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

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> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Cluster_cnvs_onlysig.2.4054/CNV2ClinicalAnalysis_nozzle_onlysig.R")
> result <- main("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/Correlate_Cluster_cnvs_onlysig.2.4054/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-iD=/xchip/cga/gdac-prod/tcga-gdac-genepattern/jobResults/335593/all_lesions.conf_99.cnv.cluster.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_MergedClusteringPipeline/STAD-TP/2667074/1.GDAC_mergedClustering.Finished/STAD-TP.transferedmergedcluster.txt", "-fF=ALL", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=1", "-cQ=0.25", "-MF=ONLYSIG", "-oT=STAD-TP", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"         "-oT=STAD-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  

nPatients in clinical file=257, in cluster file=237, common to both=237
[1]  72 237
[1] "Amp Peak  1(1p36.22) mutation analysis"
[1] 3
  AMP PEAK  1(1P36.22) MUTATED AMP PEAK  1(1P36.22) WILD-TYPE 
                            24                            213 
  AMP PEAK  1(1P36.22) MUTATED AMP PEAK  1(1P36.22) WILD-TYPE 
                            24                            213 
[1] "Amp Peak  2(1q21.3) mutation analysis"
[1] 3
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           75                           162 
  AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE 
                           75                           162 
[1] "Amp Peak  3(1q42.3) mutation analysis"
[1] 3
  AMP PEAK  3(1Q42.3) MUTATED AMP PEAK  3(1Q42.3) WILD-TYPE 
                           73                           164 
  AMP PEAK  3(1Q42.3) MUTATED AMP PEAK  3(1Q42.3) WILD-TYPE 
                           73                           164 
[1] "Amp Peak  4(3q26.31) mutation analysis"
[1] 3
  AMP PEAK  4(3Q26.31) MUTATED AMP PEAK  4(3Q26.31) WILD-TYPE 
                            67                            170 
  AMP PEAK  4(3Q26.31) MUTATED AMP PEAK  4(3Q26.31) WILD-TYPE 
                            67                            170 
[1] "Amp Peak  5(5p13.1) mutation analysis"
[1] 3
  AMP PEAK  5(5P13.1) MUTATED AMP PEAK  5(5P13.1) WILD-TYPE 
                           58                           179 
  AMP PEAK  5(5P13.1) MUTATED AMP PEAK  5(5P13.1) WILD-TYPE 
                           58                           179 
[1] "Amp Peak  6(6p21.1) mutation analysis"
[1] 3
  AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE 
                           60                           177 
  AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE 
                           60                           177 
[1] "Amp Peak  7(6q12) mutation analysis"
[1] 3
  AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE 
                         42                         195 
  AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE 
                         42                         195 
[1] "Amp Peak  8(7p11.2) mutation analysis"
[1] 3
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                           96                           141 
  AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE 
                           96                           141 
[1] "Amp Peak  9(7q21.2) mutation analysis"
[1] 3
  AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE 
                           97                           140 
  AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE 
                           97                           140 
[1] "Amp Peak 10(8p23.1) mutation analysis"
[1] 3
  AMP PEAK 10(8P23.1) MUTATED AMP PEAK 10(8P23.1) WILD-TYPE 
                           79                           158 
  AMP PEAK 10(8P23.1) MUTATED AMP PEAK 10(8P23.1) WILD-TYPE 
                           79                           158 
[1] "Amp Peak 11(8q24.21) mutation analysis"
[1] 3
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                           139                             98 
  AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE 
                           139                             98 
[1] "Amp Peak 12(9p24.1) mutation analysis"
[1] 3
  AMP PEAK 12(9P24.1) MUTATED AMP PEAK 12(9P24.1) WILD-TYPE 
                           30                           207 
  AMP PEAK 12(9P24.1) MUTATED AMP PEAK 12(9P24.1) WILD-TYPE 
                           30                           207 
[1] "Amp Peak 13(9q34.3) mutation analysis"
[1] 3
  AMP PEAK 13(9Q34.3) MUTATED AMP PEAK 13(9Q34.3) WILD-TYPE 
                           48                           189 
  AMP PEAK 13(9Q34.3) MUTATED AMP PEAK 13(9Q34.3) WILD-TYPE 
                           48                           189 
[1] "Amp Peak 14(10q26.13) mutation analysis"
[1] 3
  AMP PEAK 14(10Q26.13) MUTATED AMP PEAK 14(10Q26.13) WILD-TYPE 
                             45                             192 
  AMP PEAK 14(10Q26.13) MUTATED AMP PEAK 14(10Q26.13) WILD-TYPE 
                             45                             192 
[1] "Amp Peak 15(11p13) mutation analysis"
[1] 3
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                          38                          199 
  AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE 
                          38                          199 
[1] "Amp Peak 16(11q13.3) mutation analysis"
[1] 3
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                            47                            190 
  AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE 
                            47                            190 
[1] "Amp Peak 17(12p12.1) mutation analysis"
[1] 3
  AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE 
                            54                            183 
  AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE 
                            54                            183 
[1] "Amp Peak 18(12q15) mutation analysis"
[1] 3
  AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE 
                          49                          188 
  AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE 
                          49                          188 
[1] "Amp Peak 19(13q12.3) mutation analysis"
[1] 3
  AMP PEAK 19(13Q12.3) MUTATED AMP PEAK 19(13Q12.3) WILD-TYPE 
                            81                            156 
  AMP PEAK 19(13Q12.3) MUTATED AMP PEAK 19(13Q12.3) WILD-TYPE 
                            81                            156 
[1] "Amp Peak 20(13q22.1) mutation analysis"
[1] 3
  AMP PEAK 20(13Q22.1) MUTATED AMP PEAK 20(13Q22.1) WILD-TYPE 
                            88                            149 
  AMP PEAK 20(13Q22.1) MUTATED AMP PEAK 20(13Q22.1) WILD-TYPE 
                            88                            149 
[1] "Amp Peak 21(15q26.1) mutation analysis"
[1] 3
  AMP PEAK 21(15Q26.1) MUTATED AMP PEAK 21(15Q26.1) WILD-TYPE 
                            52                            185 
  AMP PEAK 21(15Q26.1) MUTATED AMP PEAK 21(15Q26.1) WILD-TYPE 
                            52                            185 
[1] "Amp Peak 22(17q12) mutation analysis"
[1] 3
  AMP PEAK 22(17Q12) MUTATED AMP PEAK 22(17Q12) WILD-TYPE 
                          61                          176 
  AMP PEAK 22(17Q12) MUTATED AMP PEAK 22(17Q12) WILD-TYPE 
                          61                          176 
[1] "Amp Peak 23(18q11.2) mutation analysis"
[1] 3
  AMP PEAK 23(18Q11.2) MUTATED AMP PEAK 23(18Q11.2) WILD-TYPE 
                            61                            176 
  AMP PEAK 23(18Q11.2) MUTATED AMP PEAK 23(18Q11.2) WILD-TYPE 
                            61                            176 
[1] "Amp Peak 24(19q12) mutation analysis"
[1] 3
  AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE 
                          61                          176 
  AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE 
                          61                          176 
[1] "Amp Peak 25(20q13.2) mutation analysis"
[1] 3
  AMP PEAK 25(20Q13.2) MUTATED AMP PEAK 25(20Q13.2) WILD-TYPE 
                           147                             90 
  AMP PEAK 25(20Q13.2) MUTATED AMP PEAK 25(20Q13.2) WILD-TYPE 
                           147                             90 
[1] "Amp Peak 26(Xq27.3) mutation analysis"
[1] 3
  AMP PEAK 26(XQ27.3) MUTATED AMP PEAK 26(XQ27.3) WILD-TYPE 
                           43                           194 
  AMP PEAK 26(XQ27.3) MUTATED AMP PEAK 26(XQ27.3) WILD-TYPE 
                           43                           194 
[1] "Del Peak  1(1p36.11) mutation analysis"
[1] 3
  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE 
                            63                            174 
  DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE 
                            63                            174 
[1] "Del Peak  2(1p31.1) mutation analysis"
[1] 3
  DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE 
                           37                           200 
  DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE 
                           37                           200 
[1] "Del Peak  3(1q44) mutation analysis"
[1] 3
  DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE 
                         14                         223 
  DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE 
                         14                         223 
[1] "Del Peak  4(2q32.1) mutation analysis"
[1] 3
  DEL PEAK  4(2Q32.1) MUTATED DEL PEAK  4(2Q32.1) WILD-TYPE 
                           28                           209 
  DEL PEAK  4(2Q32.1) MUTATED DEL PEAK  4(2Q32.1) WILD-TYPE 
                           28                           209 
[1] "Del Peak  5(2q33.3) mutation analysis"
[1] 3
  DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE 
                           23                           214 
  DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE 
                           23                           214 
[1] "Del Peak  6(2q37.2) mutation analysis"
[1] 3
  DEL PEAK  6(2Q37.2) MUTATED DEL PEAK  6(2Q37.2) WILD-TYPE 
                           33                           204 
  DEL PEAK  6(2Q37.2) MUTATED DEL PEAK  6(2Q37.2) WILD-TYPE 
                           33                           204 
[1] "Del Peak  7(3p26.1) mutation analysis"
[1] 3
  DEL PEAK  7(3P26.1) MUTATED DEL PEAK  7(3P26.1) WILD-TYPE 
                           56                           181 
  DEL PEAK  7(3P26.1) MUTATED DEL PEAK  7(3P26.1) WILD-TYPE 
                           56                           181 
[1] "Del Peak  8(3p14.2) mutation analysis"
[1] 3
  DEL PEAK  8(3P14.2) MUTATED DEL PEAK  8(3P14.2) WILD-TYPE 
                           71                           166 
  DEL PEAK  8(3P14.2) MUTATED DEL PEAK  8(3P14.2) WILD-TYPE 
                           71                           166 
[1] "Del Peak  9(3q26.31) mutation analysis"
[1] 3
  DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE 
                            20                            217 
  DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE 
                            20                            217 
[1] "Del Peak 10(4p16.3) mutation analysis"
[1] 3
  DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE 
                           76                           161 
  DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE 
                           76                           161 
[1] "Del Peak 11(4q22.1) mutation analysis"
[1] 3
  DEL PEAK 11(4Q22.1) MUTATED DEL PEAK 11(4Q22.1) WILD-TYPE 
                           91                           146 
  DEL PEAK 11(4Q22.1) MUTATED DEL PEAK 11(4Q22.1) WILD-TYPE 
                           91                           146 
[1] "Del Peak 12(4q35.1) mutation analysis"
[1] 3
  DEL PEAK 12(4Q35.1) MUTATED DEL PEAK 12(4Q35.1) WILD-TYPE 
                           87                           150 
  DEL PEAK 12(4Q35.1) MUTATED DEL PEAK 12(4Q35.1) WILD-TYPE 
                           87                           150 
[1] "Del Peak 13(5q11.2) mutation analysis"
[1] 3
  DEL PEAK 13(5Q11.2) MUTATED DEL PEAK 13(5Q11.2) WILD-TYPE 
                           70                           167 
  DEL PEAK 13(5Q11.2) MUTATED DEL PEAK 13(5Q11.2) WILD-TYPE 
                           70                           167 
[1] "Del Peak 14(6p25.3) mutation analysis"
[1] 3
  DEL PEAK 14(6P25.3) MUTATED DEL PEAK 14(6P25.3) WILD-TYPE 
                           48                           189 
  DEL PEAK 14(6P25.3) MUTATED DEL PEAK 14(6P25.3) WILD-TYPE 
                           48                           189 
[1] "Del Peak 15(6q26) mutation analysis"
[1] 3
  DEL PEAK 15(6Q26) MUTATED DEL PEAK 15(6Q26) WILD-TYPE 
                         47                         190 
  DEL PEAK 15(6Q26) MUTATED DEL PEAK 15(6Q26) WILD-TYPE 
                         47                         190 
[1] "Del Peak 16(6q27) mutation analysis"
[1] 3
  DEL PEAK 16(6Q27) MUTATED DEL PEAK 16(6Q27) WILD-TYPE 
                         47                         190 
  DEL PEAK 16(6Q27) MUTATED DEL PEAK 16(6Q27) WILD-TYPE 
                         47                         190 
[1] "Del Peak 17(7q31.1) mutation analysis"
[1] 3
  DEL PEAK 17(7Q31.1) MUTATED DEL PEAK 17(7Q31.1) WILD-TYPE 
                           26                           211 
  DEL PEAK 17(7Q31.1) MUTATED DEL PEAK 17(7Q31.1) WILD-TYPE 
                           26                           211 
[1] "Del Peak 18(7q36.3) mutation analysis"
[1] 3
  DEL PEAK 18(7Q36.3) MUTATED DEL PEAK 18(7Q36.3) WILD-TYPE 
                           42                           195 
  DEL PEAK 18(7Q36.3) MUTATED DEL PEAK 18(7Q36.3) WILD-TYPE 
                           42                           195 
[1] "Del Peak 19(8p23.2) mutation analysis"
[1] 3
  DEL PEAK 19(8P23.2) MUTATED DEL PEAK 19(8P23.2) WILD-TYPE 
                           56                           181 
  DEL PEAK 19(8P23.2) MUTATED DEL PEAK 19(8P23.2) WILD-TYPE 
                           56                           181 
[1] "Del Peak 20(9p23) mutation analysis"
[1] 3
  DEL PEAK 20(9P23) MUTATED DEL PEAK 20(9P23) WILD-TYPE 
                         90                         147 
  DEL PEAK 20(9P23) MUTATED DEL PEAK 20(9P23) WILD-TYPE 
                         90                         147 
[1] "Del Peak 21(9p21.3) mutation analysis"
[1] 3
  DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE 
                           88                           149 
  DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE 
                           88                           149 
[1] "Del Peak 22(9q21.11) mutation analysis"
[1] 3
  DEL PEAK 22(9Q21.11) MUTATED DEL PEAK 22(9Q21.11) WILD-TYPE 
                            52                            185 
  DEL PEAK 22(9Q21.11) MUTATED DEL PEAK 22(9Q21.11) WILD-TYPE 
                            52                            185 
[1] "Del Peak 23(10p14) mutation analysis"
[1] 3
  DEL PEAK 23(10P14) MUTATED DEL PEAK 23(10P14) WILD-TYPE 
                          34                          203 
  DEL PEAK 23(10P14) MUTATED DEL PEAK 23(10P14) WILD-TYPE 
                          34                          203 
[1] "Del Peak 24(10q22.3) mutation analysis"
[1] 3
  DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE 
                            34                            203 
  DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE 
                            34                            203 
[1] "Del Peak 25(10q23.31) mutation analysis"
[1] 3
  DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE 
                             54                             183 
  DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE 
                             54                             183 
[1] "Del Peak 26(11p15.5) mutation analysis"
[1] 3
  DEL PEAK 26(11P15.5) MUTATED DEL PEAK 26(11P15.5) WILD-TYPE 
                            46                            191 
  DEL PEAK 26(11P15.5) MUTATED DEL PEAK 26(11P15.5) WILD-TYPE 
                            46                            191 
[1] "Del Peak 27(11q23.2) mutation analysis"
[1] 3
  DEL PEAK 27(11Q23.2) MUTATED DEL PEAK 27(11Q23.2) WILD-TYPE 
                            43                            194 
  DEL PEAK 27(11Q23.2) MUTATED DEL PEAK 27(11Q23.2) WILD-TYPE 
                            43                            194 
[1] "Del Peak 28(12p13.2) mutation analysis"
[1] 3
  DEL PEAK 28(12P13.2) MUTATED DEL PEAK 28(12P13.2) WILD-TYPE 
                            34                            203 
  DEL PEAK 28(12P13.2) MUTATED DEL PEAK 28(12P13.2) WILD-TYPE 
                            34                            203 
[1] "Del Peak 29(14q21.1) mutation analysis"
[1] 3
  DEL PEAK 29(14Q21.1) MUTATED DEL PEAK 29(14Q21.1) WILD-TYPE 
                            52                            185 
  DEL PEAK 29(14Q21.1) MUTATED DEL PEAK 29(14Q21.1) WILD-TYPE 
                            52                            185 
[1] "Del Peak 30(14q32.33) mutation analysis"
[1] 3
  DEL PEAK 30(14Q32.33) MUTATED DEL PEAK 30(14Q32.33) WILD-TYPE 
                             59                             178 
  DEL PEAK 30(14Q32.33) MUTATED DEL PEAK 30(14Q32.33) WILD-TYPE 
                             59                             178 
[1] "Del Peak 31(15q11.2) mutation analysis"
[1] 3
  DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE 
                            56                            181 
  DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE 
                            56                            181 
[1] "Del Peak 32(15q15.1) mutation analysis"
[1] 3
  DEL PEAK 32(15Q15.1) MUTATED DEL PEAK 32(15Q15.1) WILD-TYPE 
                            57                            180 
  DEL PEAK 32(15Q15.1) MUTATED DEL PEAK 32(15Q15.1) WILD-TYPE 
                            57                            180 
[1] "Del Peak 33(16p13.3) mutation analysis"
[1] 3
  DEL PEAK 33(16P13.3) MUTATED DEL PEAK 33(16P13.3) WILD-TYPE 
                            34                            203 
  DEL PEAK 33(16P13.3) MUTATED DEL PEAK 33(16P13.3) WILD-TYPE 
                            34                            203 
[1] "Del Peak 34(16q23.1) mutation analysis"
[1] 3
  DEL PEAK 34(16Q23.1) MUTATED DEL PEAK 34(16Q23.1) WILD-TYPE 
                            74                            163 
  DEL PEAK 34(16Q23.1) MUTATED DEL PEAK 34(16Q23.1) WILD-TYPE 
                            74                            163 
[1] "Del Peak 35(17p12) mutation analysis"
[1] 3
  DEL PEAK 35(17P12) MUTATED DEL PEAK 35(17P12) WILD-TYPE 
                          79                          158 
  DEL PEAK 35(17P12) MUTATED DEL PEAK 35(17P12) WILD-TYPE 
                          79                          158 
[1] "Del Peak 36(17q24.3) mutation analysis"
[1] 3
  DEL PEAK 36(17Q24.3) MUTATED DEL PEAK 36(17Q24.3) WILD-TYPE 
                            36                            201 
  DEL PEAK 36(17Q24.3) MUTATED DEL PEAK 36(17Q24.3) WILD-TYPE 
                            36                            201 
[1] "Del Peak 37(18q21.2) mutation analysis"
[1] 3
  DEL PEAK 37(18Q21.2) MUTATED DEL PEAK 37(18Q21.2) WILD-TYPE 
                            95                            142 
  DEL PEAK 37(18Q21.2) MUTATED DEL PEAK 37(18Q21.2) WILD-TYPE 
                            95                            142 
[1] "Del Peak 38(18q22.3) mutation analysis"
[1] 3
  DEL PEAK 38(18Q22.3) MUTATED DEL PEAK 38(18Q22.3) WILD-TYPE 
                            92                            145 
  DEL PEAK 38(18Q22.3) MUTATED DEL PEAK 38(18Q22.3) WILD-TYPE 
                            92                            145 
[1] "Del Peak 39(19p13.3) mutation analysis"
[1] 3
  DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE 
                            71                            166 
  DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE 
                            71                            166 
[1] "Del Peak 40(19q13.11) mutation analysis"
[1] 3
  DEL PEAK 40(19Q13.11) MUTATED DEL PEAK 40(19Q13.11) WILD-TYPE 
                             30                             207 
  DEL PEAK 40(19Q13.11) MUTATED DEL PEAK 40(19Q13.11) WILD-TYPE 
                             30                             207 
[1] "Del Peak 41(20p12.1) mutation analysis"
[1] 3
  DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE 
                            33                            204 
  DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE 
                            33                            204 
[1] "Del Peak 42(21q11.2) mutation analysis"
[1] 3
  DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE 
                            73                            164 
  DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE 
                            73                            164 
[1] "Del Peak 43(22q13.31) mutation analysis"
[1] 3
  DEL PEAK 43(22Q13.31) MUTATED DEL PEAK 43(22Q13.31) WILD-TYPE 
                             70                             167 
  DEL PEAK 43(22Q13.31) MUTATED DEL PEAK 43(22Q13.31) WILD-TYPE 
                             70                             167 
[1] "Del Peak 44(Xp22.2) mutation analysis"
[1] 3
  DEL PEAK 44(XP22.2) MUTATED DEL PEAK 44(XP22.2) WILD-TYPE 
                           38                           199 
  DEL PEAK 44(XP22.2) MUTATED DEL PEAK 44(XP22.2) WILD-TYPE 
                           38                           199 
[1] "Del Peak 45(Xp21.1) mutation analysis"
[1] 3
  DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE 
                           33                           204 
  DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE 
                           33                           204 
[1] "Del Peak 46(Xq21.33) mutation analysis"
[1] 3
  DEL PEAK 46(XQ21.33) MUTATED DEL PEAK 46(XQ21.33) WILD-TYPE 
                            30                            207 
  DEL PEAK 46(XQ21.33) MUTATED DEL PEAK 46(XQ21.33) WILD-TYPE 
                            30                            207 
[1] "data2feature, selection=ALL"
[1] "CN_CNMF"               "METHLYATION_CNMF"      "MRNASEQ_CNMF"         
[4] "MRNASEQ_CHIERARCHICAL" "MIRSEQ_CNMF"           "MIRSEQ_CHIERARCHICAL" 

Input Data has 6 rows and 237 columns.

Variable 1:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'MRNASEQ_CNMF':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
[1] "CN_CNMF"               "METHLYATION_CNMF"      "MRNASEQ_CNMF"         
[4] "MRNASEQ_CHIERARCHICAL" "MIRSEQ_CNMF"           "MIRSEQ_CHIERARCHICAL" 
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 237 columns, 0 survival variables, and 6 non-survival variables.
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=2, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = Amp Peak  1(1p36.22) mutation analysis
D1V1, multiclass
        clus
vv       AMP PEAK  1(1P36.22) MUTATED AMP PEAK  1(1P36.22) WILD-TYPE
  CLUS_1                            1                             29
  CLUS_2                           21                             78
  CLUS_3                            2                            106
D1V2, multiclass
        clus
vv       AMP PEAK  1(1P36.22) MUTATED AMP PEAK  1(1P36.22) WILD-TYPE
  CLUS_1                            0                             27
  CLUS_2                            2                             50
  CLUS_3                            6                             49
  CLUS_4                            8                             47
D1V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  1(1P36.22) MUTATED      5    2
  AMP PEAK  1(1P36.22) WILD-TYPE   17   19
        clus
vv       AMP PEAK  1(1P36.22) MUTATED AMP PEAK  1(1P36.22) WILD-TYPE
  CLUS_1                            5                             17
  CLUS_2                            2                             19
D1V4, multiclass
        clus
vv       AMP PEAK  1(1P36.22) MUTATED AMP PEAK  1(1P36.22) WILD-TYPE
  CLUS_1                            1                             14
  CLUS_2                            1                              6
  CLUS_3                            5                             16
D1V5, multiclass
        clus
vv       AMP PEAK  1(1P36.22) MUTATED AMP PEAK  1(1P36.22) WILD-TYPE
  CLUS_1                           14                             75
  CLUS_2                            2                             53
  CLUS_3                            7                             85
D1V6, multiclass
        clus
vv       AMP PEAK  1(1P36.22) MUTATED AMP PEAK  1(1P36.22) WILD-TYPE
  CLUS_1                            9                             50
  CLUS_2                           10                             94
  CLUS_3                            4                             69

Clustering(2) Variable = Amp Peak  2(1q21.3) mutation analysis
D2V1, multiclass
        clus
vv       AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  CLUS_1                          11                            19
  CLUS_2                          56                            43
  CLUS_3                           8                           100
D2V2, multiclass
        clus
vv       AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  CLUS_1                           2                            25
  CLUS_2                          13                            39
  CLUS_3                          12                            43
  CLUS_4                          31                            24
D2V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  2(1Q21.3) MUTATED      6   10
  AMP PEAK  2(1Q21.3) WILD-TYPE   16   11
        clus
vv       AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  CLUS_1                           6                            16
  CLUS_2                          10                            11
D2V4, multiclass
        clus
vv       AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  CLUS_1                           9                             6
  CLUS_2                           0                             7
  CLUS_3                           7                            14
D2V5, multiclass
        clus
vv       AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  CLUS_1                          23                            66
  CLUS_2                          10                            45
  CLUS_3                          42                            50
D2V6, multiclass
        clus
vv       AMP PEAK  2(1Q21.3) MUTATED AMP PEAK  2(1Q21.3) WILD-TYPE
  CLUS_1                          30                            29
  CLUS_2                          28                            76
  CLUS_3                          17                            56

Clustering(3) Variable = Amp Peak  3(1q42.3) mutation analysis
D3V1, multiclass
        clus
vv       AMP PEAK  3(1Q42.3) MUTATED AMP PEAK  3(1Q42.3) WILD-TYPE
  CLUS_1                          10                            20
  CLUS_2                          54                            45
  CLUS_3                           9                            99
D3V2, multiclass
        clus
vv       AMP PEAK  3(1Q42.3) MUTATED AMP PEAK  3(1Q42.3) WILD-TYPE
  CLUS_1                           2                            25
  CLUS_2                          13                            39
  CLUS_3                          15                            40
  CLUS_4                          27                            28
D3V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  3(1Q42.3) MUTATED      7    8
  AMP PEAK  3(1Q42.3) WILD-TYPE   15   13
        clus
vv       AMP PEAK  3(1Q42.3) MUTATED AMP PEAK  3(1Q42.3) WILD-TYPE
  CLUS_1                           7                            15
  CLUS_2                           8                            13
D3V4, multiclass
        clus
vv       AMP PEAK  3(1Q42.3) MUTATED AMP PEAK  3(1Q42.3) WILD-TYPE
  CLUS_1                           7                             8
  CLUS_2                           1                             6
  CLUS_3                           7                            14
D3V5, multiclass
        clus
vv       AMP PEAK  3(1Q42.3) MUTATED AMP PEAK  3(1Q42.3) WILD-TYPE
  CLUS_1                          19                            70
  CLUS_2                          10                            45
  CLUS_3                          43                            49
D3V6, multiclass
        clus
vv       AMP PEAK  3(1Q42.3) MUTATED AMP PEAK  3(1Q42.3) WILD-TYPE
  CLUS_1                          28                            31
  CLUS_2                          27                            77
  CLUS_3                          17                            56

Clustering(4) Variable = Amp Peak  4(3q26.31) mutation analysis
D4V1, multiclass
        clus
vv       AMP PEAK  4(3Q26.31) MUTATED AMP PEAK  4(3Q26.31) WILD-TYPE
  CLUS_1                           10                             20
  CLUS_2                           42                             57
  CLUS_3                           15                             93
D4V2, multiclass
        clus
vv       AMP PEAK  4(3Q26.31) MUTATED AMP PEAK  4(3Q26.31) WILD-TYPE
  CLUS_1                            9                             18
  CLUS_2                           10                             42
  CLUS_3                            9                             46
  CLUS_4                           21                             34
D4V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK  4(3Q26.31) MUTATED     11    5
  AMP PEAK  4(3Q26.31) WILD-TYPE   11   16
        clus
vv       AMP PEAK  4(3Q26.31) MUTATED AMP PEAK  4(3Q26.31) WILD-TYPE
  CLUS_1                           11                             11
  CLUS_2                            5                             16
D4V4, multiclass
        clus
vv       AMP PEAK  4(3Q26.31) MUTATED AMP PEAK  4(3Q26.31) WILD-TYPE
  CLUS_1                            3                             12
  CLUS_2                            2                              5
  CLUS_3                           11                             10
D4V5, multiclass
        clus
vv       AMP PEAK  4(3Q26.31) MUTATED AMP PEAK  4(3Q26.31) WILD-TYPE
  CLUS_1                           31                             58
  CLUS_2                           11                             44
  CLUS_3                           25                             67
D4V6, multiclass
        clus
vv       AMP PEAK  4(3Q26.31) MUTATED AMP PEAK  4(3Q26.31) WILD-TYPE
  CLUS_1                           19                             40
  CLUS_2                           31                             73
  CLUS_3                           17                             56

Clustering(5) Variable = Amp Peak  5(5p13.1) mutation analysis
D5V1, multiclass
        clus
vv       AMP PEAK  5(5P13.1) MUTATED AMP PEAK  5(5P13.1) WILD-TYPE
  CLUS_1                           3                            27
  CLUS_2                          48                            51
  CLUS_3                           7                           101
D5V2, multiclass
        clus
vv       AMP PEAK  5(5P13.1) MUTATED AMP PEAK  5(5P13.1) WILD-TYPE
  CLUS_1                           4                            23
  CLUS_2                           8                            44
  CLUS_3                          10                            45
  CLUS_4                          21                            34
D5V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  5(5P13.1) MUTATED      7    7
  AMP PEAK  5(5P13.1) WILD-TYPE   15   14
        clus
vv       AMP PEAK  5(5P13.1) MUTATED AMP PEAK  5(5P13.1) WILD-TYPE
  CLUS_1                           7                            15
  CLUS_2                           7                            14
D5V4, multiclass
        clus
vv       AMP PEAK  5(5P13.1) MUTATED AMP PEAK  5(5P13.1) WILD-TYPE
  CLUS_1                           6                             9
  CLUS_2                           1                             6
  CLUS_3                           7                            14
D5V5, multiclass
        clus
vv       AMP PEAK  5(5P13.1) MUTATED AMP PEAK  5(5P13.1) WILD-TYPE
  CLUS_1                          18                            71
  CLUS_2                           9                            46
  CLUS_3                          31                            61
D5V6, multiclass
        clus
vv       AMP PEAK  5(5P13.1) MUTATED AMP PEAK  5(5P13.1) WILD-TYPE
  CLUS_1                          24                            35
  CLUS_2                          21                            83
  CLUS_3                          13                            60

Clustering(6) Variable = Amp Peak  6(6p21.1) mutation analysis
D6V1, multiclass
        clus
vv       AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE
  CLUS_1                           8                            22
  CLUS_2                          47                            52
  CLUS_3                           5                           103
D6V2, multiclass
        clus
vv       AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE
  CLUS_1                           2                            25
  CLUS_2                          10                            42
  CLUS_3                           7                            48
  CLUS_4                          25                            30
D6V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  6(6P21.1) MUTATED      5    8
  AMP PEAK  6(6P21.1) WILD-TYPE   17   13
        clus
vv       AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE
  CLUS_1                           5                            17
  CLUS_2                           8                            13
D6V4, multiclass
        clus
vv       AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE
  CLUS_1                           5                            10
  CLUS_2                           3                             4
  CLUS_3                           5                            16
D6V5, multiclass
        clus
vv       AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE
  CLUS_1                          19                            70
  CLUS_2                           9                            46
  CLUS_3                          31                            61
D6V6, multiclass
        clus
vv       AMP PEAK  6(6P21.1) MUTATED AMP PEAK  6(6P21.1) WILD-TYPE
  CLUS_1                          24                            35
  CLUS_2                          22                            82
  CLUS_3                          13                            60

Clustering(7) Variable = Amp Peak  7(6q12) mutation analysis
D7V1, multiclass
        clus
vv       AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE
  CLUS_1                         6                          24
  CLUS_2                        32                          67
  CLUS_3                         4                         104
D7V2, multiclass
        clus
vv       AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE
  CLUS_1                         2                          25
  CLUS_2                         8                          44
  CLUS_3                         4                          51
  CLUS_4                        14                          41
D7V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  AMP PEAK  7(6Q12) MUTATED      5    7
  AMP PEAK  7(6Q12) WILD-TYPE   17   14
        clus
vv       AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE
  CLUS_1                         5                          17
  CLUS_2                         7                          14
D7V4, multiclass
        clus
vv       AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE
  CLUS_1                         5                          10
  CLUS_2                         2                           5
  CLUS_3                         5                          16
D7V5, multiclass
        clus
vv       AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE
  CLUS_1                        13                          76
  CLUS_2                         6                          49
  CLUS_3                        23                          69
D7V6, multiclass
        clus
vv       AMP PEAK  7(6Q12) MUTATED AMP PEAK  7(6Q12) WILD-TYPE
  CLUS_1                        18                          41
  CLUS_2                        15                          89
  CLUS_3                         9                          64

Clustering(8) Variable = Amp Peak  8(7p11.2) mutation analysis
D8V1, multiclass
        clus
vv       AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  CLUS_1                          14                            16
  CLUS_2                          63                            36
  CLUS_3                          19                            89
D8V2, multiclass
        clus
vv       AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  CLUS_1                           7                            20
  CLUS_2                          22                            30
  CLUS_3                          12                            43
  CLUS_4                          32                            23
D8V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  8(7P11.2) MUTATED      9   11
  AMP PEAK  8(7P11.2) WILD-TYPE   13   10
        clus
vv       AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  CLUS_1                           9                            13
  CLUS_2                          11                            10
D8V4, multiclass
        clus
vv       AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  CLUS_1                           8                             7
  CLUS_2                           2                             5
  CLUS_3                          10                            11
D8V5, multiclass
        clus
vv       AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  CLUS_1                          36                            53
  CLUS_2                          13                            42
  CLUS_3                          47                            45
D8V6, multiclass
        clus
vv       AMP PEAK  8(7P11.2) MUTATED AMP PEAK  8(7P11.2) WILD-TYPE
  CLUS_1                          32                            27
  CLUS_2                          42                            62
  CLUS_3                          22                            51

Clustering(9) Variable = Amp Peak  9(7q21.2) mutation analysis
D9V1, multiclass
        clus
vv       AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE
  CLUS_1                          17                            13
  CLUS_2                          60                            39
  CLUS_3                          20                            88
D9V2, multiclass
        clus
vv       AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE
  CLUS_1                           7                            20
  CLUS_2                          22                            30
  CLUS_3                          14                            41
  CLUS_4                          29                            26
D9V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK  9(7Q21.2) MUTATED     10   12
  AMP PEAK  9(7Q21.2) WILD-TYPE   12    9
        clus
vv       AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE
  CLUS_1                          10                            12
  CLUS_2                          12                             9
D9V4, multiclass
        clus
vv       AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE
  CLUS_1                           9                             6
  CLUS_2                           2                             5
  CLUS_3                          11                            10
D9V5, multiclass
        clus
vv       AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE
  CLUS_1                          42                            47
  CLUS_2                          14                            41
  CLUS_3                          41                            51
D9V6, multiclass
        clus
vv       AMP PEAK  9(7Q21.2) MUTATED AMP PEAK  9(7Q21.2) WILD-TYPE
  CLUS_1                          27                            32
  CLUS_2                          48                            56
  CLUS_3                          22                            51

Clustering(10) Variable = Amp Peak 10(8p23.1) mutation analysis
D10V1, multiclass
        clus
vv       AMP PEAK 10(8P23.1) MUTATED AMP PEAK 10(8P23.1) WILD-TYPE
  CLUS_1                          30                             0
  CLUS_2                          25                            74
  CLUS_3                          24                            84
D10V2, multiclass
        clus
vv       AMP PEAK 10(8P23.1) MUTATED AMP PEAK 10(8P23.1) WILD-TYPE
  CLUS_1                           8                            19
  CLUS_2                          17                            35
  CLUS_3                          16                            39
  CLUS_4                          15                            40
D10V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 10(8P23.1) MUTATED     12    8
  AMP PEAK 10(8P23.1) WILD-TYPE   10   13
        clus
vv       AMP PEAK 10(8P23.1) MUTATED AMP PEAK 10(8P23.1) WILD-TYPE
  CLUS_1                          12                            10
  CLUS_2                           8                            13
D10V4, multiclass
        clus
vv       AMP PEAK 10(8P23.1) MUTATED AMP PEAK 10(8P23.1) WILD-TYPE
  CLUS_1                           5                            10
  CLUS_2                           2                             5
  CLUS_3                          13                             8
D10V5, multiclass
        clus
vv       AMP PEAK 10(8P23.1) MUTATED AMP PEAK 10(8P23.1) WILD-TYPE
  CLUS_1                          32                            57
  CLUS_2                          15                            40
  CLUS_3                          32                            60
D10V6, multiclass
        clus
vv       AMP PEAK 10(8P23.1) MUTATED AMP PEAK 10(8P23.1) WILD-TYPE
  CLUS_1                          17                            42
  CLUS_2                          38                            66
  CLUS_3                          24                            49

Clustering(11) Variable = Amp Peak 11(8q24.21) mutation analysis
D11V1, multiclass
        clus
vv       AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  CLUS_1                           29                              1
  CLUS_2                           76                             23
  CLUS_3                           34                             74
D11V2, multiclass
        clus
vv       AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  CLUS_1                            8                             19
  CLUS_2                           26                             26
  CLUS_3                           27                             28
  CLUS_4                           41                             14
D11V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 11(8Q24.21) MUTATED     19   15
  AMP PEAK 11(8Q24.21) WILD-TYPE    3    6
        clus
vv       AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  CLUS_1                           19                              3
  CLUS_2                           15                              6
D11V4, multiclass
        clus
vv       AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  CLUS_1                           10                              5
  CLUS_2                            6                              1
  CLUS_3                           18                              3
D11V5, multiclass
        clus
vv       AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  CLUS_1                           55                             34
  CLUS_2                           25                             30
  CLUS_3                           58                             34
D11V6, multiclass
        clus
vv       AMP PEAK 11(8Q24.21) MUTATED AMP PEAK 11(8Q24.21) WILD-TYPE
  CLUS_1                           43                             16
  CLUS_2                           59                             45
  CLUS_3                           36                             37

Clustering(12) Variable = Amp Peak 12(9p24.1) mutation analysis
D12V1, multiclass
        clus
vv       AMP PEAK 12(9P24.1) MUTATED AMP PEAK 12(9P24.1) WILD-TYPE
  CLUS_1                           4                            26
  CLUS_2                          14                            85
  CLUS_3                          12                            96
D12V2, multiclass
        clus
vv       AMP PEAK 12(9P24.1) MUTATED AMP PEAK 12(9P24.1) WILD-TYPE
  CLUS_1                           5                            22
  CLUS_2                           7                            45
  CLUS_3                           6                            49
  CLUS_4                           5                            50
D12V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 12(9P24.1) MUTATED      3    4
  AMP PEAK 12(9P24.1) WILD-TYPE   19   17
        clus
vv       AMP PEAK 12(9P24.1) MUTATED AMP PEAK 12(9P24.1) WILD-TYPE
  CLUS_1                           3                            19
  CLUS_2                           4                            17
D12V4, multiclass
        clus
vv       AMP PEAK 12(9P24.1) MUTATED AMP PEAK 12(9P24.1) WILD-TYPE
  CLUS_1                           2                            13
  CLUS_2                           3                             4
  CLUS_3                           2                            19
D12V5, multiclass
        clus
vv       AMP PEAK 12(9P24.1) MUTATED AMP PEAK 12(9P24.1) WILD-TYPE
  CLUS_1                          12                            77
  CLUS_2                           5                            50
  CLUS_3                          13                            79
D12V6, multiclass
        clus
vv       AMP PEAK 12(9P24.1) MUTATED AMP PEAK 12(9P24.1) WILD-TYPE
  CLUS_1                           8                            51
  CLUS_2                          16                            88
  CLUS_3                           6                            67

Clustering(13) Variable = Amp Peak 13(9q34.3) mutation analysis
D13V1, multiclass
        clus
vv       AMP PEAK 13(9Q34.3) MUTATED AMP PEAK 13(9Q34.3) WILD-TYPE
  CLUS_1                           4                            26
  CLUS_2                          35                            64
  CLUS_3                           9                            99
D13V2, multiclass
        clus
vv       AMP PEAK 13(9Q34.3) MUTATED AMP PEAK 13(9Q34.3) WILD-TYPE
  CLUS_1                           2                            25
  CLUS_2                           8                            44
  CLUS_3                          10                            45
  CLUS_4                          14                            41
D13V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 13(9Q34.3) MUTATED      6    7
  AMP PEAK 13(9Q34.3) WILD-TYPE   16   14
        clus
vv       AMP PEAK 13(9Q34.3) MUTATED AMP PEAK 13(9Q34.3) WILD-TYPE
  CLUS_1                           6                            16
  CLUS_2                           7                            14
D13V4, multiclass
        clus
vv       AMP PEAK 13(9Q34.3) MUTATED AMP PEAK 13(9Q34.3) WILD-TYPE
  CLUS_1                           5                            10
  CLUS_2                           2                             5
  CLUS_3                           6                            15
D13V5, multiclass
        clus
vv       AMP PEAK 13(9Q34.3) MUTATED AMP PEAK 13(9Q34.3) WILD-TYPE
  CLUS_1                          17                            72
  CLUS_2                           8                            47
  CLUS_3                          22                            70
D13V6, multiclass
        clus
vv       AMP PEAK 13(9Q34.3) MUTATED AMP PEAK 13(9Q34.3) WILD-TYPE
  CLUS_1                          16                            43
  CLUS_2                          18                            86
  CLUS_3                          13                            60

Clustering(14) Variable = Amp Peak 14(10q26.13) mutation analysis
D14V1, multiclass
        clus
vv       AMP PEAK 14(10Q26.13) MUTATED AMP PEAK 14(10Q26.13) WILD-TYPE
  CLUS_1                             3                              27
  CLUS_2                            32                              67
  CLUS_3                            10                              98
D14V2, multiclass
        clus
vv       AMP PEAK 14(10Q26.13) MUTATED AMP PEAK 14(10Q26.13) WILD-TYPE
  CLUS_1                             1                              26
  CLUS_2                             8                              44
  CLUS_3                             7                              48
  CLUS_4                            17                              38
D14V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  AMP PEAK 14(10Q26.13) MUTATED      5    5
  AMP PEAK 14(10Q26.13) WILD-TYPE   17   16
        clus
vv       AMP PEAK 14(10Q26.13) MUTATED AMP PEAK 14(10Q26.13) WILD-TYPE
  CLUS_1                             5                              17
  CLUS_2                             5                              16
D14V4, multiclass
        clus
vv       AMP PEAK 14(10Q26.13) MUTATED AMP PEAK 14(10Q26.13) WILD-TYPE
  CLUS_1                             3                              12
  CLUS_2                             2                               5
  CLUS_3                             5                              16
D14V5, multiclass
        clus
vv       AMP PEAK 14(10Q26.13) MUTATED AMP PEAK 14(10Q26.13) WILD-TYPE
  CLUS_1                            13                              76
  CLUS_2                            11                              44
  CLUS_3                            20                              72
D14V6, multiclass
        clus
vv       AMP PEAK 14(10Q26.13) MUTATED AMP PEAK 14(10Q26.13) WILD-TYPE
  CLUS_1                            15                              44
  CLUS_2                            16                              88
  CLUS_3                            13                              60

Clustering(15) Variable = Amp Peak 15(11p13) mutation analysis
D15V1, multiclass
        clus
vv       AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  CLUS_1                          5                           25
  CLUS_2                         26                           73
  CLUS_3                          7                          101
D15V2, multiclass
        clus
vv       AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  CLUS_1                          6                           21
  CLUS_2                          6                           46
  CLUS_3                          4                           51
  CLUS_4                         13                           42
D15V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 15(11P13) MUTATED      5    3
  AMP PEAK 15(11P13) WILD-TYPE   17   18
        clus
vv       AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  CLUS_1                          5                           17
  CLUS_2                          3                           18
D15V4, multiclass
        clus
vv       AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  CLUS_1                          2                           13
  CLUS_2                          0                            7
  CLUS_3                          6                           15
D15V5, multiclass
        clus
vv       AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  CLUS_1                         10                           79
  CLUS_2                          9                           46
  CLUS_3                         18                           74
D15V6, multiclass
        clus
vv       AMP PEAK 15(11P13) MUTATED AMP PEAK 15(11P13) WILD-TYPE
  CLUS_1                         15                           44
  CLUS_2                         12                           92
  CLUS_3                         10                           63

Clustering(16) Variable = Amp Peak 16(11q13.3) mutation analysis
D16V1, multiclass
        clus
vv       AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  CLUS_1                            6                             24
  CLUS_2                           34                             65
  CLUS_3                            7                            101
D16V2, multiclass
        clus
vv       AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  CLUS_1                            5                             22
  CLUS_2                            8                             44
  CLUS_3                            5                             50
  CLUS_4                           16                             39
D16V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 16(11Q13.3) MUTATED      6    5
  AMP PEAK 16(11Q13.3) WILD-TYPE   16   16
        clus
vv       AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  CLUS_1                            6                             16
  CLUS_2                            5                             16
D16V4, multiclass
        clus
vv       AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  CLUS_1                            4                             11
  CLUS_2                            0                              7
  CLUS_3                            7                             14
D16V5, multiclass
        clus
vv       AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  CLUS_1                           11                             78
  CLUS_2                            8                             47
  CLUS_3                           27                             65
D16V6, multiclass
        clus
vv       AMP PEAK 16(11Q13.3) MUTATED AMP PEAK 16(11Q13.3) WILD-TYPE
  CLUS_1                           18                             41
  CLUS_2                           18                             86
  CLUS_3                           10                             63

Clustering(17) Variable = Amp Peak 17(12p12.1) mutation analysis
D17V1, multiclass
        clus
vv       AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE
  CLUS_1                            5                             25
  CLUS_2                           38                             61
  CLUS_3                           11                             97
D17V2, multiclass
        clus
vv       AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE
  CLUS_1                            5                             22
  CLUS_2                            7                             45
  CLUS_3                           12                             43
  CLUS_4                           21                             34
D17V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 17(12P12.1) MUTATED      5    2
  AMP PEAK 17(12P12.1) WILD-TYPE   17   19
        clus
vv       AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE
  CLUS_1                            5                             17
  CLUS_2                            2                             19
D17V4, multiclass
        clus
vv       AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE
  CLUS_1                            2                             13
  CLUS_2                            0                              7
  CLUS_3                            5                             16
D17V5, multiclass
        clus
vv       AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE
  CLUS_1                           20                             69
  CLUS_2                            8                             47
  CLUS_3                           26                             66
D17V6, multiclass
        clus
vv       AMP PEAK 17(12P12.1) MUTATED AMP PEAK 17(12P12.1) WILD-TYPE
  CLUS_1                           15                             44
  CLUS_2                           24                             80
  CLUS_3                           15                             58

Clustering(18) Variable = Amp Peak 18(12q15) mutation analysis
D18V1, multiclass
        clus
vv       AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE
  CLUS_1                          3                           27
  CLUS_2                         34                           65
  CLUS_3                         12                           96
D18V2, multiclass
        clus
vv       AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE
  CLUS_1                          7                           20
  CLUS_2                          2                           50
  CLUS_3                         12                           43
  CLUS_4                         16                           39
D18V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 18(12Q15) MUTATED      6    4
  AMP PEAK 18(12Q15) WILD-TYPE   16   17
        clus
vv       AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE
  CLUS_1                          6                           16
  CLUS_2                          4                           17
D18V4, multiclass
        clus
vv       AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE
  CLUS_1                          3                           12
  CLUS_2                          2                            5
  CLUS_3                          5                           16
D18V5, multiclass
        clus
vv       AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE
  CLUS_1                         22                           67
  CLUS_2                          9                           46
  CLUS_3                         18                           74
D18V6, multiclass
        clus
vv       AMP PEAK 18(12Q15) MUTATED AMP PEAK 18(12Q15) WILD-TYPE
  CLUS_1                         14                           45
  CLUS_2                         21                           83
  CLUS_3                         14                           59

Clustering(19) Variable = Amp Peak 19(13q12.3) mutation analysis
D19V1, multiclass
        clus
vv       AMP PEAK 19(13Q12.3) MUTATED AMP PEAK 19(13Q12.3) WILD-TYPE
  CLUS_1                            9                             21
  CLUS_2                           55                             44
  CLUS_3                           17                             91
D19V2, multiclass
        clus
vv       AMP PEAK 19(13Q12.3) MUTATED AMP PEAK 19(13Q12.3) WILD-TYPE
  CLUS_1                            6                             21
  CLUS_2                           11                             41
  CLUS_3                           16                             39
  CLUS_4                           29                             26
D19V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 19(13Q12.3) MUTATED      7   11
  AMP PEAK 19(13Q12.3) WILD-TYPE   15   10
        clus
vv       AMP PEAK 19(13Q12.3) MUTATED AMP PEAK 19(13Q12.3) WILD-TYPE
  CLUS_1                            7                             15
  CLUS_2                           11                             10
D19V4, multiclass
        clus
vv       AMP PEAK 19(13Q12.3) MUTATED AMP PEAK 19(13Q12.3) WILD-TYPE
  CLUS_1                            9                              6
  CLUS_2                            1                              6
  CLUS_3                            8                             13
D19V5, multiclass
        clus
vv       AMP PEAK 19(13Q12.3) MUTATED AMP PEAK 19(13Q12.3) WILD-TYPE
  CLUS_1                           31                             58
  CLUS_2                           15                             40
  CLUS_3                           35                             57
D19V6, multiclass
        clus
vv       AMP PEAK 19(13Q12.3) MUTATED AMP PEAK 19(13Q12.3) WILD-TYPE
  CLUS_1                           26                             33
  CLUS_2                           30                             74
  CLUS_3                           25                             48

Clustering(20) Variable = Amp Peak 20(13q22.1) mutation analysis
D20V1, multiclass
        clus
vv       AMP PEAK 20(13Q22.1) MUTATED AMP PEAK 20(13Q22.1) WILD-TYPE
  CLUS_1                            9                             21
  CLUS_2                           58                             41
  CLUS_3                           21                             87
D20V2, multiclass
        clus
vv       AMP PEAK 20(13Q22.1) MUTATED AMP PEAK 20(13Q22.1) WILD-TYPE
  CLUS_1                            7                             20
  CLUS_2                           11                             41
  CLUS_3                           18                             37
  CLUS_4                           29                             26
D20V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 20(13Q22.1) MUTATED      8   13
  AMP PEAK 20(13Q22.1) WILD-TYPE   14    8
        clus
vv       AMP PEAK 20(13Q22.1) MUTATED AMP PEAK 20(13Q22.1) WILD-TYPE
  CLUS_1                            8                             14
  CLUS_2                           13                              8
D20V4, multiclass
        clus
vv       AMP PEAK 20(13Q22.1) MUTATED AMP PEAK 20(13Q22.1) WILD-TYPE
  CLUS_1                            9                              6
  CLUS_2                            3                              4
  CLUS_3                            9                             12
D20V5, multiclass
        clus
vv       AMP PEAK 20(13Q22.1) MUTATED AMP PEAK 20(13Q22.1) WILD-TYPE
  CLUS_1                           34                             55
  CLUS_2                           16                             39
  CLUS_3                           38                             54
D20V6, multiclass
        clus
vv       AMP PEAK 20(13Q22.1) MUTATED AMP PEAK 20(13Q22.1) WILD-TYPE
  CLUS_1                           34                             25
  CLUS_2                           29                             75
  CLUS_3                           25                             48

Clustering(21) Variable = Amp Peak 21(15q26.1) mutation analysis
D21V1, multiclass
        clus
vv       AMP PEAK 21(15Q26.1) MUTATED AMP PEAK 21(15Q26.1) WILD-TYPE
  CLUS_1                            0                             30
  CLUS_2                           46                             53
  CLUS_3                            6                            102
D21V2, multiclass
        clus
vv       AMP PEAK 21(15Q26.1) MUTATED AMP PEAK 21(15Q26.1) WILD-TYPE
  CLUS_1                            0                             27
  CLUS_2                           11                             41
  CLUS_3                            9                             46
  CLUS_4                           22                             33
D21V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 21(15Q26.1) MUTATED      5    4
  AMP PEAK 21(15Q26.1) WILD-TYPE   17   17
        clus
vv       AMP PEAK 21(15Q26.1) MUTATED AMP PEAK 21(15Q26.1) WILD-TYPE
  CLUS_1                            5                             17
  CLUS_2                            4                             17
D21V4, multiclass
        clus
vv       AMP PEAK 21(15Q26.1) MUTATED AMP PEAK 21(15Q26.1) WILD-TYPE
  CLUS_1                            3                             12
  CLUS_2                            2                              5
  CLUS_3                            4                             17
D21V5, multiclass
        clus
vv       AMP PEAK 21(15Q26.1) MUTATED AMP PEAK 21(15Q26.1) WILD-TYPE
  CLUS_1                           24                             65
  CLUS_2                            5                             50
  CLUS_3                           22                             70
D21V6, multiclass
        clus
vv       AMP PEAK 21(15Q26.1) MUTATED AMP PEAK 21(15Q26.1) WILD-TYPE
  CLUS_1                           21                             38
  CLUS_2                           19                             85
  CLUS_3                           11                             62

Clustering(22) Variable = Amp Peak 22(17q12) mutation analysis
D22V1, multiclass
        clus
vv       AMP PEAK 22(17Q12) MUTATED AMP PEAK 22(17Q12) WILD-TYPE
  CLUS_1                          2                           28
  CLUS_2                         49                           50
  CLUS_3                         10                           98
D22V2, multiclass
        clus
vv       AMP PEAK 22(17Q12) MUTATED AMP PEAK 22(17Q12) WILD-TYPE
  CLUS_1                          6                           21
  CLUS_2                         10                           42
  CLUS_3                         10                           45
  CLUS_4                         22                           33
D22V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 22(17Q12) MUTATED      5    6
  AMP PEAK 22(17Q12) WILD-TYPE   17   15
        clus
vv       AMP PEAK 22(17Q12) MUTATED AMP PEAK 22(17Q12) WILD-TYPE
  CLUS_1                          5                           17
  CLUS_2                          6                           15
D22V4, multiclass
        clus
vv       AMP PEAK 22(17Q12) MUTATED AMP PEAK 22(17Q12) WILD-TYPE
  CLUS_1                          6                            9
  CLUS_2                          0                            7
  CLUS_3                          5                           16
D22V5, multiclass
        clus
vv       AMP PEAK 22(17Q12) MUTATED AMP PEAK 22(17Q12) WILD-TYPE
  CLUS_1                         24                           65
  CLUS_2                          6                           49
  CLUS_3                         30                           62
D22V6, multiclass
        clus
vv       AMP PEAK 22(17Q12) MUTATED AMP PEAK 22(17Q12) WILD-TYPE
  CLUS_1                         25                           34
  CLUS_2                         21                           83
  CLUS_3                         14                           59

Clustering(23) Variable = Amp Peak 23(18q11.2) mutation analysis
D23V1, multiclass
        clus
vv       AMP PEAK 23(18Q11.2) MUTATED AMP PEAK 23(18Q11.2) WILD-TYPE
  CLUS_1                            4                             26
  CLUS_2                           43                             56
  CLUS_3                           14                             94
D23V2, multiclass
        clus
vv       AMP PEAK 23(18Q11.2) MUTATED AMP PEAK 23(18Q11.2) WILD-TYPE
  CLUS_1                            3                             24
  CLUS_2                            7                             45
  CLUS_3                           13                             42
  CLUS_4                           21                             34
D23V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 23(18Q11.2) MUTATED      7    7
  AMP PEAK 23(18Q11.2) WILD-TYPE   15   14
        clus
vv       AMP PEAK 23(18Q11.2) MUTATED AMP PEAK 23(18Q11.2) WILD-TYPE
  CLUS_1                            7                             15
  CLUS_2                            7                             14
D23V4, multiclass
        clus
vv       AMP PEAK 23(18Q11.2) MUTATED AMP PEAK 23(18Q11.2) WILD-TYPE
  CLUS_1                            5                             10
  CLUS_2                            1                              6
  CLUS_3                            8                             13
D23V5, multiclass
        clus
vv       AMP PEAK 23(18Q11.2) MUTATED AMP PEAK 23(18Q11.2) WILD-TYPE
  CLUS_1                           21                             68
  CLUS_2                           11                             44
  CLUS_3                           28                             64
D23V6, multiclass
        clus
vv       AMP PEAK 23(18Q11.2) MUTATED AMP PEAK 23(18Q11.2) WILD-TYPE
  CLUS_1                           20                             39
  CLUS_2                           26                             78
  CLUS_3                           14                             59

Clustering(24) Variable = Amp Peak 24(19q12) mutation analysis
D24V1, multiclass
        clus
vv       AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE
  CLUS_1                          3                           27
  CLUS_2                         47                           52
  CLUS_3                         11                           97
D24V2, multiclass
        clus
vv       AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE
  CLUS_1                          5                           22
  CLUS_2                          7                           45
  CLUS_3                         11                           44
  CLUS_4                         26                           29
D24V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  AMP PEAK 24(19Q12) MUTATED      5    7
  AMP PEAK 24(19Q12) WILD-TYPE   17   14
        clus
vv       AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE
  CLUS_1                          5                           17
  CLUS_2                          7                           14
D24V4, multiclass
        clus
vv       AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE
  CLUS_1                          7                            8
  CLUS_2                          0                            7
  CLUS_3                          5                           16
D24V5, multiclass
        clus
vv       AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE
  CLUS_1                         18                           71
  CLUS_2                          9                           46
  CLUS_3                         33                           59
D24V6, multiclass
        clus
vv       AMP PEAK 24(19Q12) MUTATED AMP PEAK 24(19Q12) WILD-TYPE
  CLUS_1                         29                           30
  CLUS_2                         21                           83
  CLUS_3                         10                           63

Clustering(25) Variable = Amp Peak 25(20q13.2) mutation analysis
D25V1, multiclass
        clus
vv       AMP PEAK 25(20Q13.2) MUTATED AMP PEAK 25(20Q13.2) WILD-TYPE
  CLUS_1                           19                             11
  CLUS_2                           92                              7
  CLUS_3                           36                             72
D25V2, multiclass
        clus
vv       AMP PEAK 25(20Q13.2) MUTATED AMP PEAK 25(20Q13.2) WILD-TYPE
  CLUS_1                           17                             10
  CLUS_2                           25                             27
  CLUS_3                           26                             29
  CLUS_4                           48                              7
D25V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  AMP PEAK 25(20Q13.2) MUTATED     13   14
  AMP PEAK 25(20Q13.2) WILD-TYPE    9    7
        clus
vv       AMP PEAK 25(20Q13.2) MUTATED AMP PEAK 25(20Q13.2) WILD-TYPE
  CLUS_1                           13                              9
  CLUS_2                           14                              7
D25V4, multiclass
        clus
vv       AMP PEAK 25(20Q13.2) MUTATED AMP PEAK 25(20Q13.2) WILD-TYPE
  CLUS_1                           11                              4
  CLUS_2                            2                              5
  CLUS_3                           14                              7
D25V5, multiclass
        clus
vv       AMP PEAK 25(20Q13.2) MUTATED AMP PEAK 25(20Q13.2) WILD-TYPE
  CLUS_1                           54                             35
  CLUS_2                           27                             28
  CLUS_3                           65                             27
D25V6, multiclass
        clus
vv       AMP PEAK 25(20Q13.2) MUTATED AMP PEAK 25(20Q13.2) WILD-TYPE
  CLUS_1                           45                             14
  CLUS_2                           61                             43
  CLUS_3                           40                             33

Clustering(26) Variable = Amp Peak 26(Xq27.3) mutation analysis
D26V1, multiclass
        clus
vv       AMP PEAK 26(XQ27.3) MUTATED AMP PEAK 26(XQ27.3) WILD-TYPE
  CLUS_1                           5                            25
  CLUS_2                          32                            67
  CLUS_3                           6                           102
D26V2, multiclass
        clus
vv       AMP PEAK 26(XQ27.3) MUTATED AMP PEAK 26(XQ27.3) WILD-TYPE
  CLUS_1                           2                            25
  CLUS_2                          13                            39
  CLUS_3                           7                            48
  CLUS_4                          11                            44
D26V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  AMP PEAK 26(XQ27.3) MUTATED      3    5
  AMP PEAK 26(XQ27.3) WILD-TYPE   19   16
        clus
vv       AMP PEAK 26(XQ27.3) MUTATED AMP PEAK 26(XQ27.3) WILD-TYPE
  CLUS_1                           3                            19
  CLUS_2                           5                            16
D26V4, multiclass
        clus
vv       AMP PEAK 26(XQ27.3) MUTATED AMP PEAK 26(XQ27.3) WILD-TYPE
  CLUS_1                           3                            12
  CLUS_2                           2                             5
  CLUS_3                           3                            18
D26V5, multiclass
        clus
vv       AMP PEAK 26(XQ27.3) MUTATED AMP PEAK 26(XQ27.3) WILD-TYPE
  CLUS_1                          18                            71
  CLUS_2                           4                            51
  CLUS_3                          21                            71
D26V6, multiclass
        clus
vv       AMP PEAK 26(XQ27.3) MUTATED AMP PEAK 26(XQ27.3) WILD-TYPE
  CLUS_1                           9                            50
  CLUS_2                          18                            86
  CLUS_3                          16                            57

Clustering(27) Variable = Del Peak  1(1p36.11) mutation analysis
D27V1, multiclass
        clus
vv       DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  CLUS_1                            5                             25
  CLUS_2                           50                             49
  CLUS_3                            8                            100
D27V2, multiclass
        clus
vv       DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  CLUS_1                            2                             25
  CLUS_2                           11                             41
  CLUS_3                           10                             45
  CLUS_4                           22                             33
D27V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  1(1P36.11) MUTATED      7   10
  DEL PEAK  1(1P36.11) WILD-TYPE   15   11
        clus
vv       DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  CLUS_1                            7                             15
  CLUS_2                           10                             11
D27V4, multiclass
        clus
vv       DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  CLUS_1                            6                              9
  CLUS_2                            4                              3
  CLUS_3                            7                             14
D27V5, multiclass
        clus
vv       DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  CLUS_1                           26                             63
  CLUS_2                            8                             47
  CLUS_3                           28                             64
D27V6, multiclass
        clus
vv       DEL PEAK  1(1P36.11) MUTATED DEL PEAK  1(1P36.11) WILD-TYPE
  CLUS_1                           24                             35
  CLUS_2                           25                             79
  CLUS_3                           13                             60

Clustering(28) Variable = Del Peak  2(1p31.1) mutation analysis
D28V1, multiclass
        clus
vv       DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  CLUS_1                           1                            29
  CLUS_2                          33                            66
  CLUS_3                           3                           105
D28V2, multiclass
        clus
vv       DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  CLUS_1                           1                            26
  CLUS_2                           8                            44
  CLUS_3                           8                            47
  CLUS_4                          12                            43
D28V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  2(1P31.1) MUTATED      3    4
  DEL PEAK  2(1P31.1) WILD-TYPE   19   17
        clus
vv       DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  CLUS_1                           3                            19
  CLUS_2                           4                            17
D28V4, multiclass
        clus
vv       DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  CLUS_1                           3                            12
  CLUS_2                           0                             7
  CLUS_3                           4                            17
D28V5, multiclass
        clus
vv       DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  CLUS_1                          14                            75
  CLUS_2                           5                            50
  CLUS_3                          18                            74
D28V6, multiclass
        clus
vv       DEL PEAK  2(1P31.1) MUTATED DEL PEAK  2(1P31.1) WILD-TYPE
  CLUS_1                          16                            43
  CLUS_2                          12                            92
  CLUS_3                           9                            64

Clustering(29) Variable = Del Peak  3(1q44) mutation analysis
D29V1, multiclass
        clus
vv       DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE
  CLUS_1                         1                          29
  CLUS_2                         9                          90
  CLUS_3                         4                         104
D29V2, multiclass
        clus
vv       DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE
  CLUS_1                         2                          25
  CLUS_2                         2                          50
  CLUS_3                         0                          55
  CLUS_4                         4                          51
D29V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK  3(1Q44) MUTATED      2    4
  DEL PEAK  3(1Q44) WILD-TYPE   20   17
        clus
vv       DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE
  CLUS_1                         2                          20
  CLUS_2                         4                          17
D29V4, multiclass
        clus
vv       DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE
  CLUS_1                         3                          12
  CLUS_2                         1                           6
  CLUS_3                         2                          19
D29V5, multiclass
        clus
vv       DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE
  CLUS_1                         8                          81
  CLUS_2                         1                          54
  CLUS_3                         5                          87
D29V6, multiclass
        clus
vv       DEL PEAK  3(1Q44) MUTATED DEL PEAK  3(1Q44) WILD-TYPE
  CLUS_1                         3                          56
  CLUS_2                        10                          94
  CLUS_3                         1                          72

Clustering(30) Variable = Del Peak  4(2q32.1) mutation analysis
D30V1, multiclass
        clus
vv       DEL PEAK  4(2Q32.1) MUTATED DEL PEAK  4(2Q32.1) WILD-TYPE
  CLUS_1                           2                            28
  CLUS_2                          20                            79
  CLUS_3                           6                           102
D30V2, multiclass
        clus
vv       DEL PEAK  4(2Q32.1) MUTATED DEL PEAK  4(2Q32.1) WILD-TYPE
  CLUS_1                           2                            25
  CLUS_2                           5                            47
  CLUS_3                           4                            51
  CLUS_4                           9                            46
D30V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  4(2Q32.1) MUTATED      4    2
  DEL PEAK  4(2Q32.1) WILD-TYPE   18   19
        clus
vv       DEL PEAK  4(2Q32.1) MUTATED DEL PEAK  4(2Q32.1) WILD-TYPE
  CLUS_1                           4                            18
  CLUS_2                           2                            19
D30V4, multiclass
        clus
vv       DEL PEAK  4(2Q32.1) MUTATED DEL PEAK  4(2Q32.1) WILD-TYPE
  CLUS_1                           2                            13
  CLUS_2                           0                             7
  CLUS_3                           4                            17
D30V5, multiclass
        clus
vv       DEL PEAK  4(2Q32.1) MUTATED DEL PEAK  4(2Q32.1) WILD-TYPE
  CLUS_1                           7                            82
  CLUS_2                           9                            46
  CLUS_3                          12                            80
D30V6, multiclass
        clus
vv       DEL PEAK  4(2Q32.1) MUTATED DEL PEAK  4(2Q32.1) WILD-TYPE
  CLUS_1                          12                            47
  CLUS_2                           8                            96
  CLUS_3                           8                            65

Clustering(31) Variable = Del Peak  5(2q33.3) mutation analysis
D31V1, multiclass
        clus
vv       DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE
  CLUS_1                           1                            29
  CLUS_2                          18                            81
  CLUS_3                           4                           104
D31V2, multiclass
        clus
vv       DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE
  CLUS_1                           1                            26
  CLUS_2                           5                            47
  CLUS_3                           5                            50
  CLUS_4                           9                            46
D31V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  5(2Q33.3) MUTATED      2    0
  DEL PEAK  5(2Q33.3) WILD-TYPE   20   21
        clus
vv       DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE
  CLUS_1                           2                            20
  CLUS_2                           0                            21
D31V4, multiclass
[1] "Remove cluster labels:"      "DEL PEAK  5(2Q33.3) MUTATED"
clus
  DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE 
                            2                            41 
                   TCGA-BR-4187                    TCGA-BR-4191 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-BR-4201                    TCGA-BR-4253 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-BR-4255                    TCGA-BR-4256 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-BR-4257                    TCGA-BR-4267 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-BR-4279                    TCGA-BR-4280 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-BR-4292                    TCGA-BR-4294 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-BR-4357                    TCGA-BR-4361 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-BR-4362                    TCGA-BR-4363 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-BR-4366                    TCGA-BR-4367 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-BR-4368                    TCGA-BR-4369 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-BR-4370                    TCGA-BR-4371 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-CG-4301                    TCGA-CG-4304 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-CG-4305                    TCGA-CG-4306 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-CG-4436                    TCGA-CG-4438 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-CG-4440                    TCGA-CG-4442 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-CG-4443                    TCGA-CG-4444 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-CG-4449                    TCGA-CG-4460 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-CG-4465                    TCGA-CG-4466 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-CG-4469                    TCGA-CG-4472 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-CG-4474                    TCGA-CG-4475 
"DEL PEAK  5(2Q33.3) WILD-TYPE" "DEL PEAK  5(2Q33.3) WILD-TYPE" 
                   TCGA-CG-4477 
"DEL PEAK  5(2Q33.3) WILD-TYPE" 
D31V5, multiclass
        clus
vv       DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE
  CLUS_1                           8                            81
  CLUS_2                           4                            51
  CLUS_3                          11                            81
D31V6, multiclass
        clus
vv       DEL PEAK  5(2Q33.3) MUTATED DEL PEAK  5(2Q33.3) WILD-TYPE
  CLUS_1                           9                            50
  CLUS_2                           9                            95
  CLUS_3                           5                            68

Clustering(32) Variable = Del Peak  6(2q37.2) mutation analysis
D32V1, multiclass
        clus
vv       DEL PEAK  6(2Q37.2) MUTATED DEL PEAK  6(2Q37.2) WILD-TYPE
  CLUS_1                           4                            26
  CLUS_2                          25                            74
  CLUS_3                           4                           104
D32V2, multiclass
        clus
vv       DEL PEAK  6(2Q37.2) MUTATED DEL PEAK  6(2Q37.2) WILD-TYPE
  CLUS_1                           1                            26
  CLUS_2                           7                            45
  CLUS_3                           6                            49
  CLUS_4                          14                            41
D32V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  6(2Q37.2) MUTATED      3    1
  DEL PEAK  6(2Q37.2) WILD-TYPE   19   20
        clus
vv       DEL PEAK  6(2Q37.2) MUTATED DEL PEAK  6(2Q37.2) WILD-TYPE
  CLUS_1                           3                            19
  CLUS_2                           1                            20
D32V4, multiclass
        clus
vv       DEL PEAK  6(2Q37.2) MUTATED DEL PEAK  6(2Q37.2) WILD-TYPE
  CLUS_1                           1                            14
  CLUS_2                           0                             7
  CLUS_3                           3                            18
D32V5, multiclass
        clus
vv       DEL PEAK  6(2Q37.2) MUTATED DEL PEAK  6(2Q37.2) WILD-TYPE
  CLUS_1                           9                            80
  CLUS_2                           5                            50
  CLUS_3                          18                            74
D32V6, multiclass
        clus
vv       DEL PEAK  6(2Q37.2) MUTATED DEL PEAK  6(2Q37.2) WILD-TYPE
  CLUS_1                          15                            44
  CLUS_2                          12                            92
  CLUS_3                           5                            68

Clustering(33) Variable = Del Peak  7(3p26.1) mutation analysis
D33V1, multiclass
        clus
vv       DEL PEAK  7(3P26.1) MUTATED DEL PEAK  7(3P26.1) WILD-TYPE
  CLUS_1                           5                            25
  CLUS_2                          44                            55
  CLUS_3                           7                           101
D33V2, multiclass
        clus
vv       DEL PEAK  7(3P26.1) MUTATED DEL PEAK  7(3P26.1) WILD-TYPE
  CLUS_1                           3                            24
  CLUS_2                          10                            42
  CLUS_3                           7                            48
  CLUS_4                          23                            32
D33V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  7(3P26.1) MUTATED      4    7
  DEL PEAK  7(3P26.1) WILD-TYPE   18   14
        clus
vv       DEL PEAK  7(3P26.1) MUTATED DEL PEAK  7(3P26.1) WILD-TYPE
  CLUS_1                           4                            18
  CLUS_2                           7                            14
D33V4, multiclass
        clus
vv       DEL PEAK  7(3P26.1) MUTATED DEL PEAK  7(3P26.1) WILD-TYPE
  CLUS_1                           6                             9
  CLUS_2                           2                             5
  CLUS_3                           3                            18
D33V5, multiclass
        clus
vv       DEL PEAK  7(3P26.1) MUTATED DEL PEAK  7(3P26.1) WILD-TYPE
  CLUS_1                          17                            72
  CLUS_2                           9                            46
  CLUS_3                          30                            62
D33V6, multiclass
        clus
vv       DEL PEAK  7(3P26.1) MUTATED DEL PEAK  7(3P26.1) WILD-TYPE
  CLUS_1                          24                            35
  CLUS_2                          20                            84
  CLUS_3                          12                            61

Clustering(34) Variable = Del Peak  8(3p14.2) mutation analysis
D34V1, multiclass
        clus
vv       DEL PEAK  8(3P14.2) MUTATED DEL PEAK  8(3P14.2) WILD-TYPE
  CLUS_1                           9                            21
  CLUS_2                          52                            47
  CLUS_3                          10                            98
D34V2, multiclass
        clus
vv       DEL PEAK  8(3P14.2) MUTATED DEL PEAK  8(3P14.2) WILD-TYPE
  CLUS_1                           7                            20
  CLUS_2                          14                            38
  CLUS_3                          10                            45
  CLUS_4                          27                            28
D34V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK  8(3P14.2) MUTATED      4    6
  DEL PEAK  8(3P14.2) WILD-TYPE   18   15
        clus
vv       DEL PEAK  8(3P14.2) MUTATED DEL PEAK  8(3P14.2) WILD-TYPE
  CLUS_1                           4                            18
  CLUS_2                           6                            15
D34V4, multiclass
        clus
vv       DEL PEAK  8(3P14.2) MUTATED DEL PEAK  8(3P14.2) WILD-TYPE
  CLUS_1                           6                             9
  CLUS_2                           0                             7
  CLUS_3                           4                            17
D34V5, multiclass
        clus
vv       DEL PEAK  8(3P14.2) MUTATED DEL PEAK  8(3P14.2) WILD-TYPE
  CLUS_1                          26                            63
  CLUS_2                          12                            43
  CLUS_3                          33                            59
D34V6, multiclass
        clus
vv       DEL PEAK  8(3P14.2) MUTATED DEL PEAK  8(3P14.2) WILD-TYPE
  CLUS_1                          26                            33
  CLUS_2                          30                            74
  CLUS_3                          15                            58

Clustering(35) Variable = Del Peak  9(3q26.31) mutation analysis
D35V1, multiclass
        clus
vv       DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE
  CLUS_1                            1                             29
  CLUS_2                           18                             81
  CLUS_3                            1                            107
D35V2, multiclass
        clus
vv       DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE
  CLUS_1                            0                             27
  CLUS_2                            3                             49
  CLUS_3                            2                             53
  CLUS_4                           10                             45
D35V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK  9(3Q26.31) MUTATED      1    3
  DEL PEAK  9(3Q26.31) WILD-TYPE   21   18
        clus
vv       DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE
  CLUS_1                            1                             21
  CLUS_2                            3                             18
D35V4, multiclass
        clus
vv       DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE
  CLUS_1                            3                             12
  CLUS_2                            0                              7
  CLUS_3                            1                             20
D35V5, multiclass
        clus
vv       DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE
  CLUS_1                            4                             85
  CLUS_2                            3                             52
  CLUS_3                           13                             79
D35V6, multiclass
        clus
vv       DEL PEAK  9(3Q26.31) MUTATED DEL PEAK  9(3Q26.31) WILD-TYPE
  CLUS_1                           11                             48
  CLUS_2                            4                            100
  CLUS_3                            5                             68

Clustering(36) Variable = Del Peak 10(4p16.3) mutation analysis
D36V1, multiclass
        clus
vv       DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE
  CLUS_1                           5                            25
  CLUS_2                          57                            42
  CLUS_3                          14                            94
D36V2, multiclass
        clus
vv       DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE
  CLUS_1                           3                            24
  CLUS_2                           9                            43
  CLUS_3                          15                            40
  CLUS_4                          30                            25
D36V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 10(4P16.3) MUTATED      6    9
  DEL PEAK 10(4P16.3) WILD-TYPE   16   12
        clus
vv       DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE
  CLUS_1                           6                            16
  CLUS_2                           9                            12
D36V4, multiclass
        clus
vv       DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE
  CLUS_1                           7                             8
  CLUS_2                           1                             6
  CLUS_3                           7                            14
D36V5, multiclass
        clus
vv       DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE
  CLUS_1                          17                            72
  CLUS_2                          17                            38
  CLUS_3                          41                            51
D36V6, multiclass
        clus
vv       DEL PEAK 10(4P16.3) MUTATED DEL PEAK 10(4P16.3) WILD-TYPE
  CLUS_1                          35                            24
  CLUS_2                          21                            83
  CLUS_3                          19                            54

Clustering(37) Variable = Del Peak 11(4q22.1) mutation analysis
D37V1, multiclass
        clus
vv       DEL PEAK 11(4Q22.1) MUTATED DEL PEAK 11(4Q22.1) WILD-TYPE
  CLUS_1                           6                            24
  CLUS_2                          72                            27
  CLUS_3                          13                            95
D37V2, multiclass
        clus
vv       DEL PEAK 11(4Q22.1) MUTATED DEL PEAK 11(4Q22.1) WILD-TYPE
  CLUS_1                           4                            23
  CLUS_2                          14                            38
  CLUS_3                          17                            38
  CLUS_4                          35                            20
D37V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 11(4Q22.1) MUTATED      7   11
  DEL PEAK 11(4Q22.1) WILD-TYPE   15   10
        clus
vv       DEL PEAK 11(4Q22.1) MUTATED DEL PEAK 11(4Q22.1) WILD-TYPE
  CLUS_1                           7                            15
  CLUS_2                          11                            10
D37V4, multiclass
        clus
vv       DEL PEAK 11(4Q22.1) MUTATED DEL PEAK 11(4Q22.1) WILD-TYPE
  CLUS_1                           8                             7
  CLUS_2                           2                             5
  CLUS_3                           8                            13
D37V5, multiclass
        clus
vv       DEL PEAK 11(4Q22.1) MUTATED DEL PEAK 11(4Q22.1) WILD-TYPE
  CLUS_1                          29                            60
  CLUS_2                          14                            41
  CLUS_3                          47                            45
D37V6, multiclass
        clus
vv       DEL PEAK 11(4Q22.1) MUTATED DEL PEAK 11(4Q22.1) WILD-TYPE
  CLUS_1                          36                            23
  CLUS_2                          31                            73
  CLUS_3                          23                            50

Clustering(38) Variable = Del Peak 12(4q35.1) mutation analysis
D38V1, multiclass
        clus
vv       DEL PEAK 12(4Q35.1) MUTATED DEL PEAK 12(4Q35.1) WILD-TYPE
  CLUS_1                           5                            25
  CLUS_2                          68                            31
  CLUS_3                          14                            94
D38V2, multiclass
        clus
vv       DEL PEAK 12(4Q35.1) MUTATED DEL PEAK 12(4Q35.1) WILD-TYPE
  CLUS_1                           2                            25
  CLUS_2                          15                            37
  CLUS_3                          19                            36
  CLUS_4                          31                            24
D38V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 12(4Q35.1) MUTATED      6   12
  DEL PEAK 12(4Q35.1) WILD-TYPE   16    9
        clus
vv       DEL PEAK 12(4Q35.1) MUTATED DEL PEAK 12(4Q35.1) WILD-TYPE
  CLUS_1                           6                            16
  CLUS_2                          12                             9
D38V4, multiclass
        clus
vv       DEL PEAK 12(4Q35.1) MUTATED DEL PEAK 12(4Q35.1) WILD-TYPE
  CLUS_1                           8                             7
  CLUS_2                           3                             4
  CLUS_3                           7                            14
D38V5, multiclass
        clus
vv       DEL PEAK 12(4Q35.1) MUTATED DEL PEAK 12(4Q35.1) WILD-TYPE
  CLUS_1                          27                            62
  CLUS_2                          15                            40
  CLUS_3                          44                            48
D38V6, multiclass
        clus
vv       DEL PEAK 12(4Q35.1) MUTATED DEL PEAK 12(4Q35.1) WILD-TYPE
  CLUS_1                          35                            24
  CLUS_2                          30                            74
  CLUS_3                          21                            52

Clustering(39) Variable = Del Peak 13(5q11.2) mutation analysis
D39V1, multiclass
        clus
vv       DEL PEAK 13(5Q11.2) MUTATED DEL PEAK 13(5Q11.2) WILD-TYPE
  CLUS_1                           4                            26
  CLUS_2                          60                            39
  CLUS_3                           6                           102
D39V2, multiclass
        clus
vv       DEL PEAK 13(5Q11.2) MUTATED DEL PEAK 13(5Q11.2) WILD-TYPE
  CLUS_1                           1                            26
  CLUS_2                          12                            40
  CLUS_3                           9                            46
  CLUS_4                          34                            21
D39V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 13(5Q11.2) MUTATED      3    9
  DEL PEAK 13(5Q11.2) WILD-TYPE   19   12
        clus
vv       DEL PEAK 13(5Q11.2) MUTATED DEL PEAK 13(5Q11.2) WILD-TYPE
  CLUS_1                           3                            19
  CLUS_2                           9                            12
D39V4, multiclass
        clus
vv       DEL PEAK 13(5Q11.2) MUTATED DEL PEAK 13(5Q11.2) WILD-TYPE
  CLUS_1                           7                             8
  CLUS_2                           1                             6
  CLUS_3                           4                            17
D39V5, multiclass
        clus
vv       DEL PEAK 13(5Q11.2) MUTATED DEL PEAK 13(5Q11.2) WILD-TYPE
  CLUS_1                          24                            65
  CLUS_2                           5                            50
  CLUS_3                          40                            52
D39V6, multiclass
        clus
vv       DEL PEAK 13(5Q11.2) MUTATED DEL PEAK 13(5Q11.2) WILD-TYPE
  CLUS_1                          32                            27
  CLUS_2                          26                            78
  CLUS_3                          11                            62

Clustering(40) Variable = Del Peak 14(6p25.3) mutation analysis
D40V1, multiclass
        clus
vv       DEL PEAK 14(6P25.3) MUTATED DEL PEAK 14(6P25.3) WILD-TYPE
  CLUS_1                           2                            28
  CLUS_2                          37                            62
  CLUS_3                           9                            99
D40V2, multiclass
        clus
vv       DEL PEAK 14(6P25.3) MUTATED DEL PEAK 14(6P25.3) WILD-TYPE
  CLUS_1                           2                            25
  CLUS_2                           9                            43
  CLUS_3                          11                            44
  CLUS_4                          18                            37
D40V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 14(6P25.3) MUTATED      3    4
  DEL PEAK 14(6P25.3) WILD-TYPE   19   17
        clus
vv       DEL PEAK 14(6P25.3) MUTATED DEL PEAK 14(6P25.3) WILD-TYPE
  CLUS_1                           3                            19
  CLUS_2                           4                            17
D40V4, multiclass
        clus
vv       DEL PEAK 14(6P25.3) MUTATED DEL PEAK 14(6P25.3) WILD-TYPE
  CLUS_1                           3                            12
  CLUS_2                           2                             5
  CLUS_3                           2                            19
D40V5, multiclass
        clus
vv       DEL PEAK 14(6P25.3) MUTATED DEL PEAK 14(6P25.3) WILD-TYPE
  CLUS_1                          20                            69
  CLUS_2                           7                            48
  CLUS_3                          21                            71
D40V6, multiclass
        clus
vv       DEL PEAK 14(6P25.3) MUTATED DEL PEAK 14(6P25.3) WILD-TYPE
  CLUS_1                          23                            36
  CLUS_2                          17                            87
  CLUS_3                           8                            65

Clustering(41) Variable = Del Peak 15(6q26) mutation analysis
D41V1, multiclass
        clus
vv       DEL PEAK 15(6Q26) MUTATED DEL PEAK 15(6Q26) WILD-TYPE
  CLUS_1                         4                          26
  CLUS_2                        34                          65
  CLUS_3                         9                          99
D41V2, multiclass
        clus
vv       DEL PEAK 15(6Q26) MUTATED DEL PEAK 15(6Q26) WILD-TYPE
  CLUS_1                         1                          26
  CLUS_2                         7                          45
  CLUS_3                        11                          44
  CLUS_4                        17                          38
D41V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 15(6Q26) MUTATED      6    3
  DEL PEAK 15(6Q26) WILD-TYPE   16   18
        clus
vv       DEL PEAK 15(6Q26) MUTATED DEL PEAK 15(6Q26) WILD-TYPE
  CLUS_1                         6                          16
  CLUS_2                         3                          18
D41V4, multiclass
        clus
vv       DEL PEAK 15(6Q26) MUTATED DEL PEAK 15(6Q26) WILD-TYPE
  CLUS_1                         2                          13
  CLUS_2                         1                           6
  CLUS_3                         6                          15
D41V5, multiclass
        clus
vv       DEL PEAK 15(6Q26) MUTATED DEL PEAK 15(6Q26) WILD-TYPE
  CLUS_1                        22                          67
  CLUS_2                         7                          48
  CLUS_3                        18                          74
D41V6, multiclass
        clus
vv       DEL PEAK 15(6Q26) MUTATED DEL PEAK 15(6Q26) WILD-TYPE
  CLUS_1                        16                          43
  CLUS_2                        21                          83
  CLUS_3                        10                          63

Clustering(42) Variable = Del Peak 16(6q27) mutation analysis
D42V1, multiclass
        clus
vv       DEL PEAK 16(6Q27) MUTATED DEL PEAK 16(6Q27) WILD-TYPE
  CLUS_1                         3                          27
  CLUS_2                        35                          64
  CLUS_3                         9                          99
D42V2, multiclass
        clus
vv       DEL PEAK 16(6Q27) MUTATED DEL PEAK 16(6Q27) WILD-TYPE
  CLUS_1                         1                          26
  CLUS_2                         8                          44
  CLUS_3                        11                          44
  CLUS_4                        18                          37
D42V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 16(6Q27) MUTATED      6    2
  DEL PEAK 16(6Q27) WILD-TYPE   16   19
        clus
vv       DEL PEAK 16(6Q27) MUTATED DEL PEAK 16(6Q27) WILD-TYPE
  CLUS_1                         6                          16
  CLUS_2                         2                          19
D42V4, multiclass
        clus
vv       DEL PEAK 16(6Q27) MUTATED DEL PEAK 16(6Q27) WILD-TYPE
  CLUS_1                         1                          14
  CLUS_2                         1                           6
  CLUS_3                         6                          15
D42V5, multiclass
        clus
vv       DEL PEAK 16(6Q27) MUTATED DEL PEAK 16(6Q27) WILD-TYPE
  CLUS_1                        20                          69
  CLUS_2                         8                          47
  CLUS_3                        19                          73
D42V6, multiclass
        clus
vv       DEL PEAK 16(6Q27) MUTATED DEL PEAK 16(6Q27) WILD-TYPE
  CLUS_1                        18                          41
  CLUS_2                        20                          84
  CLUS_3                         9                          64

Clustering(43) Variable = Del Peak 17(7q31.1) mutation analysis
D43V1, multiclass
        clus
vv       DEL PEAK 17(7Q31.1) MUTATED DEL PEAK 17(7Q31.1) WILD-TYPE
  CLUS_1                           2                            28
  CLUS_2                          22                            77
  CLUS_3                           2                           106
D43V2, multiclass
        clus
vv       DEL PEAK 17(7Q31.1) MUTATED DEL PEAK 17(7Q31.1) WILD-TYPE
  CLUS_1                           1                            26
  CLUS_2                           6                            46
  CLUS_3                           1                            54
  CLUS_4                          10                            45
D43V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 17(7Q31.1) MUTATED      5    2
  DEL PEAK 17(7Q31.1) WILD-TYPE   17   19
        clus
vv       DEL PEAK 17(7Q31.1) MUTATED DEL PEAK 17(7Q31.1) WILD-TYPE
  CLUS_1                           5                            17
  CLUS_2                           2                            19
D43V4, multiclass
        clus
vv       DEL PEAK 17(7Q31.1) MUTATED DEL PEAK 17(7Q31.1) WILD-TYPE
  CLUS_1                           2                            13
  CLUS_2                           0                             7
  CLUS_3                           5                            16
D43V5, multiclass
        clus
vv       DEL PEAK 17(7Q31.1) MUTATED DEL PEAK 17(7Q31.1) WILD-TYPE
  CLUS_1                           5                            84
  CLUS_2                           4                            51
  CLUS_3                          16                            76
D43V6, multiclass
        clus
vv       DEL PEAK 17(7Q31.1) MUTATED DEL PEAK 17(7Q31.1) WILD-TYPE
  CLUS_1                          11                            48
  CLUS_2                           9                            95
  CLUS_3                           5                            68

Clustering(44) Variable = Del Peak 18(7q36.3) mutation analysis
D44V1, multiclass
        clus
vv       DEL PEAK 18(7Q36.3) MUTATED DEL PEAK 18(7Q36.3) WILD-TYPE
  CLUS_1                           3                            27
  CLUS_2                          36                            63
  CLUS_3                           3                           105
D44V2, multiclass
        clus
vv       DEL PEAK 18(7Q36.3) MUTATED DEL PEAK 18(7Q36.3) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                          10                            42
  CLUS_3                           6                            49
  CLUS_4                          17                            38
D44V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 18(7Q36.3) MUTATED      5    3
  DEL PEAK 18(7Q36.3) WILD-TYPE   17   18
        clus
vv       DEL PEAK 18(7Q36.3) MUTATED DEL PEAK 18(7Q36.3) WILD-TYPE
  CLUS_1                           5                            17
  CLUS_2                           3                            18
D44V4, multiclass
        clus
vv       DEL PEAK 18(7Q36.3) MUTATED DEL PEAK 18(7Q36.3) WILD-TYPE
  CLUS_1                           3                            12
  CLUS_2                           0                             7
  CLUS_3                           5                            16
D44V5, multiclass
        clus
vv       DEL PEAK 18(7Q36.3) MUTATED DEL PEAK 18(7Q36.3) WILD-TYPE
  CLUS_1                          14                            75
  CLUS_2                           6                            49
  CLUS_3                          21                            71
D44V6, multiclass
        clus
vv       DEL PEAK 18(7Q36.3) MUTATED DEL PEAK 18(7Q36.3) WILD-TYPE
  CLUS_1                          19                            40
  CLUS_2                          16                            88
  CLUS_3                           6                            67

Clustering(45) Variable = Del Peak 19(8p23.2) mutation analysis
D45V1, multiclass
        clus
vv       DEL PEAK 19(8P23.2) MUTATED DEL PEAK 19(8P23.2) WILD-TYPE
  CLUS_1                           1                            29
  CLUS_2                          48                            51
  CLUS_3                           7                           101
D45V2, multiclass
        clus
vv       DEL PEAK 19(8P23.2) MUTATED DEL PEAK 19(8P23.2) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           9                            43
  CLUS_3                          12                            43
  CLUS_4                          23                            32
D45V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 19(8P23.2) MUTATED      5    7
  DEL PEAK 19(8P23.2) WILD-TYPE   17   14
        clus
vv       DEL PEAK 19(8P23.2) MUTATED DEL PEAK 19(8P23.2) WILD-TYPE
  CLUS_1                           5                            17
  CLUS_2                           7                            14
D45V4, multiclass
        clus
vv       DEL PEAK 19(8P23.2) MUTATED DEL PEAK 19(8P23.2) WILD-TYPE
  CLUS_1                           5                            10
  CLUS_2                           2                             5
  CLUS_3                           5                            16
D45V5, multiclass
        clus
vv       DEL PEAK 19(8P23.2) MUTATED DEL PEAK 19(8P23.2) WILD-TYPE
  CLUS_1                          18                            71
  CLUS_2                           8                            47
  CLUS_3                          29                            63
D45V6, multiclass
        clus
vv       DEL PEAK 19(8P23.2) MUTATED DEL PEAK 19(8P23.2) WILD-TYPE
  CLUS_1                          26                            33
  CLUS_2                          18                            86
  CLUS_3                          11                            62

Clustering(46) Variable = Del Peak 20(9p23) mutation analysis
D46V1, multiclass
        clus
vv       DEL PEAK 20(9P23) MUTATED DEL PEAK 20(9P23) WILD-TYPE
  CLUS_1                        11                          19
  CLUS_2                        66                          33
  CLUS_3                        13                          95
D46V2, multiclass
        clus
vv       DEL PEAK 20(9P23) MUTATED DEL PEAK 20(9P23) WILD-TYPE
  CLUS_1                         7                          20
  CLUS_2                        14                          38
  CLUS_3                        18                          37
  CLUS_4                        32                          23
D46V3, binary
[1] "tbl2"
                             cls
clus                          [,1] [,2]
  DEL PEAK 20(9P23) MUTATED      6   11
  DEL PEAK 20(9P23) WILD-TYPE   16   10
        clus
vv       DEL PEAK 20(9P23) MUTATED DEL PEAK 20(9P23) WILD-TYPE
  CLUS_1                         6                          16
  CLUS_2                        11                          10
D46V4, multiclass
        clus
vv       DEL PEAK 20(9P23) MUTATED DEL PEAK 20(9P23) WILD-TYPE
  CLUS_1                         8                           7
  CLUS_2                         2                           5
  CLUS_3                         7                          14
D46V5, multiclass
        clus
vv       DEL PEAK 20(9P23) MUTATED DEL PEAK 20(9P23) WILD-TYPE
  CLUS_1                        32                          57
  CLUS_2                        14                          41
  CLUS_3                        43                          49
D46V6, multiclass
        clus
vv       DEL PEAK 20(9P23) MUTATED DEL PEAK 20(9P23) WILD-TYPE
  CLUS_1                        31                          28
  CLUS_2                        35                          69
  CLUS_3                        23                          50

Clustering(47) Variable = Del Peak 21(9p21.3) mutation analysis
D47V1, multiclass
        clus
vv       DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE
  CLUS_1                           9                            21
  CLUS_2                          66                            33
  CLUS_3                          13                            95
D47V2, multiclass
        clus
vv       DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE
  CLUS_1                           2                            25
  CLUS_2                          14                            38
  CLUS_3                          16                            39
  CLUS_4                          38                            17
D47V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 21(9P21.3) MUTATED      6   10
  DEL PEAK 21(9P21.3) WILD-TYPE   16   11
        clus
vv       DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE
  CLUS_1                           6                            16
  CLUS_2                          10                            11
D47V4, multiclass
        clus
vv       DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE
  CLUS_1                           6                             9
  CLUS_2                           3                             4
  CLUS_3                           7                            14
D47V5, multiclass
        clus
vv       DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE
  CLUS_1                          28                            61
  CLUS_2                          14                            41
  CLUS_3                          45                            47
D47V6, multiclass
        clus
vv       DEL PEAK 21(9P21.3) MUTATED DEL PEAK 21(9P21.3) WILD-TYPE
  CLUS_1                          33                            26
  CLUS_2                          33                            71
  CLUS_3                          21                            52

Clustering(48) Variable = Del Peak 22(9q21.11) mutation analysis
D48V1, multiclass
        clus
vv       DEL PEAK 22(9Q21.11) MUTATED DEL PEAK 22(9Q21.11) WILD-TYPE
  CLUS_1                            6                             24
  CLUS_2                           39                             60
  CLUS_3                            7                            101
D48V2, multiclass
        clus
vv       DEL PEAK 22(9Q21.11) MUTATED DEL PEAK 22(9Q21.11) WILD-TYPE
  CLUS_1                            2                             25
  CLUS_2                           10                             42
  CLUS_3                           10                             45
  CLUS_4                           21                             34
D48V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 22(9Q21.11) MUTATED      3    4
  DEL PEAK 22(9Q21.11) WILD-TYPE   19   17
        clus
vv       DEL PEAK 22(9Q21.11) MUTATED DEL PEAK 22(9Q21.11) WILD-TYPE
  CLUS_1                            3                             19
  CLUS_2                            4                             17
D48V4, multiclass
        clus
vv       DEL PEAK 22(9Q21.11) MUTATED DEL PEAK 22(9Q21.11) WILD-TYPE
  CLUS_1                            3                             12
  CLUS_2                            0                              7
  CLUS_3                            4                             17
D48V5, multiclass
        clus
vv       DEL PEAK 22(9Q21.11) MUTATED DEL PEAK 22(9Q21.11) WILD-TYPE
  CLUS_1                           14                             75
  CLUS_2                           11                             44
  CLUS_3                           27                             65
D48V6, multiclass
        clus
vv       DEL PEAK 22(9Q21.11) MUTATED DEL PEAK 22(9Q21.11) WILD-TYPE
  CLUS_1                           23                             36
  CLUS_2                           17                             87
  CLUS_3                           12                             61

Clustering(49) Variable = Del Peak 23(10p14) mutation analysis
D49V1, multiclass
        clus
vv       DEL PEAK 23(10P14) MUTATED DEL PEAK 23(10P14) WILD-TYPE
  CLUS_1                          3                           27
  CLUS_2                         28                           71
  CLUS_3                          3                          105
D49V2, multiclass
        clus
vv       DEL PEAK 23(10P14) MUTATED DEL PEAK 23(10P14) WILD-TYPE
  CLUS_1                          0                           27
  CLUS_2                          7                           45
  CLUS_3                          3                           52
  CLUS_4                         14                           41
D49V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 23(10P14) MUTATED      4    5
  DEL PEAK 23(10P14) WILD-TYPE   18   16
        clus
vv       DEL PEAK 23(10P14) MUTATED DEL PEAK 23(10P14) WILD-TYPE
  CLUS_1                          4                           18
  CLUS_2                          5                           16
D49V4, multiclass
        clus
vv       DEL PEAK 23(10P14) MUTATED DEL PEAK 23(10P14) WILD-TYPE
  CLUS_1                          3                           12
  CLUS_2                          2                            5
  CLUS_3                          4                           17
D49V5, multiclass
        clus
vv       DEL PEAK 23(10P14) MUTATED DEL PEAK 23(10P14) WILD-TYPE
  CLUS_1                         14                           75
  CLUS_2                          2                           53
  CLUS_3                         18                           74
D49V6, multiclass
        clus
vv       DEL PEAK 23(10P14) MUTATED DEL PEAK 23(10P14) WILD-TYPE
  CLUS_1                         14                           45
  CLUS_2                         14                           90
  CLUS_3                          6                           67

Clustering(50) Variable = Del Peak 24(10q22.3) mutation analysis
D50V1, multiclass
        clus
vv       DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE
  CLUS_1                            3                             27
  CLUS_2                           29                             70
  CLUS_3                            2                            106
D50V2, multiclass
        clus
vv       DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE
  CLUS_1                            1                             26
  CLUS_2                            6                             46
  CLUS_3                            4                             51
  CLUS_4                           14                             41
D50V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 24(10Q22.3) MUTATED      2    6
  DEL PEAK 24(10Q22.3) WILD-TYPE   20   15
        clus
vv       DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE
  CLUS_1                            2                             20
  CLUS_2                            6                             15
D50V4, multiclass
        clus
vv       DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE
  CLUS_1                            5                             10
  CLUS_2                            0                              7
  CLUS_3                            3                             18
D50V5, multiclass
        clus
vv       DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE
  CLUS_1                           15                             74
  CLUS_2                            2                             53
  CLUS_3                           17                             75
D50V6, multiclass
        clus
vv       DEL PEAK 24(10Q22.3) MUTATED DEL PEAK 24(10Q22.3) WILD-TYPE
  CLUS_1                           15                             44
  CLUS_2                           16                             88
  CLUS_3                            3                             70

Clustering(51) Variable = Del Peak 25(10q23.31) mutation analysis
D51V1, multiclass
        clus
vv       DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE
  CLUS_1                             5                              25
  CLUS_2                            46                              53
  CLUS_3                             3                             105
D51V2, multiclass
        clus
vv       DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE
  CLUS_1                             4                              23
  CLUS_2                             8                              44
  CLUS_3                             6                              49
  CLUS_4                            22                              33
D51V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 25(10Q23.31) MUTATED      2   10
  DEL PEAK 25(10Q23.31) WILD-TYPE   20   11
        clus
vv       DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE
  CLUS_1                             2                              20
  CLUS_2                            10                              11
D51V4, multiclass
        clus
vv       DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE
  CLUS_1                             7                               8
  CLUS_2                             2                               5
  CLUS_3                             3                              18
D51V5, multiclass
        clus
vv       DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE
  CLUS_1                            24                              65
  CLUS_2                             2                              53
  CLUS_3                            28                              64
D51V6, multiclass
        clus
vv       DEL PEAK 25(10Q23.31) MUTATED DEL PEAK 25(10Q23.31) WILD-TYPE
  CLUS_1                            22                              37
  CLUS_2                            27                              77
  CLUS_3                             5                              68

Clustering(52) Variable = Del Peak 26(11p15.5) mutation analysis
D52V1, multiclass
        clus
vv       DEL PEAK 26(11P15.5) MUTATED DEL PEAK 26(11P15.5) WILD-TYPE
  CLUS_1                            1                             29
  CLUS_2                           38                             61
  CLUS_3                            7                            101
D52V2, multiclass
        clus
vv       DEL PEAK 26(11P15.5) MUTATED DEL PEAK 26(11P15.5) WILD-TYPE
  CLUS_1                            0                             27
  CLUS_2                            9                             43
  CLUS_3                            7                             48
  CLUS_4                           16                             39
D52V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 26(11P15.5) MUTATED      6    6
  DEL PEAK 26(11P15.5) WILD-TYPE   16   15
        clus
vv       DEL PEAK 26(11P15.5) MUTATED DEL PEAK 26(11P15.5) WILD-TYPE
  CLUS_1                            6                             16
  CLUS_2                            6                             15
D52V4, multiclass
        clus
vv       DEL PEAK 26(11P15.5) MUTATED DEL PEAK 26(11P15.5) WILD-TYPE
  CLUS_1                            4                             11
  CLUS_2                            2                              5
  CLUS_3                            6                             15
D52V5, multiclass
        clus
vv       DEL PEAK 26(11P15.5) MUTATED DEL PEAK 26(11P15.5) WILD-TYPE
  CLUS_1                           18                             71
  CLUS_2                            6                             49
  CLUS_3                           21                             71
D52V6, multiclass
        clus
vv       DEL PEAK 26(11P15.5) MUTATED DEL PEAK 26(11P15.5) WILD-TYPE
  CLUS_1                           19                             40
  CLUS_2                           19                             85
  CLUS_3                            7                             66

Clustering(53) Variable = Del Peak 27(11q23.2) mutation analysis
D53V1, multiclass
        clus
vv       DEL PEAK 27(11Q23.2) MUTATED DEL PEAK 27(11Q23.2) WILD-TYPE
  CLUS_1                            3                             27
  CLUS_2                           30                             69
  CLUS_3                           10                             98
D53V2, multiclass
        clus
vv       DEL PEAK 27(11Q23.2) MUTATED DEL PEAK 27(11Q23.2) WILD-TYPE
  CLUS_1                            1                             26
  CLUS_2                            3                             49
  CLUS_3                           10                             45
  CLUS_4                           19                             36
D53V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 27(11Q23.2) MUTATED      4    4
  DEL PEAK 27(11Q23.2) WILD-TYPE   18   17
        clus
vv       DEL PEAK 27(11Q23.2) MUTATED DEL PEAK 27(11Q23.2) WILD-TYPE
  CLUS_1                            4                             18
  CLUS_2                            4                             17
D53V4, multiclass
        clus
vv       DEL PEAK 27(11Q23.2) MUTATED DEL PEAK 27(11Q23.2) WILD-TYPE
  CLUS_1                            2                             13
  CLUS_2                            3                              4
  CLUS_3                            3                             18
D53V5, multiclass
        clus
vv       DEL PEAK 27(11Q23.2) MUTATED DEL PEAK 27(11Q23.2) WILD-TYPE
  CLUS_1                           22                             67
  CLUS_2                            5                             50
  CLUS_3                           16                             76
D53V6, multiclass
        clus
vv       DEL PEAK 27(11Q23.2) MUTATED DEL PEAK 27(11Q23.2) WILD-TYPE
  CLUS_1                           14                             45
  CLUS_2                           20                             84
  CLUS_3                            9                             64

Clustering(54) Variable = Del Peak 28(12p13.2) mutation analysis
D54V1, multiclass
        clus
vv       DEL PEAK 28(12P13.2) MUTATED DEL PEAK 28(12P13.2) WILD-TYPE
  CLUS_1                            2                             28
  CLUS_2                           30                             69
  CLUS_3                            2                            106
D54V2, multiclass
        clus
vv       DEL PEAK 28(12P13.2) MUTATED DEL PEAK 28(12P13.2) WILD-TYPE
  CLUS_1                            1                             26
  CLUS_2                            6                             46
  CLUS_3                            5                             50
  CLUS_4                           15                             40
D54V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 28(12P13.2) MUTATED      3    3
  DEL PEAK 28(12P13.2) WILD-TYPE   19   18
        clus
vv       DEL PEAK 28(12P13.2) MUTATED DEL PEAK 28(12P13.2) WILD-TYPE
  CLUS_1                            3                             19
  CLUS_2                            3                             18
D54V4, multiclass
        clus
vv       DEL PEAK 28(12P13.2) MUTATED DEL PEAK 28(12P13.2) WILD-TYPE
  CLUS_1                            2                             13
  CLUS_2                            1                              6
  CLUS_3                            3                             18
D54V5, multiclass
        clus
vv       DEL PEAK 28(12P13.2) MUTATED DEL PEAK 28(12P13.2) WILD-TYPE
  CLUS_1                           12                             77
  CLUS_2                            3                             52
  CLUS_3                           19                             73
D54V6, multiclass
        clus
vv       DEL PEAK 28(12P13.2) MUTATED DEL PEAK 28(12P13.2) WILD-TYPE
  CLUS_1                           12                             47
  CLUS_2                           15                             89
  CLUS_3                            7                             66

Clustering(55) Variable = Del Peak 29(14q21.1) mutation analysis
D55V1, multiclass
        clus
vv       DEL PEAK 29(14Q21.1) MUTATED DEL PEAK 29(14Q21.1) WILD-TYPE
  CLUS_1                            5                             25
  CLUS_2                           37                             62
  CLUS_3                           10                             98
D55V2, multiclass
        clus
vv       DEL PEAK 29(14Q21.1) MUTATED DEL PEAK 29(14Q21.1) WILD-TYPE
  CLUS_1                            5                             22
  CLUS_2                            7                             45
  CLUS_3                           12                             43
  CLUS_4                           18                             37
D55V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 29(14Q21.1) MUTATED      2    6
  DEL PEAK 29(14Q21.1) WILD-TYPE   20   15
        clus
vv       DEL PEAK 29(14Q21.1) MUTATED DEL PEAK 29(14Q21.1) WILD-TYPE
  CLUS_1                            2                             20
  CLUS_2                            6                             15
D55V4, multiclass
        clus
vv       DEL PEAK 29(14Q21.1) MUTATED DEL PEAK 29(14Q21.1) WILD-TYPE
  CLUS_1                            4                             11
  CLUS_2                            1                              6
  CLUS_3                            3                             18
D55V5, multiclass
        clus
vv       DEL PEAK 29(14Q21.1) MUTATED DEL PEAK 29(14Q21.1) WILD-TYPE
  CLUS_1                           13                             76
  CLUS_2                           11                             44
  CLUS_3                           28                             64
D55V6, multiclass
        clus
vv       DEL PEAK 29(14Q21.1) MUTATED DEL PEAK 29(14Q21.1) WILD-TYPE
  CLUS_1                           21                             38
  CLUS_2                           17                             87
  CLUS_3                           14                             59

Clustering(56) Variable = Del Peak 30(14q32.33) mutation analysis
D56V1, multiclass
        clus
vv       DEL PEAK 30(14Q32.33) MUTATED DEL PEAK 30(14Q32.33) WILD-TYPE
  CLUS_1                             6                              24
  CLUS_2                            41                              58
  CLUS_3                            12                              96
D56V2, multiclass
        clus
vv       DEL PEAK 30(14Q32.33) MUTATED DEL PEAK 30(14Q32.33) WILD-TYPE
  CLUS_1                             7                              20
  CLUS_2                             8                              44
  CLUS_3                            13                              42
  CLUS_4                            18                              37
D56V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 30(14Q32.33) MUTATED      3    8
  DEL PEAK 30(14Q32.33) WILD-TYPE   19   13
        clus
vv       DEL PEAK 30(14Q32.33) MUTATED DEL PEAK 30(14Q32.33) WILD-TYPE
  CLUS_1                             3                              19
  CLUS_2                             8                              13
D56V4, multiclass
        clus
vv       DEL PEAK 30(14Q32.33) MUTATED DEL PEAK 30(14Q32.33) WILD-TYPE
  CLUS_1                             4                              11
  CLUS_2                             3                               4
  CLUS_3                             4                              17
D56V5, multiclass
        clus
vv       DEL PEAK 30(14Q32.33) MUTATED DEL PEAK 30(14Q32.33) WILD-TYPE
  CLUS_1                            18                              71
  CLUS_2                            12                              43
  CLUS_3                            28                              64
D56V6, multiclass
        clus
vv       DEL PEAK 30(14Q32.33) MUTATED DEL PEAK 30(14Q32.33) WILD-TYPE
  CLUS_1                            20                              39
  CLUS_2                            23                              81
  CLUS_3                            15                              58

Clustering(57) Variable = Del Peak 31(15q11.2) mutation analysis
D57V1, multiclass
        clus
vv       DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE
  CLUS_1                            3                             27
  CLUS_2                           46                             53
  CLUS_3                            7                            101
D57V2, multiclass
        clus
vv       DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE
  CLUS_1                            4                             23
  CLUS_2                            8                             44
  CLUS_3                            8                             47
  CLUS_4                           26                             29
D57V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 31(15Q11.2) MUTATED      1    8
  DEL PEAK 31(15Q11.2) WILD-TYPE   21   13
        clus
vv       DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE
  CLUS_1                            1                             21
  CLUS_2                            8                             13
D57V4, multiclass
        clus
vv       DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE
  CLUS_1                            7                              8
  CLUS_2                            0                              7
  CLUS_3                            2                             19
D57V5, multiclass
        clus
vv       DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE
  CLUS_1                           18                             71
  CLUS_2                            7                             48
  CLUS_3                           31                             61
D57V6, multiclass
        clus
vv       DEL PEAK 31(15Q11.2) MUTATED DEL PEAK 31(15Q11.2) WILD-TYPE
  CLUS_1                           26                             33
  CLUS_2                           21                             83
  CLUS_3                            9                             64

Clustering(58) Variable = Del Peak 32(15q15.1) mutation analysis
D58V1, multiclass
        clus
vv       DEL PEAK 32(15Q15.1) MUTATED DEL PEAK 32(15Q15.1) WILD-TYPE
  CLUS_1                            4                             26
  CLUS_2                           45                             54
  CLUS_3                            8                            100
D58V2, multiclass
        clus
vv       DEL PEAK 32(15Q15.1) MUTATED DEL PEAK 32(15Q15.1) WILD-TYPE
  CLUS_1                            5                             22
  CLUS_2                            8                             44
  CLUS_3                            7                             48
  CLUS_4                           24                             31
D58V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 32(15Q15.1) MUTATED      3    9
  DEL PEAK 32(15Q15.1) WILD-TYPE   19   12
        clus
vv       DEL PEAK 32(15Q15.1) MUTATED DEL PEAK 32(15Q15.1) WILD-TYPE
  CLUS_1                            3                             19
  CLUS_2                            9                             12
D58V4, multiclass
        clus
vv       DEL PEAK 32(15Q15.1) MUTATED DEL PEAK 32(15Q15.1) WILD-TYPE
  CLUS_1                            7                              8
  CLUS_2                            2                              5
  CLUS_3                            3                             18
D58V5, multiclass
        clus
vv       DEL PEAK 32(15Q15.1) MUTATED DEL PEAK 32(15Q15.1) WILD-TYPE
  CLUS_1                           21                             68
  CLUS_2                            7                             48
  CLUS_3                           29                             63
D58V6, multiclass
        clus
vv       DEL PEAK 32(15Q15.1) MUTATED DEL PEAK 32(15Q15.1) WILD-TYPE
  CLUS_1                           26                             33
  CLUS_2                           23                             81
  CLUS_3                            8                             65

Clustering(59) Variable = Del Peak 33(16p13.3) mutation analysis
D59V1, multiclass
        clus
vv       DEL PEAK 33(16P13.3) MUTATED DEL PEAK 33(16P13.3) WILD-TYPE
  CLUS_1                            3                             27
  CLUS_2                           27                             72
  CLUS_3                            4                            104
D59V2, multiclass
        clus
vv       DEL PEAK 33(16P13.3) MUTATED DEL PEAK 33(16P13.3) WILD-TYPE
  CLUS_1                            1                             26
  CLUS_2                            7                             45
  CLUS_3                            7                             48
  CLUS_4                           11                             44
D59V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 33(16P13.3) MUTATED      4    2
  DEL PEAK 33(16P13.3) WILD-TYPE   18   19
        clus
vv       DEL PEAK 33(16P13.3) MUTATED DEL PEAK 33(16P13.3) WILD-TYPE
  CLUS_1                            4                             18
  CLUS_2                            2                             19
D59V4, multiclass
        clus
vv       DEL PEAK 33(16P13.3) MUTATED DEL PEAK 33(16P13.3) WILD-TYPE
  CLUS_1                            2                             13
  CLUS_2                            0                              7
  CLUS_3                            4                             17
D59V5, multiclass
        clus
vv       DEL PEAK 33(16P13.3) MUTATED DEL PEAK 33(16P13.3) WILD-TYPE
  CLUS_1                            6                             83
  CLUS_2                            6                             49
  CLUS_3                           21                             71
D59V6, multiclass
        clus
vv       DEL PEAK 33(16P13.3) MUTATED DEL PEAK 33(16P13.3) WILD-TYPE
  CLUS_1                           13                             46
  CLUS_2                           11                             93
  CLUS_3                            9                             64

Clustering(60) Variable = Del Peak 34(16q23.1) mutation analysis
D60V1, multiclass
        clus
vv       DEL PEAK 34(16Q23.1) MUTATED DEL PEAK 34(16Q23.1) WILD-TYPE
  CLUS_1                            8                             22
  CLUS_2                           47                             52
  CLUS_3                           19                             89
D60V2, multiclass
        clus
vv       DEL PEAK 34(16Q23.1) MUTATED DEL PEAK 34(16Q23.1) WILD-TYPE
  CLUS_1                            7                             20
  CLUS_2                           13                             39
  CLUS_3                           14                             41
  CLUS_4                           19                             36
D60V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 34(16Q23.1) MUTATED      8   10
  DEL PEAK 34(16Q23.1) WILD-TYPE   14   11
        clus
vv       DEL PEAK 34(16Q23.1) MUTATED DEL PEAK 34(16Q23.1) WILD-TYPE
  CLUS_1                            8                             14
  CLUS_2                           10                             11
D60V4, multiclass
        clus
vv       DEL PEAK 34(16Q23.1) MUTATED DEL PEAK 34(16Q23.1) WILD-TYPE
  CLUS_1                            7                              8
  CLUS_2                            3                              4
  CLUS_3                            8                             13
D60V5, multiclass
        clus
vv       DEL PEAK 34(16Q23.1) MUTATED DEL PEAK 34(16Q23.1) WILD-TYPE
  CLUS_1                           29                             60
  CLUS_2                           14                             41
  CLUS_3                           30                             62
D60V6, multiclass
        clus
vv       DEL PEAK 34(16Q23.1) MUTATED DEL PEAK 34(16Q23.1) WILD-TYPE
  CLUS_1                           24                             35
  CLUS_2                           29                             75
  CLUS_3                           20                             53

Clustering(61) Variable = Del Peak 35(17p12) mutation analysis
D61V1, multiclass
        clus
vv       DEL PEAK 35(17P12) MUTATED DEL PEAK 35(17P12) WILD-TYPE
  CLUS_1                          3                           27
  CLUS_2                         68                           31
  CLUS_3                          8                          100
D61V2, multiclass
        clus
vv       DEL PEAK 35(17P12) MUTATED DEL PEAK 35(17P12) WILD-TYPE
  CLUS_1                          4                           23
  CLUS_2                         14                           38
  CLUS_3                         11                           44
  CLUS_4                         34                           21
D61V3, binary
[1] "tbl2"
                              cls
clus                           [,1] [,2]
  DEL PEAK 35(17P12) MUTATED      5    9
  DEL PEAK 35(17P12) WILD-TYPE   17   12
        clus
vv       DEL PEAK 35(17P12) MUTATED DEL PEAK 35(17P12) WILD-TYPE
  CLUS_1                          5                           17
  CLUS_2                          9                           12
D61V4, multiclass
        clus
vv       DEL PEAK 35(17P12) MUTATED DEL PEAK 35(17P12) WILD-TYPE
  CLUS_1                          6                            9
  CLUS_2                          3                            4
  CLUS_3                          5                           16
D61V5, multiclass
        clus
vv       DEL PEAK 35(17P12) MUTATED DEL PEAK 35(17P12) WILD-TYPE
  CLUS_1                         31                           58
  CLUS_2                          8                           47
  CLUS_3                         39                           53
D61V6, multiclass
        clus
vv       DEL PEAK 35(17P12) MUTATED DEL PEAK 35(17P12) WILD-TYPE
  CLUS_1                         33                           26
  CLUS_2                         32                           72
  CLUS_3                         13                           60

Clustering(62) Variable = Del Peak 36(17q24.3) mutation analysis
D62V1, multiclass
        clus
vv       DEL PEAK 36(17Q24.3) MUTATED DEL PEAK 36(17Q24.3) WILD-TYPE
  CLUS_1                            5                             25
  CLUS_2                           29                             70
  CLUS_3                            2                            106
D62V2, multiclass
        clus
vv       DEL PEAK 36(17Q24.3) MUTATED DEL PEAK 36(17Q24.3) WILD-TYPE
  CLUS_1                            1                             26
  CLUS_2                            8                             44
  CLUS_3                            5                             50
  CLUS_4                           10                             45
D62V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 36(17Q24.3) MUTATED      3    8
  DEL PEAK 36(17Q24.3) WILD-TYPE   19   13
        clus
vv       DEL PEAK 36(17Q24.3) MUTATED DEL PEAK 36(17Q24.3) WILD-TYPE
  CLUS_1                            3                             19
  CLUS_2                            8                             13
D62V4, multiclass
        clus
vv       DEL PEAK 36(17Q24.3) MUTATED DEL PEAK 36(17Q24.3) WILD-TYPE
  CLUS_1                            7                              8
  CLUS_2                            0                              7
  CLUS_3                            4                             17
D62V5, multiclass
        clus
vv       DEL PEAK 36(17Q24.3) MUTATED DEL PEAK 36(17Q24.3) WILD-TYPE
  CLUS_1                           12                             77
  CLUS_2                            3                             52
  CLUS_3                           21                             71
D62V6, multiclass
        clus
vv       DEL PEAK 36(17Q24.3) MUTATED DEL PEAK 36(17Q24.3) WILD-TYPE
  CLUS_1                           17                             42
  CLUS_2                           15                             89
  CLUS_3                            4                             69

Clustering(63) Variable = Del Peak 37(18q21.2) mutation analysis
D63V1, multiclass
        clus
vv       DEL PEAK 37(18Q21.2) MUTATED DEL PEAK 37(18Q21.2) WILD-TYPE
  CLUS_1                            3                             27
  CLUS_2                           70                             29
  CLUS_3                           22                             86
D63V2, multiclass
        clus
vv       DEL PEAK 37(18Q21.2) MUTATED DEL PEAK 37(18Q21.2) WILD-TYPE
  CLUS_1                           10                             17
  CLUS_2                           16                             36
  CLUS_3                           16                             39
  CLUS_4                           31                             24
D63V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 37(18Q21.2) MUTATED     10   11
  DEL PEAK 37(18Q21.2) WILD-TYPE   12   10
        clus
vv       DEL PEAK 37(18Q21.2) MUTATED DEL PEAK 37(18Q21.2) WILD-TYPE
  CLUS_1                           10                             12
  CLUS_2                           11                             10
D63V4, multiclass
        clus
vv       DEL PEAK 37(18Q21.2) MUTATED DEL PEAK 37(18Q21.2) WILD-TYPE
  CLUS_1                           10                              5
  CLUS_2                            2                              5
  CLUS_3                            9                             12
D63V5, multiclass
        clus
vv       DEL PEAK 37(18Q21.2) MUTATED DEL PEAK 37(18Q21.2) WILD-TYPE
  CLUS_1                           36                             53
  CLUS_2                           16                             39
  CLUS_3                           43                             49
D63V6, multiclass
        clus
vv       DEL PEAK 37(18Q21.2) MUTATED DEL PEAK 37(18Q21.2) WILD-TYPE
  CLUS_1                           33                             26
  CLUS_2                           39                             65
  CLUS_3                           23                             50

Clustering(64) Variable = Del Peak 38(18q22.3) mutation analysis
D64V1, multiclass
        clus
vv       DEL PEAK 38(18Q22.3) MUTATED DEL PEAK 38(18Q22.3) WILD-TYPE
  CLUS_1                            2                             28
  CLUS_2                           68                             31
  CLUS_3                           22                             86
D64V2, multiclass
        clus
vv       DEL PEAK 38(18Q22.3) MUTATED DEL PEAK 38(18Q22.3) WILD-TYPE
  CLUS_1                           10                             17
  CLUS_2                           15                             37
  CLUS_3                           15                             40
  CLUS_4                           30                             25
D64V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 38(18Q22.3) MUTATED     10   10
  DEL PEAK 38(18Q22.3) WILD-TYPE   12   11
        clus
vv       DEL PEAK 38(18Q22.3) MUTATED DEL PEAK 38(18Q22.3) WILD-TYPE
  CLUS_1                           10                             12
  CLUS_2                           10                             11
D64V4, multiclass
        clus
vv       DEL PEAK 38(18Q22.3) MUTATED DEL PEAK 38(18Q22.3) WILD-TYPE
  CLUS_1                            8                              7
  CLUS_2                            3                              4
  CLUS_3                            9                             12
D64V5, multiclass
        clus
vv       DEL PEAK 38(18Q22.3) MUTATED DEL PEAK 38(18Q22.3) WILD-TYPE
  CLUS_1                           32                             57
  CLUS_2                           16                             39
  CLUS_3                           43                             49
D64V6, multiclass
        clus
vv       DEL PEAK 38(18Q22.3) MUTATED DEL PEAK 38(18Q22.3) WILD-TYPE
  CLUS_1                           31                             28
  CLUS_2                           37                             67
  CLUS_3                           23                             50

Clustering(65) Variable = Del Peak 39(19p13.3) mutation analysis
D65V1, multiclass
        clus
vv       DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE
  CLUS_1                            2                             28
  CLUS_2                           65                             34
  CLUS_3                            4                            104
D65V2, multiclass
        clus
vv       DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE
  CLUS_1                            1                             26
  CLUS_2                           12                             40
  CLUS_3                            8                             47
  CLUS_4                           33                             22
D65V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 39(19P13.3) MUTATED      6    9
  DEL PEAK 39(19P13.3) WILD-TYPE   16   12
        clus
vv       DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE
  CLUS_1                            6                             16
  CLUS_2                            9                             12
D65V4, multiclass
        clus
vv       DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE
  CLUS_1                            7                              8
  CLUS_2                            1                              6
  CLUS_3                            7                             14
D65V5, multiclass
        clus
vv       DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE
  CLUS_1                           22                             67
  CLUS_2                            7                             48
  CLUS_3                           41                             51
D65V6, multiclass
        clus
vv       DEL PEAK 39(19P13.3) MUTATED DEL PEAK 39(19P13.3) WILD-TYPE
  CLUS_1                           37                             22
  CLUS_2                           23                             81
  CLUS_3                           10                             63

Clustering(66) Variable = Del Peak 40(19q13.11) mutation analysis
D66V1, multiclass
        clus
vv       DEL PEAK 40(19Q13.11) MUTATED DEL PEAK 40(19Q13.11) WILD-TYPE
  CLUS_1                             1                              29
  CLUS_2                            28                              71
  CLUS_3                             1                             107
D66V2, multiclass
        clus
vv       DEL PEAK 40(19Q13.11) MUTATED DEL PEAK 40(19Q13.11) WILD-TYPE
  CLUS_1                             0                              27
  CLUS_2                             6                              46
  CLUS_3                             1                              54
  CLUS_4                            15                              40
D66V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 40(19Q13.11) MUTATED      1    5
  DEL PEAK 40(19Q13.11) WILD-TYPE   21   16
        clus
vv       DEL PEAK 40(19Q13.11) MUTATED DEL PEAK 40(19Q13.11) WILD-TYPE
  CLUS_1                             1                              21
  CLUS_2                             5                              16
D66V4, multiclass
        clus
vv       DEL PEAK 40(19Q13.11) MUTATED DEL PEAK 40(19Q13.11) WILD-TYPE
  CLUS_1                             4                              11
  CLUS_2                             0                               7
  CLUS_3                             2                              19
D66V5, multiclass
        clus
vv       DEL PEAK 40(19Q13.11) MUTATED DEL PEAK 40(19Q13.11) WILD-TYPE
  CLUS_1                            11                              78
  CLUS_2                             1                              54
  CLUS_3                            18                              74
D66V6, multiclass
        clus
vv       DEL PEAK 40(19Q13.11) MUTATED DEL PEAK 40(19Q13.11) WILD-TYPE
  CLUS_1                            18                              41
  CLUS_2                             7                              97
  CLUS_3                             5                              68

Clustering(67) Variable = Del Peak 41(20p12.1) mutation analysis
D67V1, multiclass
        clus
vv       DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE
  CLUS_1                            3                             27
  CLUS_2                           26                             73
  CLUS_3                            4                            104
D67V2, multiclass
        clus
vv       DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE
  CLUS_1                            2                             25
  CLUS_2                            5                             47
  CLUS_3                            2                             53
  CLUS_4                           18                             37
D67V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 41(20P12.1) MUTATED      3    3
  DEL PEAK 41(20P12.1) WILD-TYPE   19   18
        clus
vv       DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE
  CLUS_1                            3                             19
  CLUS_2                            3                             18
D67V4, multiclass
        clus
vv       DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE
  CLUS_1                            3                             12
  CLUS_2                            1                              6
  CLUS_3                            2                             19
D67V5, multiclass
        clus
vv       DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE
  CLUS_1                            7                             82
  CLUS_2                            6                             49
  CLUS_3                           20                             72
D67V6, multiclass
        clus
vv       DEL PEAK 41(20P12.1) MUTATED DEL PEAK 41(20P12.1) WILD-TYPE
  CLUS_1                           15                             44
  CLUS_2                           12                             92
  CLUS_3                            6                             67

Clustering(68) Variable = Del Peak 42(21q11.2) mutation analysis
D68V1, multiclass
        clus
vv       DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE
  CLUS_1                            7                             23
  CLUS_2                           54                             45
  CLUS_3                           12                             96
D68V2, multiclass
        clus
vv       DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE
  CLUS_1                            4                             23
  CLUS_2                           12                             40
  CLUS_3                           14                             41
  CLUS_4                           27                             28
D68V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 42(21Q11.2) MUTATED      5    8
  DEL PEAK 42(21Q11.2) WILD-TYPE   17   13
        clus
vv       DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE
  CLUS_1                            5                             17
  CLUS_2                            8                             13
D68V4, multiclass
        clus
vv       DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE
  CLUS_1                            6                              9
  CLUS_2                            2                              5
  CLUS_3                            5                             16
D68V5, multiclass
        clus
vv       DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE
  CLUS_1                           21                             68
  CLUS_2                           13                             42
  CLUS_3                           39                             53
D68V6, multiclass
        clus
vv       DEL PEAK 42(21Q11.2) MUTATED DEL PEAK 42(21Q11.2) WILD-TYPE
  CLUS_1                           23                             36
  CLUS_2                           31                             73
  CLUS_3                           19                             54

Clustering(69) Variable = Del Peak 43(22q13.31) mutation analysis
D69V1, multiclass
        clus
vv       DEL PEAK 43(22Q13.31) MUTATED DEL PEAK 43(22Q13.31) WILD-TYPE
  CLUS_1                             6                              24
  CLUS_2                            56                              43
  CLUS_3                             8                             100
D69V2, multiclass
        clus
vv       DEL PEAK 43(22Q13.31) MUTATED DEL PEAK 43(22Q13.31) WILD-TYPE
  CLUS_1                             0                              27
  CLUS_2                            14                              38
  CLUS_3                             8                              47
  CLUS_4                            31                              24
D69V3, binary
[1] "tbl2"
                                 cls
clus                              [,1] [,2]
  DEL PEAK 43(22Q13.31) MUTATED      8    8
  DEL PEAK 43(22Q13.31) WILD-TYPE   14   13
        clus
vv       DEL PEAK 43(22Q13.31) MUTATED DEL PEAK 43(22Q13.31) WILD-TYPE
  CLUS_1                             8                              14
  CLUS_2                             8                              13
D69V4, multiclass
        clus
vv       DEL PEAK 43(22Q13.31) MUTATED DEL PEAK 43(22Q13.31) WILD-TYPE
  CLUS_1                             5                              10
  CLUS_2                             3                               4
  CLUS_3                             8                              13
D69V5, multiclass
        clus
vv       DEL PEAK 43(22Q13.31) MUTATED DEL PEAK 43(22Q13.31) WILD-TYPE
  CLUS_1                            24                              65
  CLUS_2                             8                              47
  CLUS_3                            37                              55
D69V6, multiclass
        clus
vv       DEL PEAK 43(22Q13.31) MUTATED DEL PEAK 43(22Q13.31) WILD-TYPE
  CLUS_1                            29                              30
  CLUS_2                            28                              76
  CLUS_3                            12                              61

Clustering(70) Variable = Del Peak 44(Xp22.2) mutation analysis
D70V1, multiclass
        clus
vv       DEL PEAK 44(XP22.2) MUTATED DEL PEAK 44(XP22.2) WILD-TYPE
  CLUS_1                           1                            29
  CLUS_2                          32                            67
  CLUS_3                           5                           103
D70V2, multiclass
        clus
vv       DEL PEAK 44(XP22.2) MUTATED DEL PEAK 44(XP22.2) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           7                            45
  CLUS_3                          10                            45
  CLUS_4                          14                            41
D70V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 44(XP22.2) MUTATED      3    4
  DEL PEAK 44(XP22.2) WILD-TYPE   19   17
        clus
vv       DEL PEAK 44(XP22.2) MUTATED DEL PEAK 44(XP22.2) WILD-TYPE
  CLUS_1                           3                            19
  CLUS_2                           4                            17
D70V4, multiclass
        clus
vv       DEL PEAK 44(XP22.2) MUTATED DEL PEAK 44(XP22.2) WILD-TYPE
  CLUS_1                           2                            13
  CLUS_2                           2                             5
  CLUS_3                           3                            18
D70V5, multiclass
        clus
vv       DEL PEAK 44(XP22.2) MUTATED DEL PEAK 44(XP22.2) WILD-TYPE
  CLUS_1                          16                            73
  CLUS_2                           4                            51
  CLUS_3                          17                            75
D70V6, multiclass
        clus
vv       DEL PEAK 44(XP22.2) MUTATED DEL PEAK 44(XP22.2) WILD-TYPE
  CLUS_1                          17                            42
  CLUS_2                          13                            91
  CLUS_3                           7                            66

Clustering(71) Variable = Del Peak 45(Xp21.1) mutation analysis
D71V1, multiclass
        clus
vv       DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE
  CLUS_1                           0                            30
  CLUS_2                          31                            68
  CLUS_3                           2                           106
D71V2, multiclass
        clus
vv       DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE
  CLUS_1                           0                            27
  CLUS_2                           9                            43
  CLUS_3                           6                            49
  CLUS_4                           9                            46
D71V3, binary
[1] "tbl2"
                               cls
clus                            [,1] [,2]
  DEL PEAK 45(XP21.1) MUTATED      3    6
  DEL PEAK 45(XP21.1) WILD-TYPE   19   15
        clus
vv       DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE
  CLUS_1                           3                            19
  CLUS_2                           6                            15
D71V4, multiclass
        clus
vv       DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE
  CLUS_1                           3                            12
  CLUS_2                           3                             4
  CLUS_3                           3                            18
D71V5, multiclass
        clus
vv       DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE
  CLUS_1                          17                            72
  CLUS_2                           2                            53
  CLUS_3                          13                            79
D71V6, multiclass
        clus
vv       DEL PEAK 45(XP21.1) MUTATED DEL PEAK 45(XP21.1) WILD-TYPE
  CLUS_1                          13                            46
  CLUS_2                          13                            91
  CLUS_3                           6                            67

Clustering(72) Variable = Del Peak 46(Xq21.33) mutation analysis
D72V1, multiclass
        clus
vv       DEL PEAK 46(XQ21.33) MUTATED DEL PEAK 46(XQ21.33) WILD-TYPE
  CLUS_1                            0                             30
  CLUS_2                           26                             73
  CLUS_3                            4                            104
D72V2, multiclass
        clus
vv       DEL PEAK 46(XQ21.33) MUTATED DEL PEAK 46(XQ21.33) WILD-TYPE
  CLUS_1                            1                             26
  CLUS_2                            6                             46
  CLUS_3                            3                             52
  CLUS_4                           11                             44
D72V3, binary
[1] "tbl2"
                                cls
clus                             [,1] [,2]
  DEL PEAK 46(XQ21.33) MUTATED      3    5
  DEL PEAK 46(XQ21.33) WILD-TYPE   19   16
        clus
vv       DEL PEAK 46(XQ21.33) MUTATED DEL PEAK 46(XQ21.33) WILD-TYPE
  CLUS_1                            3                             19
  CLUS_2                            5                             16
D72V4, multiclass
        clus
vv       DEL PEAK 46(XQ21.33) MUTATED DEL PEAK 46(XQ21.33) WILD-TYPE
  CLUS_1                            3                             12
  CLUS_2                            2                              5
  CLUS_3                            3                             18
D72V5, multiclass
        clus
vv       DEL PEAK 46(XQ21.33) MUTATED DEL PEAK 46(XQ21.33) WILD-TYPE
  CLUS_1                           12                             77
  CLUS_2                            2                             53
  CLUS_3                           15                             77
D72V6, multiclass
        clus
vv       DEL PEAK 46(XQ21.33) MUTATED DEL PEAK 46(XQ21.33) WILD-TYPE
  CLUS_1                           14                             45
  CLUS_2                           10                             94
  CLUS_3                            5                             68
                     V1                      V2                      V3 
              "CN_CNMF"      "METHLYATION_CNMF"          "MRNASEQ_CNMF" 
                     V4                      V5                      V6 
"MRNASEQ_CHIERARCHICAL"           "MIRSEQ_CNMF"  "MIRSEQ_CHIERARCHICAL" 
> q(save="no")
