATED" "DEL PEAK 21(9P21.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
  "DEL PEAK 21(9P21.3) MUTATED" "DEL PEAK 21(9P21.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 21(9P21.3) MUTATED"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 21(9P21.3) WILD-TYPE"   "DEL PEAK 21(9P21.3) MUTATED" 
                   TCGA-S8-A6BW 
  "DEL PEAK 21(9P21.3) MUTATED" 
[1] "hr=" "1.7"
D45V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 21(9P21.3) MUTATED         0        2        2        1        14
  DEL PEAK 21(9P21.3) WILD-TYPE       1        1        0        0         2
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 21(9P21.3) MUTATED          10         5          6          4
  DEL PEAK 21(9P21.3) WILD-TYPE         1         0          2          1
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 21(9P21.3) MUTATED            2        1
  DEL PEAK 21(9P21.3) WILD-TYPE          0        0
D45V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 21(9P21.3) MUTATED    4 14    29
  DEL PEAK 21(9P21.3) WILD-TYPE  2  1     5
D45V4, multiclass
       clus
vv      DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE
  T1                              4                             2
  T2                             14                             1
  T3+T4                          29                             5
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 21(9P21.3) MUTATED   22 19     6
  DEL PEAK 21(9P21.3) WILD-TYPE  5  0     2
D45V5, multiclass
       clus
vv      DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE
  N0                             22                             5
  N1                             19                             0
  N2+N3                           6                             2
                               vv
clus                            M0 M1A MX
  DEL PEAK 21(9P21.3) MUTATED   38   1  5
  DEL PEAK 21(9P21.3) WILD-TYPE  4   0  3
D45V6, multiclass
     clus
vv    DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE
  M0                           38                             4
  M1A                           1                             0
  MX                            5                             3
D45V7, binary
                               cls
clus                             0  1
  DEL PEAK 21(9P21.3) MUTATED    5 42
  DEL PEAK 21(9P21.3) WILD-TYPE  3  6
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 21(9P21.3) MUTATED      5   42
  DEL PEAK 21(9P21.3) WILD-TYPE    3    6
        clus
vv       DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE
  FEMALE                           5                             3
  MALE                            42                             6
D45V8, continuous

Clustering(46) Variable = DEL PEAK 22(10P15.1) MUTATION ANALYSIS
D46V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 22(10P15.1) MUTATED   12  5
  DEL PEAK 22(10P15.1) WILD-TYPE 28  8
  DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE 
                            17                             36 
  DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE 
                             5                              8 
$`DEL PEAK 22(10P15.1) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A4P3 TCGA-IG-A50L TCGA-IG-A5B8 TCGA-L5-A43J TCGA-L5-A4OE 
        0.85         0.03         0.53         0.79         4.31         3.52 
TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OR TCGA-L5-A4OT TCGA-LN-A49O 
        3.68         3.35         3.32         3.16         4.90         0.33 
TCGA-LN-A49W TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FW 
        0.07         0.07         0.10         0.07         3.78 

$`DEL PEAK 22(10P15.1) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QS TCGA-IG-A4QT 
       20.09        20.78         2.63        20.12         0.26         0.99 
TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP 
        0.36         0.13         1.12         4.08        18.35         7.17 
TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ 
        1.38        30.74        29.00         7.13         7.43         8.75 
TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V 
        0.16         0.07         0.10         0.13         0.07         0.10 
TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 
        0.10         0.07         0.13         0.07         0.10         0.10 
TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-Q9-A6FU TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        0.10         0.07         5.16         7.59         8.78        14.01 

  DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE 
                          0.03                           0.07 
  DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE 
                          4.90                          30.74 
  DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE 
                         0.850                          1.055 
[1] "0.0 - 4.9 (0.8)"  "0.1 - 30.7 (1.1)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 22(10P15.1) MUTATED"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 22(10P15.1) MUTATED"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 22(10P15.1) MUTATED"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 22(10P15.1) MUTATED"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 22(10P15.1) MUTATED"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 22(10P15.1) MUTATED"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 22(10P15.1) MUTATED"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 22(10P15.1) MUTATED"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 22(10P15.1) MUTATED" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 22(10P15.1) MUTATED"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 22(10P15.1) WILD-TYPE"   "DEL PEAK 22(10P15.1) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 22(10P15.1) WILD-TYPE" "DEL PEAK 22(10P15.1) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 22(10P15.1) WILD-TYPE" 
[1] "hr=" "5.1"
D46V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 22(10P15.1) MUTATED         1        1        1        0         3
  DEL PEAK 22(10P15.1) WILD-TYPE       0        2        1        1        13
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 22(10P15.1) MUTATED           3         2          2          2
  DEL PEAK 22(10P15.1) WILD-TYPE         8         3          6          3
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 22(10P15.1) MUTATED            1        1
  DEL PEAK 22(10P15.1) WILD-TYPE          1        0
D46V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 22(10P15.1) MUTATED    3  3    11
  DEL PEAK 22(10P15.1) WILD-TYPE  3 12    23
D46V4, multiclass
       clus
vv      DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE
  T1                               3                              3
  T2                               3                             12
  T3+T4                           11                             23
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 22(10P15.1) MUTATED    8  6     3
  DEL PEAK 22(10P15.1) WILD-TYPE 19 13     5
D46V5, multiclass
       clus
vv      DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE
  N0                               8                             19
  N1                               6                             13
  N2+N3                            3                              5
                                vv
clus                             M0 M1A MX
  DEL PEAK 22(10P15.1) MUTATED   12   1  2
  DEL PEAK 22(10P15.1) WILD-TYPE 30   0  6
D46V6, multiclass
     clus
vv    DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE
  M0                            12                             30
  M1A                            1                              0
  MX                             2                              6
D46V7, binary
                                cls
clus                              0  1
  DEL PEAK 22(10P15.1) MUTATED    1 16
  DEL PEAK 22(10P15.1) WILD-TYPE  7 32
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(10P15.1) MUTATED      1   16
  DEL PEAK 22(10P15.1) WILD-TYPE    7   32
        clus
vv       DEL PEAK 22(10P15.1) MUTATED DEL PEAK 22(10P15.1) WILD-TYPE
  FEMALE                            1                              7
  MALE                             16                             32
D46V8, continuous

Clustering(47) Variable = DEL PEAK 23(10P11.21) MUTATION ANALYSIS
D47V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 23(10P11.21) MUTATED    9  4
  DEL PEAK 23(10P11.21) WILD-TYPE 31  9
  DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE 
                             13                              40 
  DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE 
                              4                               9 
$`DEL PEAK 23(10P11.21) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A4P3 TCGA-IG-A50L TCGA-IG-A5B8 TCGA-L5-A43J TCGA-L5-A4OE 
        0.85         0.03         0.53         0.79         4.31         3.52 
TCGA-L5-A4OG TCGA-L5-A4OT TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A4A9 
        3.35         4.90         0.33         0.13         0.10         0.07 
TCGA-LN-A4MR 
        0.07 

$`DEL PEAK 23(10P11.21) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QS TCGA-IG-A4QT 
       20.09        20.78         2.63        20.12         0.26         0.99 
TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON 
        0.36         0.13         1.12         3.68         4.08        18.35 
TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OU 
        3.32         7.17         1.38         3.16        30.74        29.00 
TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R 
        7.13         7.43         8.75         0.16         0.07         0.10 
TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 
        0.07         0.07         0.10         0.07         0.13         0.07 
TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-Q9-A6FU 
        0.10         0.10         0.10         0.07         0.10         5.16 
TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        3.78         7.59         8.78        14.01 

  DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE 
                           0.03                            0.07 
  DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE 
                           4.90                           30.74 
  DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE 
                          0.530                           2.005 
[1] "0.0 - 4.9 (0.5)"  "0.1 - 30.7 (2.0)"
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 23(10P11.21) MUTATED"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "DEL PEAK 23(10P11.21) MUTATED" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
  "DEL PEAK 23(10P11.21) MUTATED" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "DEL PEAK 23(10P11.21) MUTATED" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 23(10P11.21) MUTATED"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "DEL PEAK 23(10P11.21) MUTATED" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
  "DEL PEAK 23(10P11.21) MUTATED" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "DEL PEAK 23(10P11.21) MUTATED" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 23(10P11.21) MUTATED"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "DEL PEAK 23(10P11.21) MUTATED" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
  "DEL PEAK 23(10P11.21) MUTATED" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "DEL PEAK 23(10P11.21) MUTATED" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"DEL PEAK 23(10P11.21) WILD-TYPE"   "DEL PEAK 23(10P11.21) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"DEL PEAK 23(10P11.21) WILD-TYPE" "DEL PEAK 23(10P11.21) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 23(10P11.21) WILD-TYPE" 
[1] "hr=" "5.4"
D47V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 23(10P11.21) MUTATED         1        0        1        0         6
  DEL PEAK 23(10P11.21) WILD-TYPE       0        3        1        1        10
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 23(10P11.21) MUTATED           2         0          2          1
  DEL PEAK 23(10P11.21) WILD-TYPE         9         5          6          4
                                 vv
clus                              STAGE IIIC STAGE IV
  DEL PEAK 23(10P11.21) MUTATED            0        1
  DEL PEAK 23(10P11.21) WILD-TYPE          2        0
D47V3, multiclass
                                 vv
clus                              T1 T2 T3+T4
  DEL PEAK 23(10P11.21) MUTATED    1  3    10
  DEL PEAK 23(10P11.21) WILD-TYPE  5 12    24
D47V4, multiclass
       clus
vv      DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE
  T1                                1                               5
  T2                                3                              12
  T3+T4                            10                              24
                                 vv
clus                              N0 N1 N2+N3
  DEL PEAK 23(10P11.21) MUTATED   10  3     1
  DEL PEAK 23(10P11.21) WILD-TYPE 17 16     7
D47V5, multiclass
       clus
vv      DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE
  N0                               10                              17
  N1                                3                              16
  N2+N3                             1                               7
                                 vv
clus                              M0 M1A MX
  DEL PEAK 23(10P11.21) MUTATED   11   1  1
  DEL PEAK 23(10P11.21) WILD-TYPE 31   0  7
D47V6, multiclass
     clus
vv    DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE
  M0                             11                              31
  M1A                             1                               0
  MX                              1                               7
D47V7, binary
                                 cls
clus                               0  1
  DEL PEAK 23(10P11.21) MUTATED    1 13
  DEL PEAK 23(10P11.21) WILD-TYPE  7 35
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 23(10P11.21) MUTATED      1   13
  DEL PEAK 23(10P11.21) WILD-TYPE    7   35
        clus
vv       DEL PEAK 23(10P11.21) MUTATED DEL PEAK 23(10P11.21) WILD-TYPE
  FEMALE                             1                               7
  MALE                              13                              35
D47V8, continuous

Clustering(48) Variable = DEL PEAK 24(10Q22.3) MUTATION ANALYSIS
D48V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 24(10Q22.3) MUTATED   13  6
  DEL PEAK 24(10Q22.3) WILD-TYPE 27  7
  DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE 
                            19                             34 
  DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE 
                             6                              7 
$`DEL PEAK 24(10Q22.3) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A50L TCGA-L5-A43J TCGA-L5-A4OE 
       20.09         0.85         2.63         0.53         4.31         3.52 
TCGA-L5-A4OG TCGA-L5-A4OQ TCGA-L5-A4OT TCGA-L5-A4OW TCGA-LN-A49M TCGA-LN-A49R 
        3.35         1.38         4.90         7.13         0.16         0.10 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4MQ TCGA-LN-A4MR 
        0.07         0.13         0.10         0.10         0.10         0.07 
TCGA-Q9-A6FU 
        5.16 

$`DEL PEAK 24(10Q22.3) WILD-TYPE`
TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A5B8 
       20.78        20.12         0.03         0.26         0.99         0.79 
TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON 
        0.36         0.13         1.12         3.68         4.08        18.35 
TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OU TCGA-L5-A4OX 
        3.32         7.17         3.16        30.74        29.00         7.43 
TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V 
        8.75         0.07         0.33         0.13         0.07         0.10 
TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A8 TCGA-LN-A4A9 
        0.07         0.10         0.07         0.10         0.07         0.07 
TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        3.78         7.59         8.78        14.01 

  DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE 
                         20.09                          30.74 
  DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE 
                         0.850                          1.055 
[1] "0.1 - 20.1 (0.8)" "0.0 - 30.7 (1.1)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 24(10Q22.3) WILD-TYPE"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 24(10Q22.3) MUTATED"   "DEL PEAK 24(10Q22.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 24(10Q22.3) MUTATED" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 24(10Q22.3) WILD-TYPE" "DEL PEAK 24(10Q22.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 24(10Q22.3) WILD-TYPE" 
[1] "hr=" "2.6"
D48V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 24(10Q22.3) MUTATED         1        0        0        1         6
  DEL PEAK 24(10Q22.3) WILD-TYPE       0        3        2        0        10
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 24(10Q22.3) MUTATED           3         2          4          2
  DEL PEAK 24(10Q22.3) WILD-TYPE         8         3          4          3
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 24(10Q22.3) MUTATED            0        1
  DEL PEAK 24(10Q22.3) WILD-TYPE          2        0
D48V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 24(10Q22.3) MUTATED    1  6    13
  DEL PEAK 24(10Q22.3) WILD-TYPE  5  9    21
D48V4, multiclass
       clus
vv      DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE
  T1                               1                              5
  T2                               6                              9
  T3+T4                           13                             21
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 24(10Q22.3) MUTATED   11  6     3
  DEL PEAK 24(10Q22.3) WILD-TYPE 16 13     5
D48V5, multiclass
       clus
vv      DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE
  N0                              11                             16
  N1                               6                             13
  N2+N3                            3                              5
                                vv
clus                             M0 M1A MX
  DEL PEAK 24(10Q22.3) MUTATED   16   1  2
  DEL PEAK 24(10Q22.3) WILD-TYPE 26   0  6
D48V6, multiclass
     clus
vv    DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE
  M0                            16                             26
  M1A                            1                              0
  MX                             2                              6
D48V7, binary
                                cls
clus                              0  1
  DEL PEAK 24(10Q22.3) MUTATED    3 17
  DEL PEAK 24(10Q22.3) WILD-TYPE  5 31
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(10Q22.3) MUTATED      3   17
  DEL PEAK 24(10Q22.3) WILD-TYPE    5   31
        clus
vv       DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE
  FEMALE                            3                              5
  MALE                             17                             31
D48V8, continuous

Clustering(49) Variable = DEL PEAK 25(10Q23.31) MUTATION ANALYSIS
D49V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 25(10Q23.31) MUTATED   15  7
  DEL PEAK 25(10Q23.31) WILD-TYPE 25  6
  DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE 
                             22                              31 
  DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE 
                              7                               6 
$`DEL PEAK 25(10Q23.31) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A50L TCGA-L5-A43J TCGA-L5-A4OE 
       20.09         0.85         2.63         0.53         4.31         3.52 
TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW 
        3.35         3.32         3.16        30.74         4.90         7.13 
TCGA-LN-A49M TCGA-LN-A49R TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A5 TCGA-LN-A4A6 
        0.16         0.10         0.07         0.13         0.10         0.10 
TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-R6-A6DQ 
        0.10         0.07         5.16         7.59 

$`DEL PEAK 25(10Q23.31) WILD-TYPE`
TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A5B8 
       20.78        20.12         0.03         0.26         0.99         0.79 
TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON 
        0.36         0.13         1.12         3.68         4.08        18.35 
TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OU TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49N 
        7.17         1.38        29.00         7.43         8.75         0.07 
TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X 
        0.33         0.13         0.07         0.10         0.07         0.10 
TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-Q9-A6FW TCGA-S8-A6BV 
        0.07         0.10         0.07         0.07         3.78         8.78 
TCGA-S8-A6BW 
       14.01 

  DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE 
                           0.07                            0.03 
  DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE 
                          30.74                           29.00 
  DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE 
                          2.895                           0.790 
[1] "0.1 - 30.7 (2.9)" "0.0 - 29.0 (0.8)"
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
"DEL PEAK 25(10Q23.31) WILD-TYPE"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 25(10Q23.31) WILD-TYPE" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
  "DEL PEAK 25(10Q23.31) MUTATED"   "DEL PEAK 25(10Q23.31) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
  "DEL PEAK 25(10Q23.31) MUTATED" "DEL PEAK 25(10Q23.31) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 25(10Q23.31) WILD-TYPE" 
[1] "hr=" "1.8"
D49V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 25(10Q23.31) MUTATED         1        1        0        1         6
  DEL PEAK 25(10Q23.31) WILD-TYPE       0        2        2        0        10
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 25(10Q23.31) MUTATED           4         2          3          2
  DEL PEAK 25(10Q23.31) WILD-TYPE         7         3          5          3
                                 vv
clus                              STAGE IIIC STAGE IV
  DEL PEAK 25(10Q23.31) MUTATED            1        1
  DEL PEAK 25(10Q23.31) WILD-TYPE          1        0
D49V3, multiclass
                                 vv
clus                              T1 T2 T3+T4
  DEL PEAK 25(10Q23.31) MUTATED    2  6    14
  DEL PEAK 25(10Q23.31) WILD-TYPE  4  9    20
D49V4, multiclass
       clus
vv      DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE
  T1                                2                               4
  T2                                6                               9
  T3+T4                            14                              20
                                 vv
clus                              N0 N1 N2+N3
  DEL PEAK 25(10Q23.31) MUTATED   12  7     3
  DEL PEAK 25(10Q23.31) WILD-TYPE 15 12     5
D49V5, multiclass
       clus
vv      DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE
  N0                               12                              15
  N1                                7                              12
  N2+N3                             3                               5
                                 vv
clus                              M0 M1A MX
  DEL PEAK 25(10Q23.31) MUTATED   18   1  2
  DEL PEAK 25(10Q23.31) WILD-TYPE 24   0  6
D49V6, multiclass
     clus
vv    DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE
  M0                             18                              24
  M1A                             1                               0
  MX                              2                               6
D49V7, binary
                                 cls
clus                               0  1
  DEL PEAK 25(10Q23.31) MUTATED    5 18
  DEL PEAK 25(10Q23.31) WILD-TYPE  3 30
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 25(10Q23.31) MUTATED      5   18
  DEL PEAK 25(10Q23.31) WILD-TYPE    3   30
        clus
vv       DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE
  FEMALE                             5                               3
  MALE                              18                              30
D49V8, continuous

Clustering(50) Variable = DEL PEAK 26(11P15.4) MUTATION ANALYSIS
D50V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 26(11P15.4) MUTATED   18  2
  DEL PEAK 26(11P15.4) WILD-TYPE 22 11
  DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE 
                            20                             33 
  DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE 
                             2                             11 
$`DEL PEAK 26(11P15.4) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A50L TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OP 
        0.85         2.63         0.53         3.35         3.32         7.17 
TCGA-L5-A4OR TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R 
        3.16         8.75         0.16         0.07         0.33         0.10 
TCGA-LN-A49U TCGA-LN-A49X TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A6 TCGA-LN-A4MQ 
        0.07         0.10         0.13         0.07         0.10         0.10 
TCGA-LN-A4MR TCGA-S8-A6BV 
        0.07         8.78 

$`DEL PEAK 26(11P15.4) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A4QT 
       20.09        20.78        20.12         0.03         0.26         0.99 
TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE 
        0.79         0.36         0.13         1.12         4.31         3.52 
TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT 
        3.68         4.08        18.35         1.38        30.74         4.90 
TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A49W 
       29.00         7.13         7.43         0.13         0.10         0.07 
TCGA-LN-A49Y TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-Q9-A6FU 
        0.07         0.10         0.10         0.07         0.07         5.16 
TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BW 
        3.78         7.59        14.01 

  DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE 
                          8.78                          30.74 
  DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE 
                         0.245                          3.520 
[1] "0.1 - 8.8 (0.2)"  "0.0 - 30.7 (3.5)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 26(11P15.4) MUTATED"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 26(11P15.4) MUTATED"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 26(11P15.4) MUTATED"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 26(11P15.4) MUTATED"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 26(11P15.4) MUTATED"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 26(11P15.4) MUTATED"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 26(11P15.4) MUTATED"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 26(11P15.4) MUTATED"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 26(11P15.4) MUTATED" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 26(11P15.4) MUTATED"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 26(11P15.4) WILD-TYPE" "DEL PEAK 26(11P15.4) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 26(11P15.4) WILD-TYPE"   "DEL PEAK 26(11P15.4) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 26(11P15.4) WILD-TYPE" 
[1] "hr=" "1.6"
D50V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 26(11P15.4) MUTATED         1        2        0        1         8
  DEL PEAK 26(11P15.4) WILD-TYPE       0        1        2        0         8
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 26(11P15.4) MUTATED           1         3          4          0
  DEL PEAK 26(11P15.4) WILD-TYPE        10         2          4          5
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 26(11P15.4) MUTATED            2        0
  DEL PEAK 26(11P15.4) WILD-TYPE          0        1
D50V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 26(11P15.4) MUTATED    3  4    15
  DEL PEAK 26(11P15.4) WILD-TYPE  3 11    19
D50V4, multiclass
       clus
vv      DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE
  T1                               3                              3
  T2                               4                             11
  T3+T4                           15                             19
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 26(11P15.4) MUTATED   13  7     2
  DEL PEAK 26(11P15.4) WILD-TYPE 14 12     6
D50V5, multiclass
       clus
vv      DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE
  N0                              13                             14
  N1                               7                             12
  N2+N3                            2                              6
                                vv
clus                             M0 M1A MX
  DEL PEAK 26(11P15.4) MUTATED   18   0  4
  DEL PEAK 26(11P15.4) WILD-TYPE 24   1  4
D50V6, multiclass
     clus
vv    DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE
  M0                            18                             24
  M1A                            0                              1
  MX                             4                              4
D50V7, binary
                                cls
clus                              0  1
  DEL PEAK 26(11P15.4) MUTATED    2 20
  DEL PEAK 26(11P15.4) WILD-TYPE  6 28
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(11P15.4) MUTATED      2   20
  DEL PEAK 26(11P15.4) WILD-TYPE    6   28
        clus
vv       DEL PEAK 26(11P15.4) MUTATED DEL PEAK 26(11P15.4) WILD-TYPE
  FEMALE                            2                              6
  MALE                             20                             28
D50V8, continuous

Clustering(51) Variable = DEL PEAK 27(11Q24.3) MUTATION ANALYSIS
D51V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 27(11Q24.3) MUTATED   23  3
  DEL PEAK 27(11Q24.3) WILD-TYPE 17 10
  DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE 
                            26                             27 
  DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE 
                             3                             10 
$`DEL PEAK 27(11Q24.3) MUTATED`
TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A6QS TCGA-L5-A4OF TCGA-L5-A4OM 
       20.12         0.03         0.26         0.13         3.68         4.08 
TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OR TCGA-L5-A4OU TCGA-L7-A6VZ TCGA-LN-A49M 
        3.32         7.17         3.16        29.00         8.75         0.16 
TCGA-LN-A49N TCGA-LN-A49R TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A4A2 TCGA-LN-A4A3 
        0.07         0.10         0.10         0.07         0.13         0.07 
TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU 
        0.10         0.10         0.07         0.10         0.07         5.16 
TCGA-Q9-A6FW TCGA-S8-A6BV 
        3.78         8.78 

$`DEL PEAK 27(11Q24.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4QT TCGA-IG-A50L 
       20.09         0.85        20.78         2.63         0.99         0.53 
TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OG 
        0.79         0.36         1.12         4.31         3.52         3.35 
TCGA-L5-A4ON TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX 
       18.35         1.38        30.74         4.90         7.13         7.43 
TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A4 
        0.33         0.13         0.07         0.10         0.07         0.10 
TCGA-LN-A4A9 TCGA-R6-A6DQ TCGA-S8-A6BW 
        0.07         7.59        14.01 

  DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE 
                          0.03                           0.07 
  DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE 
                         29.00                          30.74 
  DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE 
                         0.145                          1.380 
[1] "0.0 - 29.0 (0.1)" "0.1 - 30.7 (1.4)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 27(11Q24.3) WILD-TYPE" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "DEL PEAK 27(11Q24.3) MUTATED" "DEL PEAK 27(11Q24.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 27(11Q24.3) MUTATED"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 27(11Q24.3) WILD-TYPE"   "DEL PEAK 27(11Q24.3) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 27(11Q24.3) WILD-TYPE" 
[1] "hr=" "2.2"
D51V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 27(11Q24.3) MUTATED         0        3        0        1         8
  DEL PEAK 27(11Q24.3) WILD-TYPE       1        0        2        0         8
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 27(11Q24.3) MUTATED           5         4          2          3
  DEL PEAK 27(11Q24.3) WILD-TYPE         6         1          6          2
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 27(11Q24.3) MUTATED            2        0
  DEL PEAK 27(11Q24.3) WILD-TYPE          0        1
D51V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 27(11Q24.3) MUTATED    4  9    15
  DEL PEAK 27(11Q24.3) WILD-TYPE  2  6    19
D51V4, multiclass
       clus
vv      DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE
  T1                               4                              2
  T2                               9                              6
  T3+T4                           15                             19
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 27(11Q24.3) MUTATED   12 11     5
  DEL PEAK 27(11Q24.3) WILD-TYPE 15  8     3
D51V5, multiclass
       clus
vv      DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE
  N0                              12                             15
  N1                              11                              8
  N2+N3                            5                              3
                                vv
clus                             M0 M1A MX
  DEL PEAK 27(11Q24.3) MUTATED   22   0  4
  DEL PEAK 27(11Q24.3) WILD-TYPE 20   1  4
D51V6, multiclass
     clus
vv    DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE
  M0                            22                             20
  M1A                            0                              1
  MX                             4                              4
D51V7, binary
                                cls
clus                              0  1
  DEL PEAK 27(11Q24.3) MUTATED    3 25
  DEL PEAK 27(11Q24.3) WILD-TYPE  5 23
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(11Q24.3) MUTATED      3   25
  DEL PEAK 27(11Q24.3) WILD-TYPE    5   23
        clus
vv       DEL PEAK 27(11Q24.3) MUTATED DEL PEAK 27(11Q24.3) WILD-TYPE
  FEMALE                            3                              5
  MALE                             25                             23
D51V8, continuous

Clustering(52) Variable = DEL PEAK 28(12Q23.1) MUTATION ANALYSIS
D52V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 28(12Q23.1) MUTATED   10  2
  DEL PEAK 28(12Q23.1) WILD-TYPE 30 11
  DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE 
                            12                             41 
  DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE 
                             2                             11 
$`DEL PEAK 28(12Q23.1) MUTATED`
TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A5B8 TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OS 
        2.63         0.03         0.79         3.32         7.17        30.74 
TCGA-L5-A4OW TCGA-LN-A49M TCGA-LN-A49O TCGA-Q9-A6FW TCGA-S8-A6BV TCGA-S8-A6BW 
        7.13         0.16         0.33         3.78         8.78        14.01 

$`DEL PEAK 28(12Q23.1) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4QS TCGA-IG-A4QT 
       20.09         0.85        20.78        20.12         0.26         0.99 
TCGA-IG-A50L TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE 
        0.53         0.36         0.13         1.12         4.31         3.52 
TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OQ TCGA-L5-A4OR 
        3.68         3.35         4.08        18.35         1.38         3.16 
TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49R 
        4.90        29.00         7.43         8.75         0.07         0.10 
TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y 
        0.13         0.07         0.10         0.07         0.10         0.07 
TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 
        0.13         0.07         0.10         0.10         0.10         0.07 
TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-R6-A6DQ 
        0.07         0.10         0.07         5.16         7.59 

  DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE 
                          0.03                           0.07 
  DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE 
                         30.74                          29.00 
  DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE 
                          3.55                           0.53 
[1] "0.0 - 30.7 (3.5)" "0.1 - 29.0 (0.5)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 28(12Q23.1) MUTATED" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 28(12Q23.1) MUTATED" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-S8-A6BW 
  "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 28(12Q23.1) MUTATED" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 28(12Q23.1) MUTATED" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-S8-A6BW 
  "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 28(12Q23.1) MUTATED" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 28(12Q23.1) MUTATED" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 28(12Q23.1) WILD-TYPE" "DEL PEAK 28(12Q23.1) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 28(12Q23.1) WILD-TYPE"   "DEL PEAK 28(12Q23.1) MUTATED" 
                    TCGA-S8-A6BW 
  "DEL PEAK 28(12Q23.1) MUTATED" 
[1] "hr=" "2.4"
D52V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 28(12Q23.1) MUTATED         0        1        2        0         3
  DEL PEAK 28(12Q23.1) WILD-TYPE       1        2        0        1        13
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 28(12Q23.1) MUTATED           3         0          2          1
  DEL PEAK 28(12Q23.1) WILD-TYPE         8         5          6          4
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 28(12Q23.1) MUTATED            1        0
  DEL PEAK 28(12Q23.1) WILD-TYPE          1        1
D52V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 28(12Q23.1) MUTATED    1  5     7
  DEL PEAK 28(12Q23.1) WILD-TYPE  5 10    27
D52V4, multiclass
       clus
vv      DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE
  T1                               1                              5
  T2                               5                             10
  T3+T4                            7                             27
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 28(12Q23.1) MUTATED    6  5     2
  DEL PEAK 28(12Q23.1) WILD-TYPE 21 14     6
D52V5, multiclass
       clus
vv      DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE
  N0                               6                             21
  N1                               5                             14
  N2+N3                            2                              6
                                vv
clus                             M0 M1A MX
  DEL PEAK 28(12Q23.1) MUTATED   10   0  3
  DEL PEAK 28(12Q23.1) WILD-TYPE 32   1  5
D52V6, multiclass
     clus
vv    DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE
  M0                            10                             32
  M1A                            0                              1
  MX                             3                              5
D52V7, binary
                                cls
clus                              0  1
  DEL PEAK 28(12Q23.1) MUTATED    3 10
  DEL PEAK 28(12Q23.1) WILD-TYPE  5 38
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 28(12Q23.1) MUTATED      3   10
  DEL PEAK 28(12Q23.1) WILD-TYPE    5   38
        clus
vv       DEL PEAK 28(12Q23.1) MUTATED DEL PEAK 28(12Q23.1) WILD-TYPE
  FEMALE                            3                              5
  MALE                             10                             38
D52V8, continuous

Clustering(53) Variable = DEL PEAK 29(13Q14.2) MUTATION ANALYSIS
D53V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 29(13Q14.2) MUTATED   25  3
  DEL PEAK 29(13Q14.2) WILD-TYPE 15 10
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                            28                             25 
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                             3                             10 
$`DEL PEAK 29(13Q14.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4QS TCGA-IG-A50L 
       20.09         0.85        20.78         2.63         0.26         0.53 
TCGA-IG-A6QS TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4OR TCGA-L5-A4OU 
        0.13         3.52         3.68         4.08         3.16        29.00 
TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S 
        8.75         0.16         0.07         0.33         0.10         0.13 
TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 
        0.07         0.10         0.07         0.13         0.07         0.10 
TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A9 TCGA-LN-A4MR 
        0.10         0.10         0.07         0.07 

$`DEL PEAK 29(13Q14.2) WILD-TYPE`
TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A7DP 
       20.12         0.03         0.99         0.79         0.36         1.12 
TCGA-L5-A43J TCGA-L5-A4OG TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ 
        4.31         3.35        18.35         3.32         7.17         1.38 
TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49X TCGA-LN-A49Y 
       30.74         4.90         7.13         7.43         0.10         0.07 
TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV 
        0.07         0.10         5.16         3.78         7.59         8.78 
TCGA-S8-A6BW 
       14.01 

  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                         29.00                          30.74 
  DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE 
                         0.145                          3.780 
[1] "0.1 - 29.0 (0.1)" "0.0 - 30.7 (3.8)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 29(13Q14.2) MUTATED" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 29(13Q14.2) MUTATED"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 29(13Q14.2) WILD-TYPE"   "DEL PEAK 29(13Q14.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 29(13Q14.2) WILD-TYPE" "DEL PEAK 29(13Q14.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 29(13Q14.2) WILD-TYPE" 
[1] "hr=" "1.8"
D53V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 29(13Q14.2) MUTATED         0        2        0        1        10
  DEL PEAK 29(13Q14.2) WILD-TYPE       1        1        2        0         6
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 29(13Q14.2) MUTATED           5         4          4          2
  DEL PEAK 29(13Q14.2) WILD-TYPE         6         1          4          3
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 29(13Q14.2) MUTATED            1        0
  DEL PEAK 29(13Q14.2) WILD-TYPE          1        1
D53V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 29(13Q14.2) MUTATED    3  8    18
  DEL PEAK 29(13Q14.2) WILD-TYPE  3  7    16
D53V4, multiclass
       clus
vv      DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE
  T1                               3                              3
  T2                               8                              7
  T3+T4                           18                             16
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 29(13Q14.2) MUTATED   16 10     3
  DEL PEAK 29(13Q14.2) WILD-TYPE 11  9     5
D53V5, multiclass
       clus
vv      DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE
  N0                              16                             11
  N1                              10                              9
  N2+N3                            3                              5
                                vv
clus                             M0 M1A MX
  DEL PEAK 29(13Q14.2) MUTATED   24   0  2
  DEL PEAK 29(13Q14.2) WILD-TYPE 18   1  6
D53V6, multiclass
     clus
vv    DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE
  M0                            24                             18
  M1A                            0                              1
  MX                             2                              6
D53V7, binary
                                cls
clus                              0  1
  DEL PEAK 29(13Q14.2) MUTATED    1 28
  DEL PEAK 29(13Q14.2) WILD-TYPE  7 20
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(13Q14.2) MUTATED      1   28
  DEL PEAK 29(13Q14.2) WILD-TYPE    7   20
        clus
vv       DEL PEAK 29(13Q14.2) MUTATED DEL PEAK 29(13Q14.2) WILD-TYPE
  FEMALE                            1                              7
  MALE                             28                             20
D53V8, continuous

Clustering(54) Variable = DEL PEAK 30(13Q21.2) MUTATION ANALYSIS
D54V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 30(13Q21.2) MUTATED   21  4
  DEL PEAK 30(13Q21.2) WILD-TYPE 19  9
  DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE 
                            25                             28 
  DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE 
                             4                              9 
$`DEL PEAK 30(13Q21.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4QS TCGA-IG-A50L 
       20.09         0.85        20.78         2.63         0.26         0.53 
TCGA-IG-A6QS TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4OR TCGA-L5-A4OU 
        0.13         3.52         3.68         4.08         3.16        29.00 
TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U 
        8.75         0.07         0.33         0.10         0.13         0.07 
TCGA-LN-A49W TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4MR 
        0.07         0.13         0.07         0.10         0.10         0.07 
TCGA-R6-A6DQ 
        7.59 

$`DEL PEAK 30(13Q21.2) WILD-TYPE`
TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A7DP 
       20.12         0.03         0.99         0.79         0.36         1.12 
TCGA-L5-A43J TCGA-L5-A4OG TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ 
        4.31         3.35        18.35         3.32         7.17         1.38 
TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49V 
       30.74         4.90         7.13         7.43         0.16         0.10 
TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A4 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MQ 
        0.10         0.07         0.10         0.07         0.07         0.10 
TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-S8-A6BV TCGA-S8-A6BW 
        5.16         3.78         8.78        14.01 

  DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE 
                         29.00                          30.74 
  DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE 
                          0.33                           2.35 
[1] "0.1 - 29.0 (0.3)" "0.0 - 30.7 (2.3)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 30(13Q21.2) MUTATED"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 30(13Q21.2) WILD-TYPE"   "DEL PEAK 30(13Q21.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 30(13Q21.2) WILD-TYPE" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 30(13Q21.2) MUTATED" "DEL PEAK 30(13Q21.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 30(13Q21.2) WILD-TYPE" 
[1] "hr=" "1.5"
D54V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 30(13Q21.2) MUTATED         0        2        0        1         7
  DEL PEAK 30(13Q21.2) WILD-TYPE       1        1        2        0         9
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 30(13Q21.2) MUTATED           5         3          4          2
  DEL PEAK 30(13Q21.2) WILD-TYPE         6         2          4          3
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 30(13Q21.2) MUTATED            1        0
  DEL PEAK 30(13Q21.2) WILD-TYPE          1        1
D54V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 30(13Q21.2) MUTATED    3  6    16
  DEL PEAK 30(13Q21.2) WILD-TYPE  3  9    18
D54V4, multiclass
       clus
vv      DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE
  T1                               3                              3
  T2                               6                              9
  T3+T4                           16                             18
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 30(13Q21.2) MUTATED   13  9     3
  DEL PEAK 30(13Q21.2) WILD-TYPE 14 10     5
D54V5, multiclass
       clus
vv      DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE
  N0                              13                             14
  N1                               9                             10
  N2+N3                            3                              5
                                vv
clus                             M0 M1A MX
  DEL PEAK 30(13Q21.2) MUTATED   20   0  2
  DEL PEAK 30(13Q21.2) WILD-TYPE 22   1  6
D54V6, multiclass
     clus
vv    DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE
  M0                            20                             22
  M1A                            0                              1
  MX                             2                              6
D54V7, binary
                                cls
clus                              0  1
  DEL PEAK 30(13Q21.2) MUTATED    2 24
  DEL PEAK 30(13Q21.2) WILD-TYPE  6 24
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 30(13Q21.2) MUTATED      2   24
  DEL PEAK 30(13Q21.2) WILD-TYPE    6   24
        clus
vv       DEL PEAK 30(13Q21.2) MUTATED DEL PEAK 30(13Q21.2) WILD-TYPE
  FEMALE                            2                              6
  MALE                             24                             24
D54V8, continuous

Clustering(55) Variable = DEL PEAK 31(15Q11.2) MUTATION ANALYSIS
D55V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 31(15Q11.2) MUTATED   13  4
  DEL PEAK 31(15Q11.2) WILD-TYPE 27  9
  DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE 
                            17                             36 
  DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE 
                             4                              9 
$`DEL PEAK 31(15Q11.2) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3YC TCGA-IG-A4QS TCGA-IG-A625 TCGA-L5-A4OE TCGA-L5-A4OG 
       20.09        20.12         0.26         0.36         3.52         3.35 
TCGA-L5-A4OM TCGA-L5-A4OT TCGA-L5-A4OU TCGA-LN-A49R TCGA-LN-A4A5 TCGA-LN-A4A8 
        4.08         4.90        29.00         0.10         0.10         0.07 
TCGA-LN-A4MQ TCGA-Q9-A6FU TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        0.10         5.16         7.59         8.78        14.01 

$`DEL PEAK 31(15Q11.2) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A50L 
        0.85        20.78         2.63         0.03         0.99         0.53 
TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OF TCGA-L5-A4ON 
        0.79         0.13         1.12         4.31         3.68        18.35 
TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OW 
        3.32         7.17         1.38         3.16        30.74         7.13 
TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49S 
        7.43         8.75         0.16         0.07         0.33         0.13 
TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 
        0.07         0.10         0.07         0.10         0.07         0.13 
TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A6 TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-Q9-A6FW 
        0.07         0.10         0.10         0.07         0.07         3.78 

  DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE 
                         29.00                          30.74 
  DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE 
                          4.08                           0.66 
[1] "0.1 - 29.0 (4.1)" "0.0 - 30.7 (0.7)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 31(15Q11.2) MUTATED"   "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 31(15Q11.2) MUTATED"   "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 31(15Q11.2) MUTATED"   "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-S8-A6BW 
  "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 31(15Q11.2) MUTATED"   "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 31(15Q11.2) MUTATED"   "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 31(15Q11.2) MUTATED"   "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-S8-A6BW 
  "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 31(15Q11.2) MUTATED"   "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 31(15Q11.2) MUTATED"   "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 31(15Q11.2) WILD-TYPE" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 31(15Q11.2) MUTATED" "DEL PEAK 31(15Q11.2) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 31(15Q11.2) MUTATED"   "DEL PEAK 31(15Q11.2) MUTATED" 
                    TCGA-S8-A6BW 
  "DEL PEAK 31(15Q11.2) MUTATED" 
[1] "hr=" "2"  
D55V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 31(15Q11.2) MUTATED         1        1        1        0         4
  DEL PEAK 31(15Q11.2) WILD-TYPE       0        2        1        1        12
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 31(15Q11.2) MUTATED           1         2          2          4
  DEL PEAK 31(15Q11.2) WILD-TYPE        10         3          6          1
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 31(15Q11.2) MUTATED            0        1
  DEL PEAK 31(15Q11.2) WILD-TYPE          2        0
D55V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 31(15Q11.2) MUTATED    2  3    12
  DEL PEAK 31(15Q11.2) WILD-TYPE  4 12    22
D55V4, multiclass
       clus
vv      DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE
  T1                               2                              4
  T2                               3                             12
  T3+T4                           12                             22
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 31(15Q11.2) MUTATED    8  5     4
  DEL PEAK 31(15Q11.2) WILD-TYPE 19 14     4
D55V5, multiclass
       clus
vv      DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE
  N0                               8                             19
  N1                               5                             14
  N2+N3                            4                              4
                                vv
clus                             M0 M1A MX
  DEL PEAK 31(15Q11.2) MUTATED   12   1  2
  DEL PEAK 31(15Q11.2) WILD-TYPE 30   0  6
D55V6, multiclass
     clus
vv    DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE
  M0                            12                             30
  M1A                            1                              0
  MX                             2                              6
D55V7, binary
                                cls
clus                              0  1
  DEL PEAK 31(15Q11.2) MUTATED    4 14
  DEL PEAK 31(15Q11.2) WILD-TYPE  4 34
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(15Q11.2) MUTATED      4   14
  DEL PEAK 31(15Q11.2) WILD-TYPE    4   34
        clus
vv       DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE
  FEMALE                            4                              4
  MALE                             14                             34
D55V8, continuous

Clustering(56) Variable = DEL PEAK 32(16P13.3) MUTATION ANALYSIS
D56V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 32(16P13.3) MUTATED    9  3
  DEL PEAK 32(16P13.3) WILD-TYPE 31 10
  DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE 
                            12                             41 
  DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE 
                             3                             10 
$`DEL PEAK 32(16P13.3) MUTATED`
TCGA-IG-A3YC TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS 
       20.12         3.52         3.35         1.38         3.16        30.74 
TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49V TCGA-LN-A4A5 TCGA-LN-A4MQ TCGA-Q9-A6FU 
        8.75         0.07         0.10         0.10         0.10         5.16 

$`DEL PEAK 32(16P13.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QS 
       20.09         0.85        20.78         2.63         0.03         0.26 
TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP 
        0.99         0.53         0.79         0.36         0.13         1.12 
TCGA-L5-A43J TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP 
        4.31         3.68         4.08        18.35         3.32         7.17 
TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49O 
        4.90        29.00         7.13         7.43         0.16         0.33 
TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y 
        0.10         0.13         0.07         0.07         0.10         0.07 
TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 
        0.13         0.07         0.10         0.10         0.07         0.07 
TCGA-LN-A4MR TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        0.07         3.78         7.59         8.78        14.01 

  DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE 
                         30.74                          29.00 
  DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE 
                         3.255                          0.790 
[1] "0.1 - 30.7 (3.3)" "0.0 - 29.0 (0.8)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 32(16P13.3) WILD-TYPE"   "DEL PEAK 32(16P13.3) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 32(16P13.3) MUTATED"   "DEL PEAK 32(16P13.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 32(16P13.3) WILD-TYPE"   "DEL PEAK 32(16P13.3) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 32(16P13.3) WILD-TYPE"   "DEL PEAK 32(16P13.3) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 32(16P13.3) MUTATED"   "DEL PEAK 32(16P13.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 32(16P13.3) WILD-TYPE"   "DEL PEAK 32(16P13.3) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 32(16P13.3) WILD-TYPE"   "DEL PEAK 32(16P13.3) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 32(16P13.3) MUTATED"   "DEL PEAK 32(16P13.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 32(16P13.3) WILD-TYPE"   "DEL PEAK 32(16P13.3) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 32(16P13.3) MUTATED" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 32(16P13.3) WILD-TYPE" "DEL PEAK 32(16P13.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 32(16P13.3) WILD-TYPE" 
[1] "hr=" "1.3"
D56V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 32(16P13.3) MUTATED         1        1        0        0         2
  DEL PEAK 32(16P13.3) WILD-TYPE       0        2        2        1        14
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 32(16P13.3) MUTATED           2         1          2          2
  DEL PEAK 32(16P13.3) WILD-TYPE         9         4          6          3
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 32(16P13.3) MUTATED            1        0
  DEL PEAK 32(16P13.3) WILD-TYPE          1        1
D56V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 32(16P13.3) MUTATED    2  4     6
  DEL PEAK 32(16P13.3) WILD-TYPE  4 11    28
D56V4, multiclass
       clus
vv      DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE
  T1                               2                              4
  T2                               4                             11
  T3+T4                            6                             28
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 32(16P13.3) MUTATED    4  4     4
  DEL PEAK 32(16P13.3) WILD-TYPE 23 15     4
D56V5, multiclass
       clus
vv      DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE
  N0                               4                             23
  N1                               4                             15
  N2+N3                            4                              4
                                vv
clus                             M0 M1A MX
  DEL PEAK 32(16P13.3) MUTATED    8   0  3
  DEL PEAK 32(16P13.3) WILD-TYPE 34   1  5
D56V6, multiclass
     clus
vv    DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE
  M0                             8                             34
  M1A                            0                              1
  MX                             3                              5
D56V7, binary
                                cls
clus                              0  1
  DEL PEAK 32(16P13.3) MUTATED    3  9
  DEL PEAK 32(16P13.3) WILD-TYPE  5 39
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(16P13.3) MUTATED      3    9
  DEL PEAK 32(16P13.3) WILD-TYPE    5   39
        clus
vv       DEL PEAK 32(16P13.3) MUTATED DEL PEAK 32(16P13.3) WILD-TYPE
  FEMALE                            3                              5
  MALE                              9                             39
D56V8, continuous

Clustering(57) Variable = DEL PEAK 33(16Q23.1) MUTATION ANALYSIS
D57V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 33(16Q23.1) MUTATED   13  7
  DEL PEAK 33(16Q23.1) WILD-TYPE 27  6
  DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE 
                            20                             33 
  DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE 
                             7                              6 
$`DEL PEAK 33(16Q23.1) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3YC TCGA-IG-A4QS TCGA-IG-A50L TCGA-L5-A4OE TCGA-L5-A4OF 
       20.09        20.12         0.26         0.53         3.52         3.68 
TCGA-L5-A4ON TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW 
       18.35         3.16        30.74         4.90        29.00         7.13 
TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49O TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A4MQ 
        7.43         8.75         0.33         0.10         0.07         0.10 
TCGA-LN-A4MR TCGA-R6-A6DQ 
        0.07         7.59 

$`DEL PEAK 33(16Q23.1) WILD-TYPE`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A5B8 
        0.85        20.78         2.63         0.03         0.99         0.79 
TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OG TCGA-L5-A4OM 
        0.36         0.13         1.12         4.31         3.35         4.08 
TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R 
        3.32         7.17         1.38         0.16         0.07         0.10 
TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 
        0.13         0.07         0.10         0.07         0.13         0.07 
TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-Q9-A6FU 
        0.10         0.10         0.10         0.07         0.07         5.16 
TCGA-Q9-A6FW TCGA-S8-A6BV TCGA-S8-A6BW 
        3.78         8.78        14.01 

  DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE 
                         30.74                          20.78 
  DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE 
                          4.29                           0.36 
[1] "0.1 - 30.7 (4.3)" "0.0 - 20.8 (0.4)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 33(16Q23.1) WILD-TYPE"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 33(16Q23.1) WILD-TYPE"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 33(16Q23.1) WILD-TYPE"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 33(16Q23.1) WILD-TYPE"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 33(16Q23.1) WILD-TYPE"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 33(16Q23.1) WILD-TYPE"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 33(16Q23.1) MUTATED"   "DEL PEAK 33(16Q23.1) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 33(16Q23.1) WILD-TYPE" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 33(16Q23.1) MUTATED" "DEL PEAK 33(16Q23.1) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 33(16Q23.1) WILD-TYPE" 
[1] "hr=" "1.3"
D57V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 33(16Q23.1) MUTATED         0        1        0        0         5
  DEL PEAK 33(16Q23.1) WILD-TYPE       1        2        2        1        11
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 33(16Q23.1) MUTATED           6         2          2          2
  DEL PEAK 33(16Q23.1) WILD-TYPE         5         3          6          3
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 33(16Q23.1) MUTATED            1        1
  DEL PEAK 33(16Q23.1) WILD-TYPE          1        0
D57V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 33(16Q23.1) MUTATED    3  4    13
  DEL PEAK 33(16Q23.1) WILD-TYPE  3 11    21
D57V4, multiclass
       clus
vv      DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE
  T1                               3                              3
  T2                               4                             11
  T3+T4                           13                             21
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 33(16Q23.1) MUTATED    7 10     3
  DEL PEAK 33(16Q23.1) WILD-TYPE 20  9     5
D57V5, multiclass
       clus
vv      DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE
  N0                               7                             20
  N1                              10                              9
  N2+N3                            3                              5
                                vv
clus                             M0 M1A MX
  DEL PEAK 33(16Q23.1) MUTATED   14   1  2
  DEL PEAK 33(16Q23.1) WILD-TYPE 28   0  6
D57V6, multiclass
     clus
vv    DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE
  M0                            14                             28
  M1A                            1                              0
  MX                             2                              6
D57V7, binary
                                cls
clus                              0  1
  DEL PEAK 33(16Q23.1) MUTATED    3 18
  DEL PEAK 33(16Q23.1) WILD-TYPE  5 30
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 33(16Q23.1) MUTATED      3   18
  DEL PEAK 33(16Q23.1) WILD-TYPE    5   30
        clus
vv       DEL PEAK 33(16Q23.1) MUTATED DEL PEAK 33(16Q23.1) WILD-TYPE
  FEMALE                            3                              5
  MALE                             18                             30
D57V8, continuous

Clustering(58) Variable = DEL PEAK 34(17P11.2) MUTATION ANALYSIS
D58V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 34(17P11.2) MUTATED   14  7
  DEL PEAK 34(17P11.2) WILD-TYPE 26  6
  DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE 
                            21                             32 
  DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE 
                             7                              6 
$`DEL PEAK 34(17P11.2) MUTATED`
TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A5B8 TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG 
        0.03         0.26         0.79         3.52         3.68         3.35 
TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OX 
        3.32         7.17         1.38         4.90        29.00         7.43 
TCGA-LN-A49M TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A4A8 TCGA-Q9-A6FU 
        0.16         0.13         0.07         0.07         0.07         5.16 
TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV 
        3.78         7.59         8.78 

$`DEL PEAK 34(17P11.2) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QT 
       20.09         0.85        20.78         2.63        20.12         0.99 
TCGA-IG-A50L TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OM 
        0.53         0.36         0.13         1.12         4.31         4.08 
TCGA-L5-A4ON TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49N 
       18.35         3.16        30.74         7.13         8.75         0.07 
TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49V TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 
        0.33         0.10         0.10         0.10         0.07         0.13 
TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A9 TCGA-LN-A4MQ 
        0.07         0.10         0.10         0.10         0.07         0.10 
TCGA-LN-A4MR TCGA-S8-A6BW 
        0.07        14.01 

  DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE 
                          0.03                           0.07 
  DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE 
                         29.00                          30.74 
  DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE 
                         3.350                          0.445 
[1] "0.0 - 29.0 (3.4)" "0.1 - 30.7 (0.4)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 34(17P11.2) WILD-TYPE"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
  "DEL PEAK 34(17P11.2) MUTATED" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 34(17P11.2) WILD-TYPE" "DEL PEAK 34(17P11.2) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 34(17P11.2) MUTATED"   "DEL PEAK 34(17P11.2) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 34(17P11.2) WILD-TYPE" 
[1] "hr=" "1.6"
D58V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 34(17P11.2) MUTATED         1        1        1        0         6
  DEL PEAK 34(17P11.2) WILD-TYPE       0        2        1        1        10
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 34(17P11.2) MUTATED           3         1          2          4
  DEL PEAK 34(17P11.2) WILD-TYPE         8         4          6          1
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 34(17P11.2) MUTATED            1        1
  DEL PEAK 34(17P11.2) WILD-TYPE          1        0
D58V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 34(17P11.2) MUTATED    3  5    13
  DEL PEAK 34(17P11.2) WILD-TYPE  3 10    21
D58V4, multiclass
       clus
vv      DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE
  T1                               3                              3
  T2                               5                             10
  T3+T4                           13                             21
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 34(17P11.2) MUTATED    9  6     6
  DEL PEAK 34(17P11.2) WILD-TYPE 18 13     2
D58V5, multiclass
       clus
vv      DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE
  N0                               9                             18
  N1                               6                             13
  N2+N3                            6                              2
                                vv
clus                             M0 M1A MX
  DEL PEAK 34(17P11.2) MUTATED   15   1  3
  DEL PEAK 34(17P11.2) WILD-TYPE 27   0  5
D58V6, multiclass
     clus
vv    DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE
  M0                            15                             27
  M1A                            1                              0
  MX                             3                              5
D58V7, binary
                                cls
clus                              0  1
  DEL PEAK 34(17P11.2) MUTATED    4 18
  DEL PEAK 34(17P11.2) WILD-TYPE  4 30
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(17P11.2) MUTATED      4   18
  DEL PEAK 34(17P11.2) WILD-TYPE    4   30
        clus
vv       DEL PEAK 34(17P11.2) MUTATED DEL PEAK 34(17P11.2) WILD-TYPE
  FEMALE                            4                              4
  MALE                             18                             30
D58V8, continuous

Clustering(59) Variable = DEL PEAK 35(17Q24.3) MUTATION ANALYSIS
D59V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 35(17Q24.3) MUTATED    2  3
  DEL PEAK 35(17Q24.3) WILD-TYPE 38 10
  DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE 
                             5                             48 
  DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE 
                             3                             10 
$`DEL PEAK 35(17Q24.3) MUTATED`
TCGA-L5-A4OG TCGA-L5-A4OR TCGA-L5-A4OW TCGA-LN-A49O TCGA-Q9-A6FU 
        3.35         3.16         7.13         0.33         5.16 

$`DEL PEAK 35(17Q24.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS 
        0.26         0.99         0.53         0.79         0.36         0.13 
TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON 
        1.12         4.31         3.52         3.68         4.08        18.35 
TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU 
        3.32         7.17         1.38        30.74         4.90        29.00 
TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49R TCGA-LN-A49S 
        7.43         8.75         0.16         0.07         0.10         0.13 
TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 
        0.07         0.10         0.07         0.10         0.07         0.13 
TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 
        0.07         0.10         0.10         0.10         0.07         0.07 
TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        0.10         0.07         3.78         7.59         8.78        14.01 

  DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE 
                          0.33                           0.03 
  DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE 
                          7.13                          30.74 
  DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE 
                          3.35                           0.82 
[1] "0.3 - 7.1 (3.4)"  "0.0 - 30.7 (0.8)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 35(17Q24.3) WILD-TYPE"   "DEL PEAK 35(17Q24.3) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 35(17Q24.3) WILD-TYPE"   "DEL PEAK 35(17Q24.3) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 35(17Q24.3) WILD-TYPE"   "DEL PEAK 35(17Q24.3) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 35(17Q24.3) MUTATED" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 35(17Q24.3) WILD-TYPE" "DEL PEAK 35(17Q24.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 35(17Q24.3) WILD-TYPE" 
[1] "hr=" "2.7"
D59V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 35(17Q24.3) MUTATED         1        1        0        0         1
  DEL PEAK 35(17Q24.3) WILD-TYPE       0        2        2        1        15
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 35(17Q24.3) MUTATED           1         0          0          1
  DEL PEAK 35(17Q24.3) WILD-TYPE        10         5          8          4
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 35(17Q24.3) MUTATED            0        0
  DEL PEAK 35(17Q24.3) WILD-TYPE          2        1
D59V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 35(17Q24.3) MUTATED    2  1     2
  DEL PEAK 35(17Q24.3) WILD-TYPE  4 14    32
D59V4, multiclass
       clus
vv      DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE
  T1                               2                              4
  T2                               1                             14
  T3+T4                            2                             32
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 35(17Q24.3) MUTATED    3  1     1
  DEL PEAK 35(17Q24.3) WILD-TYPE 24 18     7
D59V5, multiclass
       clus
vv      DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE
  N0                               3                             24
  N1                               1                             18
  N2+N3                            1                              7
                                vv
clus                             M0 M1A MX
  DEL PEAK 35(17Q24.3) MUTATED    4   0  1
  DEL PEAK 35(17Q24.3) WILD-TYPE 38   1  7
D59V6, multiclass
     clus
vv    DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE
  M0                             4                             38
  M1A                            0                              1
  MX                             1                              7
D59V7, binary
                                cls
clus                              0  1
  DEL PEAK 35(17Q24.3) MUTATED    3  2
  DEL PEAK 35(17Q24.3) WILD-TYPE  5 46
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 35(17Q24.3) MUTATED      3    2
  DEL PEAK 35(17Q24.3) WILD-TYPE    5   46
        clus
vv       DEL PEAK 35(17Q24.3) MUTATED DEL PEAK 35(17Q24.3) WILD-TYPE
  FEMALE                            3                              5
  MALE                              2                             46
D59V8, continuous

Clustering(60) Variable = DEL PEAK 36(17Q25.3) MUTATION ANALYSIS
D60V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 36(17Q25.3) MUTATED    9  3
  DEL PEAK 36(17Q25.3) WILD-TYPE 31 10
  DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE 
                            12                             41 
  DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE 
                             3                             10 
$`DEL PEAK 36(17Q25.3) MUTATED`
TCGA-IG-A4P3 TCGA-IG-A5B8 TCGA-L5-A4OG TCGA-L5-A4OR TCGA-L5-A4OU TCGA-LN-A49M 
        0.03         0.79         3.35         3.16        29.00         0.16 
TCGA-LN-A49S TCGA-LN-A49Y TCGA-LN-A4A6 TCGA-LN-A4MQ TCGA-Q9-A6FU TCGA-Q9-A6FW 
        0.13         0.07         0.10         0.10         5.16         3.78 

$`DEL PEAK 36(17Q25.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4QS 
       20.09         0.85        20.78         2.63        20.12         0.26 
TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J 
        0.99         0.53         0.36         0.13         1.12         4.31 
TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OP 
        3.52         3.68         4.08        18.35         3.32         7.17 
TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ 
        1.38        30.74         4.90         7.13         7.43         8.75 
TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W 
        0.07         0.33         0.10         0.07         0.10         0.07 
TCGA-LN-A49X TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A8 
        0.10         0.13         0.07         0.10         0.10         0.07 
TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        0.07         0.07         7.59         8.78        14.01 

  DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE 
                          0.03                           0.07 
  DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE 
                         29.00                          30.74 
  DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE 
                         0.475                          1.120 
[1] "0.0 - 29.0 (0.5)" "0.1 - 30.7 (1.1)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 36(17Q25.3) MUTATED"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 36(17Q25.3) MUTATED"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 36(17Q25.3) WILD-TYPE"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 36(17Q25.3) MUTATED" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 36(17Q25.3) MUTATED"   "DEL PEAK 36(17Q25.3) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 36(17Q25.3) WILD-TYPE" "DEL PEAK 36(17Q25.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 36(17Q25.3) WILD-TYPE" 
[1] "hr=" "1.7"
D60V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 36(17Q25.3) MUTATED         1        1        1        1         4
  DEL PEAK 36(17Q25.3) WILD-TYPE       0        2        1        0        12
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 36(17Q25.3) MUTATED           1         1          0          2
  DEL PEAK 36(17Q25.3) WILD-TYPE        10         4          8          3
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 36(17Q25.3) MUTATED            0        0
  DEL PEAK 36(17Q25.3) WILD-TYPE          2        1
D60V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 36(17Q25.3) MUTATED    2  3     7
  DEL PEAK 36(17Q25.3) WILD-TYPE  4 12    27
D60V4, multiclass
       clus
vv      DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE
  T1                               2                              4
  T2                               3                             12
  T3+T4                            7                             27
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 36(17Q25.3) MUTATED    8  2     2
  DEL PEAK 36(17Q25.3) WILD-TYPE 19 17     6
D60V5, multiclass
       clus
vv      DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE
  N0                               8                             19
  N1                               2                             17
  N2+N3                            2                              6
                                vv
clus                             M0 M1A MX
  DEL PEAK 36(17Q25.3) MUTATED   11   0  1
  DEL PEAK 36(17Q25.3) WILD-TYPE 31   1  7
D60V6, multiclass
     clus
vv    DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE
  M0                            11                             31
  M1A                            0                              1
  MX                             1                              7
D60V7, binary
                                cls
clus                              0  1
  DEL PEAK 36(17Q25.3) MUTATED    2 10
  DEL PEAK 36(17Q25.3) WILD-TYPE  6 38
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 36(17Q25.3) MUTATED      2   10
  DEL PEAK 36(17Q25.3) WILD-TYPE    6   38
        clus
vv       DEL PEAK 36(17Q25.3) MUTATED DEL PEAK 36(17Q25.3) WILD-TYPE
  FEMALE                            2                              6
  MALE                             10                             38
D60V8, continuous

Clustering(61) Variable = DEL PEAK 37(18Q12.2) MUTATION ANALYSIS
D61V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 37(18Q12.2) MUTATED   22  9
  DEL PEAK 37(18Q12.2) WILD-TYPE 18  4
  DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE 
                            31                             22 
  DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE 
                             9                              4 
$`DEL PEAK 37(18Q12.2) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A6QS 
        0.85         2.63         0.26         0.53         0.79         0.13 
TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OR 
        3.52         3.68         3.35         3.32         7.17         3.16 
TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M 
        4.90        29.00         7.13         7.43         8.75         0.16 
TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49U TCGA-LN-A49W TCGA-LN-A4A5 
        0.07         0.33         0.10         0.07         0.07         0.10 
TCGA-LN-A4A6 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.10         0.10         0.07         5.16         3.78         7.59 
TCGA-S8-A6BV 
        8.78 

$`DEL PEAK 37(18Q12.2) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A625 
       20.09        20.78        20.12         0.03         0.99         0.36 
TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OQ TCGA-L5-A4OS 
        1.12         4.31         4.08        18.35         1.38        30.74 
TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 
        0.13         0.10         0.10         0.07         0.13         0.07 
TCGA-LN-A4A4 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-S8-A6BW 
        0.10         0.07         0.07        14.01 

  DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE 
                         29.00                          30.74 
  DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE 
                         2.630                          0.675 
[1] "0.1 - 29.0 (2.6)" "0.0 - 30.7 (0.7)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 37(18Q12.2) WILD-TYPE"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 37(18Q12.2) MUTATED" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 37(18Q12.2) WILD-TYPE" "DEL PEAK 37(18Q12.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 37(18Q12.2) MUTATED"   "DEL PEAK 37(18Q12.2) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 37(18Q12.2) WILD-TYPE" 
[1] "hr=" "2"  
D61V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 37(18Q12.2) MUTATED         1        2        1        1         8
  DEL PEAK 37(18Q12.2) WILD-TYPE       0        1        1        0         8
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 37(18Q12.2) MUTATED           5         3          4          4
  DEL PEAK 37(18Q12.2) WILD-TYPE         6         2          4          1
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 37(18Q12.2) MUTATED            2        1
  DEL PEAK 37(18Q12.2) WILD-TYPE          0        0
D61V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 37(18Q12.2) MUTATED    4  8    20
  DEL PEAK 37(18Q12.2) WILD-TYPE  2  7    14
D61V4, multiclass
       clus
vv      DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE
  T1                               4                              2
  T2                               8                              7
  T3+T4                           20                             14
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 37(18Q12.2) MUTATED   14 12     6
  DEL PEAK 37(18Q12.2) WILD-TYPE 13  7     2
D61V5, multiclass
       clus
vv      DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE
  N0                              14                             13
  N1                              12                              7
  N2+N3                            6                              2
                                vv
clus                             M0 M1A MX
  DEL PEAK 37(18Q12.2) MUTATED   25   1  4
  DEL PEAK 37(18Q12.2) WILD-TYPE 17   0  4
D61V6, multiclass
     clus
vv    DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE
  M0                            25                             17
  M1A                            1                              0
  MX                             4                              4
D61V7, binary
                                cls
clus                              0  1
  DEL PEAK 37(18Q12.2) MUTATED    5 28
  DEL PEAK 37(18Q12.2) WILD-TYPE  3 20
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 37(18Q12.2) MUTATED      5   28
  DEL PEAK 37(18Q12.2) WILD-TYPE    3   20
        clus
vv       DEL PEAK 37(18Q12.2) MUTATED DEL PEAK 37(18Q12.2) WILD-TYPE
  FEMALE                            5                              3
  MALE                             28                             20
D61V8, continuous

Clustering(62) Variable = DEL PEAK 38(18Q21.2) MUTATION ANALYSIS
D62V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 38(18Q21.2) MUTATED   23  8
  DEL PEAK 38(18Q21.2) WILD-TYPE 17  5
  DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE 
                            31                             22 
  DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE 
                             8                              5 
$`DEL PEAK 38(18Q21.2) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 
        0.85         2.63         0.03         0.26         0.53         0.79 
TCGA-IG-A6QS TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OP 
        0.13         3.52         3.68         3.35         3.32         7.17 
TCGA-L5-A4OR TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49M 
        3.16         4.90        29.00         7.43         8.75         0.16 
TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49W TCGA-LN-A49Y TCGA-LN-A4A5 
        0.07         0.33         0.10         0.07         0.07         0.10 
TCGA-LN-A4A6 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.10         0.10         0.07         5.16         3.78         7.59 
TCGA-S8-A6BV 
        8.78 

$`DEL PEAK 38(18Q21.2) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A7DP 
       20.09        20.78        20.12         0.99         0.36         1.12 
TCGA-L5-A43J TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OW 
        4.31         4.08        18.35         1.38        30.74         7.13 
TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49X TCGA-LN-A4A2 TCGA-LN-A4A3 
        0.13         0.07         0.10         0.10         0.13         0.07 
TCGA-LN-A4A4 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-S8-A6BW 
        0.10         0.07         0.07        14.01 

  DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE 
                          0.03                           0.07 
  DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE 
                         29.00                          30.74 
  DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE 
                         0.850                          1.055 
[1] "0.0 - 29.0 (0.8)" "0.1 - 30.7 (1.1)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 38(18Q21.2) WILD-TYPE"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 38(18Q21.2) MUTATED" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 38(18Q21.2) WILD-TYPE" "DEL PEAK 38(18Q21.2) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 38(18Q21.2) MUTATED"   "DEL PEAK 38(18Q21.2) MUTATED" 
                    TCGA-S8-A6BW 
"DEL PEAK 38(18Q21.2) WILD-TYPE" 
[1] "hr=" "1.6"
D62V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 38(18Q21.2) MUTATED         1        2        1        1         8
  DEL PEAK 38(18Q21.2) WILD-TYPE       0        1        1        0         8
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 38(18Q21.2) MUTATED           5         3          4          4
  DEL PEAK 38(18Q21.2) WILD-TYPE         6         2          4          1
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 38(18Q21.2) MUTATED            2        1
  DEL PEAK 38(18Q21.2) WILD-TYPE          0        0
D62V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 38(18Q21.2) MUTATED    4  8    20
  DEL PEAK 38(18Q21.2) WILD-TYPE  2  7    14
D62V4, multiclass
       clus
vv      DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE
  T1                               4                              2
  T2                               8                              7
  T3+T4                           20                             14
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 38(18Q21.2) MUTATED   14 12     6
  DEL PEAK 38(18Q21.2) WILD-TYPE 13  7     2
D62V5, multiclass
       clus
vv      DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE
  N0                              14                             13
  N1                              12                              7
  N2+N3                            6                              2
                                vv
clus                             M0 M1A MX
  DEL PEAK 38(18Q21.2) MUTATED   25   1  4
  DEL PEAK 38(18Q21.2) WILD-TYPE 17   0  4
D62V6, multiclass
     clus
vv    DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE
  M0                            25                             17
  M1A                            1                              0
  MX                             4                              4
D62V7, binary
                                cls
clus                              0  1
  DEL PEAK 38(18Q21.2) MUTATED    4 29
  DEL PEAK 38(18Q21.2) WILD-TYPE  4 19
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 38(18Q21.2) MUTATED      4   29
  DEL PEAK 38(18Q21.2) WILD-TYPE    4   19
        clus
vv       DEL PEAK 38(18Q21.2) MUTATED DEL PEAK 38(18Q21.2) WILD-TYPE
  FEMALE                            4                              4
  MALE                             29                             19
D62V8, continuous

Clustering(63) Variable = DEL PEAK 39(19P13.3) MUTATION ANALYSIS
D63V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 39(19P13.3) MUTATED   20  3
  DEL PEAK 39(19P13.3) WILD-TYPE 20 10
  DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE 
                            23                             30 
  DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE 
                             3                             10 
$`DEL PEAK 39(19P13.3) MUTATED`
TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 TCGA-L5-A4OE 
        2.63         0.03         0.26         0.53         0.79         3.52 
TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4OO TCGA-L5-A4OP TCGA-L5-A4OS TCGA-L5-A4OX 
        3.68         4.08         3.32         7.17        30.74         7.43 
TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49W 
        8.75         0.16         0.10         0.13         0.07         0.07 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A6 TCGA-LN-A4MQ 
        0.07         0.13         0.07         0.10         0.10 

$`DEL PEAK 39(19P13.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4QT TCGA-IG-A625 
       20.09         0.85        20.78        20.12         0.99         0.36 
TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OG TCGA-L5-A4ON TCGA-L5-A4OQ 
        0.13         1.12         4.31         3.35        18.35         1.38 
TCGA-L5-A4OR TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-LN-A49N TCGA-LN-A49O 
        3.16         4.90        29.00         7.13         0.07         0.33 
TCGA-LN-A49V TCGA-LN-A49X TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A8 TCGA-LN-A4A9 
        0.10         0.10         0.10         0.10         0.07         0.07 
TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV TCGA-S8-A6BW 
        0.07         5.16         3.78         7.59         8.78        14.01 

  DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE 
                          0.03                           0.07 
  DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE 
                         30.74                          29.00 
  DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE 
                          0.26                           2.27 
[1] "0.0 - 30.7 (0.3)" "0.1 - 29.0 (2.3)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 39(19P13.3) MUTATED"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 39(19P13.3) WILD-TYPE"   "DEL PEAK 39(19P13.3) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
  "DEL PEAK 39(19P13.3) MUTATED" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 39(19P13.3) WILD-TYPE" "DEL PEAK 39(19P13.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 39(19P13.3) WILD-TYPE" 
[1] "hr=" "1.4"
D63V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 39(19P13.3) MUTATED         0        2        1        1         5
  DEL PEAK 39(19P13.3) WILD-TYPE       1        1        1        0        11
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 39(19P13.3) MUTATED           5         4          2          2
  DEL PEAK 39(19P13.3) WILD-TYPE         6         1          6          3
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 39(19P13.3) MUTATED            2        0
  DEL PEAK 39(19P13.3) WILD-TYPE          0        1
D63V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 39(19P13.3) MUTATED    3  6    15
  DEL PEAK 39(19P13.3) WILD-TYPE  3  9    19
D63V4, multiclass
       clus
vv      DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE
  T1                               3                              3
  T2                               6                              9
  T3+T4                           15                             19
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 39(19P13.3) MUTATED    9 11     4
  DEL PEAK 39(19P13.3) WILD-TYPE 18  8     4
D63V5, multiclass
       clus
vv      DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE
  N0                               9                             18
  N1                              11                              8
  N2+N3                            4                              4
                                vv
clus                             M0 M1A MX
  DEL PEAK 39(19P13.3) MUTATED   19   0  2
  DEL PEAK 39(19P13.3) WILD-TYPE 23   1  6
D63V6, multiclass
     clus
vv    DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE
  M0                            19                             23
  M1A                            0                              1
  MX                             2                              6
D63V7, binary
                                cls
clus                              0  1
  DEL PEAK 39(19P13.3) MUTATED    3 21
  DEL PEAK 39(19P13.3) WILD-TYPE  5 27
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 39(19P13.3) MUTATED      3   21
  DEL PEAK 39(19P13.3) WILD-TYPE    5   27
        clus
vv       DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE
  FEMALE                            3                              5
  MALE                             21                             27
D63V8, continuous

Clustering(64) Variable = DEL PEAK 40(19Q13.31) MUTATION ANALYSIS
D64V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 40(19Q13.31) MUTATED   13  2
  DEL PEAK 40(19Q13.31) WILD-TYPE 27 11
  DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE 
                             15                              38 
  DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE 
                              2                              11 
$`DEL PEAK 40(19Q13.31) MUTATED`
TCGA-IG-A3YB TCGA-IG-A50L TCGA-L5-A43J TCGA-L5-A4OM TCGA-L5-A4OP TCGA-L5-A4OS 
        2.63         0.53         4.31         4.08         7.17        30.74 
TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49V TCGA-LN-A49W 
        7.43         0.16         0.10         0.13         0.10         0.07 
TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A6 
        0.07         0.13         0.10 

$`DEL PEAK 40(19Q13.31) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS 
       20.09         0.85        20.78        20.12         0.03         0.26 
TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A4OE 
        0.99         0.79         0.36         0.13         1.12         3.52 
TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OQ TCGA-L5-A4OR 
        3.68         3.35        18.35         3.32         1.38         3.16 
TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49O 
        4.90        29.00         7.13         8.75         0.07         0.33 
TCGA-LN-A49U TCGA-LN-A49X TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A8 
        0.07         0.10         0.07         0.10         0.10         0.07 
TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.07         0.10         0.07         5.16         3.78         7.59 
TCGA-S8-A6BV TCGA-S8-A6BW 
        8.78        14.01 

  DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE 
                           0.07                            0.03 
  DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE 
                          30.74                           29.00 
  DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE 
                           0.16                            1.25 
[1] "0.1 - 30.7 (0.2)" "0.0 - 29.0 (1.2)"
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 40(19Q13.31) MUTATED" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
  "DEL PEAK 40(19Q13.31) MUTATED" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "DEL PEAK 40(19Q13.31) MUTATED"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "DEL PEAK 40(19Q13.31) MUTATED" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
  "DEL PEAK 40(19Q13.31) MUTATED"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 40(19Q13.31) MUTATED" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
  "DEL PEAK 40(19Q13.31) MUTATED" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "DEL PEAK 40(19Q13.31) MUTATED"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "DEL PEAK 40(19Q13.31) MUTATED" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
  "DEL PEAK 40(19Q13.31) MUTATED"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 40(19Q13.31) MUTATED" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
  "DEL PEAK 40(19Q13.31) MUTATED" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
  "DEL PEAK 40(19Q13.31) MUTATED"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
  "DEL PEAK 40(19Q13.31) MUTATED" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
  "DEL PEAK 40(19Q13.31) MUTATED"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"DEL PEAK 40(19Q13.31) WILD-TYPE"   "DEL PEAK 40(19Q13.31) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
"DEL PEAK 40(19Q13.31) WILD-TYPE" "DEL PEAK 40(19Q13.31) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 40(19Q13.31) WILD-TYPE" 
[1] "hr=" "1.4"
D64V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 40(19Q13.31) MUTATED         0        2        0        1         7
  DEL PEAK 40(19Q13.31) WILD-TYPE       1        1        2        0         9
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 40(19Q13.31) MUTATED           3         2          2          0
  DEL PEAK 40(19Q13.31) WILD-TYPE         8         3          6          5
                                 vv
clus                              STAGE IIIC STAGE IV
  DEL PEAK 40(19Q13.31) MUTATED            0        0
  DEL PEAK 40(19Q13.31) WILD-TYPE          2        1
D64V3, multiclass
                                 vv
clus                              T1 T2 T3+T4
  DEL PEAK 40(19Q13.31) MUTATED    2  4    11
  DEL PEAK 40(19Q13.31) WILD-TYPE  4 11    23
D64V4, multiclass
       clus
vv      DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE
  T1                                2                               4
  T2                                4                              11
  T3+T4                            11                              23
                                 vv
clus                              N0 N1 N2+N3
  DEL PEAK 40(19Q13.31) MUTATED   11  6     0
  DEL PEAK 40(19Q13.31) WILD-TYPE 16 13     8
D64V5, multiclass
       clus
vv      DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE
  N0                               11                              16
  N1                                6                              13
  N2+N3                             0                               8
                                 vv
clus                              M0 M1A MX
  DEL PEAK 40(19Q13.31) MUTATED   14   0  2
  DEL PEAK 40(19Q13.31) WILD-TYPE 28   1  6
D64V6, multiclass
     clus
vv    DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE
  M0                             14                              28
  M1A                             0                               1
  MX                              2                               6
D64V7, binary
                                 cls
clus                               0  1
  DEL PEAK 40(19Q13.31) MUTATED    3 14
  DEL PEAK 40(19Q13.31) WILD-TYPE  5 34
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 40(19Q13.31) MUTATED      3   14
  DEL PEAK 40(19Q13.31) WILD-TYPE    5   34
        clus
vv       DEL PEAK 40(19Q13.31) MUTATED DEL PEAK 40(19Q13.31) WILD-TYPE
  FEMALE                             3                               5
  MALE                              14                              34
D64V8, continuous

Clustering(65) Variable = DEL PEAK 41(20P12.1) MUTATION ANALYSIS
D65V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 41(20P12.1) MUTATED    7  1
  DEL PEAK 41(20P12.1) WILD-TYPE 33 12
  DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE 
                             8                             45 
  DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE 
                             1                             12 
$`DEL PEAK 41(20P12.1) MUTATED`
TCGA-IG-A4QS TCGA-L5-A4OF TCGA-L5-A4OO TCGA-L7-A6VZ TCGA-LN-A49M TCGA-LN-A49O 
        0.26         3.68         3.32         8.75         0.16         0.33 
TCGA-LN-A49Y TCGA-S8-A6BW 
        0.07        14.01 

$`DEL PEAK 41(20P12.1) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-IG-A7DP 
        0.99         0.53         0.79         0.36         0.13         1.12 
TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP 
        4.31         3.52         3.35         4.08        18.35         7.17 
TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW 
        1.38         3.16        30.74         4.90        29.00         7.13 
TCGA-L5-A4OX TCGA-LN-A49N TCGA-LN-A49R TCGA-LN-A49S TCGA-LN-A49U TCGA-LN-A49V 
        7.43         0.07         0.10         0.13         0.07         0.10 
TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A4A2 TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A5 
        0.07         0.10         0.13         0.07         0.10         0.10 
TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU 
        0.10         0.07         0.07         0.10         0.07         5.16 
TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV 
        3.78         7.59         8.78 

  DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE 
                         14.01                          30.74 
  DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE 
                         1.825                          0.990 
[1] "0.1 - 14.0 (1.8)" "0.0 - 30.7 (1.0)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 41(20P12.1) MUTATED" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 41(20P12.1) WILD-TYPE"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 41(20P12.1) WILD-TYPE"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 41(20P12.1) MUTATED"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 41(20P12.1) WILD-TYPE"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 41(20P12.1) MUTATED" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 41(20P12.1) MUTATED" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 41(20P12.1) WILD-TYPE"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 41(20P12.1) WILD-TYPE"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 41(20P12.1) MUTATED"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 41(20P12.1) WILD-TYPE"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 41(20P12.1) MUTATED" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 41(20P12.1) MUTATED" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 41(20P12.1) WILD-TYPE"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 41(20P12.1) WILD-TYPE"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 41(20P12.1) MUTATED"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 41(20P12.1) WILD-TYPE"   "DEL PEAK 41(20P12.1) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 41(20P12.1) MUTATED" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "DEL PEAK 41(20P12.1) MUTATED" 
[1] "hr=" "2"  
D65V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 41(20P12.1) MUTATED         0        0        1        0         3
  DEL PEAK 41(20P12.1) WILD-TYPE       1        3        1        1        13
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 41(20P12.1) MUTATED           1         0          0          1
  DEL PEAK 41(20P12.1) WILD-TYPE        10         5          8          4
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 41(20P12.1) MUTATED            2        0
  DEL PEAK 41(20P12.1) WILD-TYPE          0        1
D65V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 41(20P12.1) MUTATED    1  2     5
  DEL PEAK 41(20P12.1) WILD-TYPE  5 13    29
D65V4, multiclass
       clus
vv      DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE
  T1                               1                              5
  T2                               2                             13
  T3+T4                            5                             29
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 41(20P12.1) MUTATED    4  1     3
  DEL PEAK 41(20P12.1) WILD-TYPE 23 18     5
D65V5, multiclass
       clus
vv      DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE
  N0                               4                             23
  N1                               1                             18
  N2+N3                            3                              5
                                vv
clus                             M0 M1A MX
  DEL PEAK 41(20P12.1) MUTATED    5   0  2
  DEL PEAK 41(20P12.1) WILD-TYPE 37   1  6
D65V6, multiclass
     clus
vv    DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE
  M0                             5                             37
  M1A                            0                              1
  MX                             2                              6
D65V7, binary
                                cls
clus                              0  1
  DEL PEAK 41(20P12.1) MUTATED    0  8
  DEL PEAK 41(20P12.1) WILD-TYPE  8 40
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 41(20P12.1) MUTATED      0    8
  DEL PEAK 41(20P12.1) WILD-TYPE    8   40
        clus
vv       DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE
  FEMALE                            0                              8
  MALE                              8                             40
D65V8, continuous
[1] "Remove cluster labels:"       "DEL PEAK 41(20P12.1) MUTATED"
clus
  DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE 
                             2                             31 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YC 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A4P3                     TCGA-IG-A4QT 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-IG-A6QS                     TCGA-L5-A43J 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OG 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OM                     TCGA-L5-A4ON 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49P                     TCGA-LN-A49R 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49S                     TCGA-LN-A49U 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A49V                     TCGA-LN-A49W 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A6 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-LN-A4A9                     TCGA-Q9-A6FU 
"DEL PEAK 41(20P12.1) WILD-TYPE" "DEL PEAK 41(20P12.1) WILD-TYPE" 
                    TCGA-Q9-A6FW 
"DEL PEAK 41(20P12.1) WILD-TYPE" 

Clustering(66) Variable = DEL PEAK 42(21Q11.2) MUTATION ANALYSIS
D66V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 42(21Q11.2) MUTATED   26  8
  DEL PEAK 42(21Q11.2) WILD-TYPE 14  5
  DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE 
                            34                             19 
  DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE 
                             8                              5 
$`DEL PEAK 42(21Q11.2) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L 
        0.85        20.78        20.12         0.03         0.26         0.53 
TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG 
        0.79         0.13         4.31         3.52         3.68         3.35 
TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT 
        4.08        18.35         7.17         3.16        30.74         4.90 
TCGA-L5-A4OU TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R 
       29.00         7.13         8.75         0.07         0.33         0.10 
TCGA-LN-A49S TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A4A3 TCGA-LN-A4A5 TCGA-LN-A4A6 
        0.13         0.07         0.10         0.07         0.10         0.10 
TCGA-LN-A4A9 TCGA-LN-A4MR TCGA-Q9-A6FW TCGA-S8-A6BW 
        0.07         0.07         3.78        14.01 

$`DEL PEAK 42(21Q11.2) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YB TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A7DP TCGA-L5-A4OO 
       20.09         2.63         0.99         0.36         1.12         3.32 
TCGA-L5-A4OQ TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49Y 
        1.38         7.43         0.16         0.07         0.10         0.07 
TCGA-LN-A4A2 TCGA-LN-A4A4 TCGA-LN-A4A8 TCGA-LN-A4MQ TCGA-Q9-A6FU TCGA-R6-A6DQ 
        0.13         0.10         0.07         0.10         5.16         7.59 
TCGA-S8-A6BV 
        8.78 

  DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE 
                          0.03                           0.07 
  DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE 
                         30.74                          20.09 
  DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE 
                         2.005                          0.990 
[1] "0.0 - 30.7 (2.0)" "0.1 - 20.1 (1.0)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 42(21Q11.2) WILD-TYPE" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 42(21Q11.2) WILD-TYPE" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 42(21Q11.2) WILD-TYPE" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 42(21Q11.2) WILD-TYPE" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 42(21Q11.2) WILD-TYPE" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 42(21Q11.2) WILD-TYPE" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 42(21Q11.2) WILD-TYPE" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 42(21Q11.2) WILD-TYPE" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 42(21Q11.2) MUTATED" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 42(21Q11.2) MUTATED"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 42(21Q11.2) WILD-TYPE"   "DEL PEAK 42(21Q11.2) MUTATED" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 42(21Q11.2) WILD-TYPE" "DEL PEAK 42(21Q11.2) WILD-TYPE" 
                    TCGA-S8-A6BW 
  "DEL PEAK 42(21Q11.2) MUTATED" 
[1] "hr=" "1.3"
D66V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 42(21Q11.2) MUTATED         1        3        2        1         7
  DEL PEAK 42(21Q11.2) WILD-TYPE       0        0        0        0         9
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 42(21Q11.2) MUTATED           8         3          4          3
  DEL PEAK 42(21Q11.2) WILD-TYPE         3         2          4          2
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 42(21Q11.2) MUTATED            1        1
  DEL PEAK 42(21Q11.2) WILD-TYPE          1        0
D66V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 42(21Q11.2) MUTATED    6 10    18
  DEL PEAK 42(21Q11.2) WILD-TYPE  0  5    16
D66V4, multiclass
       clus
vv      DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE
  T1                               6                              0
  T2                              10                              5
  T3+T4                           18                             16
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 42(21Q11.2) MUTATED   17 13     4
  DEL PEAK 42(21Q11.2) WILD-TYPE 10  6     4
D66V5, multiclass
       clus
vv      DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE
  N0                              17                             10
  N1                              13                              6
  N2+N3                            4                              4
                                vv
clus                             M0 M1A MX
  DEL PEAK 42(21Q11.2) MUTATED   24   1  5
  DEL PEAK 42(21Q11.2) WILD-TYPE 18   0  3
D66V6, multiclass
     clus
vv    DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE
  M0                            24                             18
  M1A                            1                              0
  MX                             5                              3
D66V7, binary
                                cls
clus                              0  1
  DEL PEAK 42(21Q11.2) MUTATED    5 29
  DEL PEAK 42(21Q11.2) WILD-TYPE  3 19
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 42(21Q11.2) MUTATED      5   29
  DEL PEAK 42(21Q11.2) WILD-TYPE    3   19
        clus
vv       DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE
  FEMALE                            5                              3
  MALE                             29                             19
D66V8, continuous

Clustering(67) Variable = DEL PEAK 43(21Q22.12) MUTATION ANALYSIS
D67V1, survival
                                 sevent
clus2                              0  1
  DEL PEAK 43(21Q22.12) MUTATED   21  9
  DEL PEAK 43(21Q22.12) WILD-TYPE 19  4
  DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE 
                             30                              23 
  DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE 
                              9                               4 
$`DEL PEAK 43(21Q22.12) MUTATED`
TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L 
        0.85        20.78        20.12         0.03         0.26         0.53 
TCGA-IG-A5B8 TCGA-IG-A6QS TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OG TCGA-L5-A4OM 
        0.79         0.13         4.31         3.52         3.35         4.08 
TCGA-L5-A4OP TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW 
        7.17         3.16        30.74         4.90        29.00         7.13 
TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49X 
        7.43         8.75         0.07         0.33         0.13         0.10 
TCGA-LN-A4A3 TCGA-LN-A4A6 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.07         0.10         0.10         0.07         3.78         7.59 

$`DEL PEAK 43(21Q22.12) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3YB TCGA-IG-A4QT TCGA-IG-A625 TCGA-IG-A7DP TCGA-L5-A4OF 
       20.09         2.63         0.99         0.36         1.12         3.68 
TCGA-L5-A4ON TCGA-L5-A4OO TCGA-L5-A4OQ TCGA-LN-A49M TCGA-LN-A49R TCGA-LN-A49U 
       18.35         3.32         1.38         0.16         0.10         0.07 
TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A4 TCGA-LN-A4A5 
        0.10         0.07         0.07         0.13         0.10         0.10 
TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-Q9-A6FU TCGA-S8-A6BV TCGA-S8-A6BW 
        0.07         0.07         5.16         8.78        14.01 

  DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE 
                           0.03                            0.07 
  DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE 
                          30.74                           20.09 
  DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE 
                          3.255                           0.360 
[1] "0.0 - 30.7 (3.3)" "0.1 - 20.1 (0.4)"
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-IG-A3QL                      TCGA-IG-A3Y9 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A3YA                      TCGA-IG-A3YB 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-IG-A3YC                      TCGA-IG-A4P3 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A4QS                      TCGA-IG-A4QT 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-IG-A50L                      TCGA-IG-A5B8 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A625                      TCGA-IG-A6QS 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-IG-A7DP                      TCGA-L5-A43J 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4OE                      TCGA-L5-A4OF 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-L5-A4OG                      TCGA-L5-A4OM 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4ON                      TCGA-L5-A4OO 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-L5-A4OP                      TCGA-L5-A4OQ 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-L5-A4OR                      TCGA-L5-A4OS 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4OT                      TCGA-L5-A4OU 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L5-A4OW                      TCGA-L5-A4OX 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-L7-A6VZ                      TCGA-LN-A49M 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A49N                      TCGA-LN-A49O 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A49R                      TCGA-LN-A49S 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A49U                      TCGA-LN-A49V 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A49W                      TCGA-LN-A49X 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A49Y                      TCGA-LN-A4A2 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A4A3                      TCGA-LN-A4A4 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A4A5                      TCGA-LN-A4A6 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-LN-A4A8                      TCGA-LN-A4A9 
"DEL PEAK 43(21Q22.12) WILD-TYPE" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-LN-A4MQ                      TCGA-LN-A4MR 
  "DEL PEAK 43(21Q22.12) MUTATED"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-Q9-A6FU                      TCGA-Q9-A6FW 
"DEL PEAK 43(21Q22.12) WILD-TYPE"   "DEL PEAK 43(21Q22.12) MUTATED" 
                     TCGA-R6-A6DQ                      TCGA-S8-A6BV 
  "DEL PEAK 43(21Q22.12) MUTATED" "DEL PEAK 43(21Q22.12) WILD-TYPE" 
                     TCGA-S8-A6BW 
"DEL PEAK 43(21Q22.12) WILD-TYPE" 
[1] "hr=" "1.2"
D67V2, continuous
                                 vv
clus                              STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 43(21Q22.12) MUTATED         1        3        1        1         5
  DEL PEAK 43(21Q22.12) WILD-TYPE       0        0        1        0        11
                                 vv
clus                              STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 43(21Q22.12) MUTATED           7         2          4          3
  DEL PEAK 43(21Q22.12) WILD-TYPE         4         3          4          2
                                 vv
clus                              STAGE IIIC STAGE IV
  DEL PEAK 43(21Q22.12) MUTATED            1        1
  DEL PEAK 43(21Q22.12) WILD-TYPE          1        0
D67V3, multiclass
                                 vv
clus                              T1 T2 T3+T4
  DEL PEAK 43(21Q22.12) MUTATED    4  8    17
  DEL PEAK 43(21Q22.12) WILD-TYPE  2  7    17
D67V4, multiclass
       clus
vv      DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE
  T1                                4                               2
  T2                                8                               7
  T3+T4                            17                              17
                                 vv
clus                              N0 N1 N2+N3
  DEL PEAK 43(21Q22.12) MUTATED   14 11     4
  DEL PEAK 43(21Q22.12) WILD-TYPE 13  8     4
D67V5, multiclass
       clus
vv      DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE
  N0                               14                              13
  N1                               11                               8
  N2+N3                             4                               4
                                 vv
clus                              M0 M1A MX
  DEL PEAK 43(21Q22.12) MUTATED   22   1  4
  DEL PEAK 43(21Q22.12) WILD-TYPE 20   0  4
D67V6, multiclass
     clus
vv    DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE
  M0                             22                              20
  M1A                             1                               0
  MX                              4                               4
D67V7, binary
                                 cls
clus                               0  1
  DEL PEAK 43(21Q22.12) MUTATED    6 24
  DEL PEAK 43(21Q22.12) WILD-TYPE  2 24
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 43(21Q22.12) MUTATED      6   24
  DEL PEAK 43(21Q22.12) WILD-TYPE    2   24
        clus
vv       DEL PEAK 43(21Q22.12) MUTATED DEL PEAK 43(21Q22.12) WILD-TYPE
  FEMALE                             6                               2
  MALE                              24                              24
D67V8, continuous

Clustering(68) Variable = DEL PEAK 44(22Q12.3) MUTATION ANALYSIS
D68V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 44(22Q12.3) MUTATED   15  6
  DEL PEAK 44(22Q12.3) WILD-TYPE 25  7
  DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE 
                            21                             32 
  DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE 
                             6                              7 
$`DEL PEAK 44(22Q12.3) MUTATED`
TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A5B8 TCGA-L5-A4OE 
        2.63         0.03         0.26         0.53         0.79         3.52 
TCGA-L5-A4OG TCGA-L5-A4ON TCGA-L5-A4OP TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU 
        3.35        18.35         7.17        30.74         4.90        29.00 
TCGA-L5-A4OW TCGA-L7-A6VZ TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49U TCGA-LN-A49W 
        7.13         8.75         0.33         0.10         0.07         0.07 
TCGA-LN-A49X TCGA-LN-A4A3 TCGA-R6-A6DQ 
        0.10         0.07         7.59 

$`DEL PEAK 44(22Q12.3) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4QT TCGA-IG-A625 
       20.09         0.85        20.78        20.12         0.99         0.36 
TCGA-IG-A6QS TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4OO 
        0.13         1.12         4.31         3.68         4.08         3.32 
TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OX TCGA-LN-A49M TCGA-LN-A49N TCGA-LN-A49S 
        1.38         3.16         7.43         0.16         0.07         0.13 
TCGA-LN-A49V TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A4 TCGA-LN-A4A5 TCGA-LN-A4A6 
        0.10         0.07         0.13         0.10         0.10         0.10 
TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW 
        0.07         0.07         0.10         0.07         5.16         3.78 
TCGA-S8-A6BV TCGA-S8-A6BW 
        8.78        14.01 

  DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE 
                          0.03                           0.07 
  DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE 
                         30.74                          20.78 
  DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE 
                          2.63                           0.92 
[1] "0.0 - 30.7 (2.6)" "0.1 - 20.8 (0.9)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 44(22Q12.3) MUTATED"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 44(22Q12.3) MUTATED"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 44(22Q12.3) MUTATED"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 44(22Q12.3) MUTATED"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 44(22Q12.3) MUTATED"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 44(22Q12.3) MUTATED"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
  "DEL PEAK 44(22Q12.3) MUTATED"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
  "DEL PEAK 44(22Q12.3) MUTATED"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 44(22Q12.3) WILD-TYPE"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 44(22Q12.3) MUTATED"   "DEL PEAK 44(22Q12.3) MUTATED" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 44(22Q12.3) WILD-TYPE" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
  "DEL PEAK 44(22Q12.3) MUTATED" "DEL PEAK 44(22Q12.3) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 44(22Q12.3) WILD-TYPE" 
[1] "hr=" "1"  
D68V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 44(22Q12.3) MUTATED         1        1        1        0         4
  DEL PEAK 44(22Q12.3) WILD-TYPE       0        2        1        1        12
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 44(22Q12.3) MUTATED           4         3          2          2
  DEL PEAK 44(22Q12.3) WILD-TYPE         7         2          6          3
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 44(22Q12.3) MUTATED            1        1
  DEL PEAK 44(22Q12.3) WILD-TYPE          1        0
D68V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 44(22Q12.3) MUTATED    3  3    14
  DEL PEAK 44(22Q12.3) WILD-TYPE  3 12    20
D68V4, multiclass
       clus
vv      DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE
  T1                               3                              3
  T2                               3                             12
  T3+T4                           14                             20
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 44(22Q12.3) MUTATED    7 10     3
  DEL PEAK 44(22Q12.3) WILD-TYPE 20  9     5
D68V5, multiclass
       clus
vv      DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE
  N0                               7                             20
  N1                              10                              9
  N2+N3                            3                              5
                                vv
clus                             M0 M1A MX
  DEL PEAK 44(22Q12.3) MUTATED   15   1  2
  DEL PEAK 44(22Q12.3) WILD-TYPE 27   0  6
D68V6, multiclass
     clus
vv    DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE
  M0                            15                             27
  M1A                            1                              0
  MX                             2                              6
D68V7, binary
                                cls
clus                              0  1
  DEL PEAK 44(22Q12.3) MUTATED    5 16
  DEL PEAK 44(22Q12.3) WILD-TYPE  3 32
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 44(22Q12.3) MUTATED      5   16
  DEL PEAK 44(22Q12.3) WILD-TYPE    3   32
        clus
vv       DEL PEAK 44(22Q12.3) MUTATED DEL PEAK 44(22Q12.3) WILD-TYPE
  FEMALE                            5                              3
  MALE                             16                             32
D68V8, continuous

Clustering(69) Variable = DEL PEAK 45(XP21.1) MUTATION ANALYSIS
D69V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 45(XP21.1) MUTATED   16  6
  DEL PEAK 45(XP21.1) WILD-TYPE 24  7
  DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE 
                           22                            31 
  DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE 
                            6                             7 
$`DEL PEAK 45(XP21.1) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A4QS TCGA-IG-A50L TCGA-IG-A625 
       20.09         0.85        20.78         0.26         0.53         0.36 
TCGA-IG-A6QS TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OM TCGA-L5-A4ON 
        0.13         4.31         3.52         3.68         4.08        18.35 
TCGA-L5-A4OP TCGA-L5-A4OQ TCGA-LN-A49M TCGA-LN-A49R TCGA-LN-A49Y TCGA-LN-A4A2 
        7.17         1.38         0.16         0.10         0.07         0.13 
TCGA-LN-A4A5 TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-S8-A6BV 
        0.10         0.07         5.16         8.78 

$`DEL PEAK 45(XP21.1) WILD-TYPE`
TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A5B8 TCGA-IG-A7DP 
        2.63        20.12         0.03         0.99         0.79         1.12 
TCGA-L5-A4OG TCGA-L5-A4OO TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU 
        3.35         3.32         3.16        30.74         4.90        29.00 
TCGA-L5-A4OW TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49S 
        7.13         7.43         8.75         0.07         0.33         0.13 
TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49W TCGA-LN-A49X TCGA-LN-A4A3 TCGA-LN-A4A4 
        0.07         0.10         0.07         0.10         0.07         0.10 
TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4A9 TCGA-LN-A4MQ TCGA-Q9-A6FW TCGA-R6-A6DQ 
        0.10         0.07         0.07         0.10         3.78         7.59 
TCGA-S8-A6BW 
       14.01 

  DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE 
                        20.78                         30.74 
  DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE 
                        1.115                         0.990 
[1] "0.1 - 20.8 (1.1)" "0.0 - 30.7 (1.0)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 45(XP21.1) MUTATED"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 45(XP21.1) WILD-TYPE" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 45(XP21.1) MUTATED" "DEL PEAK 45(XP21.1) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 45(XP21.1) WILD-TYPE"   "DEL PEAK 45(XP21.1) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK 45(XP21.1) WILD-TYPE" 
[1] "hr=" "1.2"
D69V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 45(XP21.1) MUTATED         0        2        0        0         7
  DEL PEAK 45(XP21.1) WILD-TYPE       1        1        2        1         9
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 45(XP21.1) MUTATED           6         1          5          4
  DEL PEAK 45(XP21.1) WILD-TYPE         5         4          3          1
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 45(XP21.1) MUTATED            0        0
  DEL PEAK 45(XP21.1) WILD-TYPE          2        1
D69V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 45(XP21.1) MUTATED    4  6    15
  DEL PEAK 45(XP21.1) WILD-TYPE  2  9    19
D69V4, multiclass
       clus
vv      DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE
  T1                              4                             2
  T2                              6                             9
  T3+T4                          15                            19
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 45(XP21.1) MUTATED   13  7     5
  DEL PEAK 45(XP21.1) WILD-TYPE 14 12     3
D69V5, multiclass
       clus
vv      DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE
  N0                             13                            14
  N1                              7                            12
  N2+N3                           5                             3
                               vv
clus                            M0 M1A MX
  DEL PEAK 45(XP21.1) MUTATED   17   0  4
  DEL PEAK 45(XP21.1) WILD-TYPE 25   1  4
D69V6, multiclass
     clus
vv    DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE
  M0                           17                            25
  M1A                           0                             1
  MX                            4                             4
D69V7, binary
                               cls
clus                             0  1
  DEL PEAK 45(XP21.1) MUTATED    3 22
  DEL PEAK 45(XP21.1) WILD-TYPE  5 26
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 45(XP21.1) MUTATED      3   22
  DEL PEAK 45(XP21.1) WILD-TYPE    5   26
        clus
vv       DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE
  FEMALE                           3                             5
  MALE                            22                            26
D69V8, continuous

Clustering(70) Variable = DEL PEAK 46(XP11.3) MUTATION ANALYSIS
D70V1, survival
                               sevent
clus2                            0  1
  DEL PEAK 46(XP11.3) MUTATED   20  6
  DEL PEAK 46(XP11.3) WILD-TYPE 20  7
  DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE 
                           26                            27 
  DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE 
                            6                             7 
$`DEL PEAK 46(XP11.3) MUTATED`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YC TCGA-IG-A4QS TCGA-IG-A50L 
       20.09         0.85        20.78        20.12         0.26         0.53 
TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF 
        0.79         0.36         0.13         4.31         3.52         3.68 
TCGA-L5-A4OM TCGA-L5-A4ON TCGA-L5-A4OP TCGA-LN-A49M TCGA-LN-A49R TCGA-LN-A49W 
        4.08        18.35         7.17         0.16         0.10         0.07 
TCGA-LN-A49X TCGA-LN-A49Y TCGA-LN-A4A2 TCGA-LN-A4A5 TCGA-LN-A4A9 TCGA-LN-A4MR 
        0.10         0.07         0.13         0.10         0.07         0.07 
TCGA-Q9-A6FU TCGA-S8-A6BV 
        5.16         8.78 

$`DEL PEAK 46(XP11.3) WILD-TYPE`
TCGA-IG-A3YB TCGA-IG-A4P3 TCGA-IG-A4QT TCGA-IG-A7DP TCGA-L5-A4OG TCGA-L5-A4OO 
        2.63         0.03         0.99         1.12         3.35         3.32 
TCGA-L5-A4OQ TCGA-L5-A4OR TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW 
        1.38         3.16        30.74         4.90        29.00         7.13 
TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49S TCGA-LN-A49U 
        7.43         8.75         0.07         0.33         0.13         0.07 
TCGA-LN-A49V TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A6 TCGA-LN-A4A8 TCGA-LN-A4MQ 
        0.10         0.07         0.10         0.10         0.07         0.10 
TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BW 
        3.78         7.59        14.01 

  DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE 
                         0.07                          0.03 
  DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE 
                        20.78                         30.74 
  DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE 
                         0.66                          1.38 
[1] "0.1 - 20.8 (0.7)" "0.0 - 30.7 (1.4)"
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A3QL                    TCGA-IG-A3Y9 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-IG-A3YA                    TCGA-IG-A3YB 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A3YC                    TCGA-IG-A4P3 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A4QS                    TCGA-IG-A4QT 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-IG-A50L                    TCGA-IG-A5B8 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-IG-A625                    TCGA-IG-A6QS 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-IG-A7DP                    TCGA-L5-A43J 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-L5-A4OE                    TCGA-L5-A4OF 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-L5-A4OG                    TCGA-L5-A4OM 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-L5-A4ON                    TCGA-L5-A4OO 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OP                    TCGA-L5-A4OQ 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OR                    TCGA-L5-A4OS 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OT                    TCGA-L5-A4OU 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L5-A4OW                    TCGA-L5-A4OX 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-L7-A6VZ                    TCGA-LN-A49M 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A49N                    TCGA-LN-A49O 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A49R                    TCGA-LN-A49S 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A49U                    TCGA-LN-A49V 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A49W                    TCGA-LN-A49X 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A49Y                    TCGA-LN-A4A2 
  "DEL PEAK 46(XP11.3) MUTATED"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A4A3                    TCGA-LN-A4A4 
"DEL PEAK 46(XP11.3) WILD-TYPE" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A4A5                    TCGA-LN-A4A6 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-LN-A4A8                    TCGA-LN-A4A9 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-LN-A4MQ                    TCGA-LN-A4MR 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-Q9-A6FU                    TCGA-Q9-A6FW 
  "DEL PEAK 46(XP11.3) MUTATED" "DEL PEAK 46(XP11.3) WILD-TYPE" 
                   TCGA-R6-A6DQ                    TCGA-S8-A6BV 
"DEL PEAK 46(XP11.3) WILD-TYPE"   "DEL PEAK 46(XP11.3) MUTATED" 
                   TCGA-S8-A6BW 
"DEL PEAK 46(XP11.3) WILD-TYPE" 
[1] "hr=" "1.1"
D70V2, continuous
                               vv
clus                            STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 46(XP11.3) MUTATED         0        2        1        0         9
  DEL PEAK 46(XP11.3) WILD-TYPE       1        1        1        1         7
                               vv
clus                            STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 46(XP11.3) MUTATED           6         2          5          4
  DEL PEAK 46(XP11.3) WILD-TYPE         5         3          3          1
                               vv
clus                            STAGE IIIC STAGE IV
  DEL PEAK 46(XP11.3) MUTATED            0        0
  DEL PEAK 46(XP11.3) WILD-TYPE          2        1
D70V3, multiclass
                               vv
clus                            T1 T2 T3+T4
  DEL PEAK 46(XP11.3) MUTATED    4  6    19
  DEL PEAK 46(XP11.3) WILD-TYPE  2  9    15
D70V4, multiclass
       clus
vv      DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE
  T1                              4                             2
  T2                              6                             9
  T3+T4                          19                            15
                               vv
clus                            N0 N1 N2+N3
  DEL PEAK 46(XP11.3) MUTATED   16  9     4
  DEL PEAK 46(XP11.3) WILD-TYPE 11 10     4
D70V5, multiclass
       clus
vv      DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE
  N0                             16                            11
  N1                              9                            10
  N2+N3                           4                             4
                               vv
clus                            M0 M1A MX
  DEL PEAK 46(XP11.3) MUTATED   22   0  3
  DEL PEAK 46(XP11.3) WILD-TYPE 20   1  5
D70V6, multiclass
     clus
vv    DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE
  M0                           22                            20
  M1A                           0                             1
  MX                            3                             5
D70V7, binary
                               cls
clus                             0  1
  DEL PEAK 46(XP11.3) MUTATED    3 26
  DEL PEAK 46(XP11.3) WILD-TYPE  5 22
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 46(XP11.3) MUTATED      3   26
  DEL PEAK 46(XP11.3) WILD-TYPE    5   22
        clus
vv       DEL PEAK 46(XP11.3) MUTATED DEL PEAK 46(XP11.3) WILD-TYPE
  FEMALE                           3                             5
  MALE                            26                            22
D70V8, continuous

Clustering(71) Variable = DEL PEAK 47(XQ21.33) MUTATION ANALYSIS
D71V1, survival
                                sevent
clus2                             0  1
  DEL PEAK 47(XQ21.33) MUTATED    9  1
  DEL PEAK 47(XQ21.33) WILD-TYPE 31 12
  DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE 
                            10                             43 
  DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE 
                             1                             12 
$`DEL PEAK 47(XQ21.33) MUTATED`
TCGA-L5-A4OM TCGA-L5-A4OP TCGA-L5-A4OR TCGA-LN-A49M TCGA-LN-A49W TCGA-LN-A49Y 
        4.08         7.17         3.16         0.16         0.07         0.07 
TCGA-LN-A4A2 TCGA-LN-A4A5 TCGA-LN-A4A6 TCGA-LN-A4A9 
        0.13         0.10         0.10         0.07 

$`DEL PEAK 47(XQ21.33) WILD-TYPE`
TCGA-IG-A3QL TCGA-IG-A3Y9 TCGA-IG-A3YA TCGA-IG-A3YB TCGA-IG-A3YC TCGA-IG-A4P3 
       20.09         0.85        20.78         2.63        20.12         0.03 
TCGA-IG-A4QS TCGA-IG-A4QT TCGA-IG-A50L TCGA-IG-A5B8 TCGA-IG-A625 TCGA-IG-A6QS 
        0.26         0.99         0.53         0.79         0.36         0.13 
TCGA-IG-A7DP TCGA-L5-A43J TCGA-L5-A4OE TCGA-L5-A4OF TCGA-L5-A4OG TCGA-L5-A4ON 
        1.12         4.31         3.52         3.68         3.35        18.35 
TCGA-L5-A4OO TCGA-L5-A4OQ TCGA-L5-A4OS TCGA-L5-A4OT TCGA-L5-A4OU TCGA-L5-A4OW 
        3.32         1.38        30.74         4.90        29.00         7.13 
TCGA-L5-A4OX TCGA-L7-A6VZ TCGA-LN-A49N TCGA-LN-A49O TCGA-LN-A49R TCGA-LN-A49S 
        7.43         8.75         0.07         0.33         0.10         0.13 
TCGA-LN-A49U TCGA-LN-A49V TCGA-LN-A49X TCGA-LN-A4A3 TCGA-LN-A4A4 TCGA-LN-A4A8 
        0.07         0.10         0.10         0.07         0.10         0.07 
TCGA-LN-A4MQ TCGA-LN-A4MR TCGA-Q9-A6FU TCGA-Q9-A6FW TCGA-R6-A6DQ TCGA-S8-A6BV 
        0.10         0.07         5.16         3.78         7.59         8.78 
TCGA-S8-A6BW 
       14.01 

  DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE 
                          0.07                           0.03 
  DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE 
                          7.17                          30.74 
  DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE 
                         0.115                          1.380 
[1] "0.1 - 7.2 (0.1)"  "0.0 - 30.7 (1.4)"
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 47(XQ21.33) WILD-TYPE"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 47(XQ21.33) MUTATED" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 47(XQ21.33) MUTATED" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 47(XQ21.33) WILD-TYPE"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 47(XQ21.33) MUTATED" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 47(XQ21.33) MUTATED"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 47(XQ21.33) MUTATED"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 47(XQ21.33) WILD-TYPE"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 47(XQ21.33) WILD-TYPE"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 47(XQ21.33) MUTATED" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 47(XQ21.33) MUTATED" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 47(XQ21.33) WILD-TYPE"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 47(XQ21.33) MUTATED" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 47(XQ21.33) MUTATED"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 47(XQ21.33) MUTATED"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 47(XQ21.33) WILD-TYPE"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A3QL                     TCGA-IG-A3Y9 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A3YA                     TCGA-IG-A3YB 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A3YC                     TCGA-IG-A4P3 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A4QS                     TCGA-IG-A4QT 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A50L                     TCGA-IG-A5B8 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A625                     TCGA-IG-A6QS 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-IG-A7DP                     TCGA-L5-A43J 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OE                     TCGA-L5-A4OF 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OG                     TCGA-L5-A4OM 
"DEL PEAK 47(XQ21.33) WILD-TYPE"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-L5-A4ON                     TCGA-L5-A4OO 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OP                     TCGA-L5-A4OQ 
  "DEL PEAK 47(XQ21.33) MUTATED" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OR                     TCGA-L5-A4OS 
  "DEL PEAK 47(XQ21.33) MUTATED" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OT                     TCGA-L5-A4OU 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L5-A4OW                     TCGA-L5-A4OX 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-L7-A6VZ                     TCGA-LN-A49M 
"DEL PEAK 47(XQ21.33) WILD-TYPE"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A49N                     TCGA-LN-A49O 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49R                     TCGA-LN-A49S 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49U                     TCGA-LN-A49V 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49W                     TCGA-LN-A49X 
  "DEL PEAK 47(XQ21.33) MUTATED" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A49Y                     TCGA-LN-A4A2 
  "DEL PEAK 47(XQ21.33) MUTATED"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A4A3                     TCGA-LN-A4A4 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-LN-A4A5                     TCGA-LN-A4A6 
  "DEL PEAK 47(XQ21.33) MUTATED"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A4A8                     TCGA-LN-A4A9 
"DEL PEAK 47(XQ21.33) WILD-TYPE"   "DEL PEAK 47(XQ21.33) MUTATED" 
                    TCGA-LN-A4MQ                     TCGA-LN-A4MR 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-Q9-A6FU                     TCGA-Q9-A6FW 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-R6-A6DQ                     TCGA-S8-A6BV 
"DEL PEAK 47(XQ21.33) WILD-TYPE" "DEL PEAK 47(XQ21.33) WILD-TYPE" 
                    TCGA-S8-A6BW 
"DEL PEAK 47(XQ21.33) WILD-TYPE" 
[1] "hr=" "1.1"
D71V2, continuous
                                vv
clus                             STAGE I STAGE IA STAGE IB STAGE II STAGE IIA
  DEL PEAK 47(XQ21.33) MUTATED         0        3        0        1         5
  DEL PEAK 47(XQ21.33) WILD-TYPE       1        0        2        0        11
                                vv
clus                             STAGE IIB STAGE III STAGE IIIA STAGE IIIB
  DEL PEAK 47(XQ21.33) MUTATED           0         1          0          0
  DEL PEAK 47(XQ21.33) WILD-TYPE        11         4          8          5
                                vv
clus                             STAGE IIIC STAGE IV
  DEL PEAK 47(XQ21.33) MUTATED            0        0
  DEL PEAK 47(XQ21.33) WILD-TYPE          2        1
D71V3, multiclass
                                vv
clus                             T1 T2 T3+T4
  DEL PEAK 47(XQ21.33) MUTATED    3  4     3
  DEL PEAK 47(XQ21.33) WILD-TYPE  3 11    31
D71V4, multiclass
       clus
vv      DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE
  T1                               3                              3
  T2                               4                             11
  T3+T4                            3                             31
                                vv
clus                             N0 N1 N2+N3
  DEL PEAK 47(XQ21.33) MUTATED    9  1     0
  DEL PEAK 47(XQ21.33) WILD-TYPE 18 18     8
D71V5, multiclass
       clus
vv      DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE
  N0                               9                             18
  N1                               1                             18
  N2+N3                            0                              8
                                vv
clus                             M0 M1A MX
  DEL PEAK 47(XQ21.33) MUTATED    7   0  2
  DEL PEAK 47(XQ21.33) WILD-TYPE 35   1  6
D71V6, multiclass
     clus
vv    DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE
  M0                             7                             35
  M1A                            0                              1
  MX                             2                              6
D71V7, binary
                                cls
clus                              0  1
  DEL PEAK 47(XQ21.33) MUTATED    2  8
  DEL PEAK 47(XQ21.33) WILD-TYPE  6 40
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 47(XQ21.33) MUTATED      2    8
  DEL PEAK 47(XQ21.33) WILD-TYPE    6   40
        clus
vv       DEL PEAK 47(XQ21.33) MUTATED DEL PEAK 47(XQ21.33) WILD-TYPE
  FEMALE                            2                              6
  MALE                              8                             40
D71V8, continuous
> q(save="no")
